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Gene: Tmc4 (transmembrane channel-like 4) Rattus norvegicus

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Symbol:

Tmc4

Name:

transmembrane channel-like 4

RGD ID:

1304811

Description:

Predicted to enable mechanosensitive monoatomic ion channel activity and voltage-gated chloride channel activity. Predicted to be involved in sensory perception of salty taste. Predicted to be located in plasma membrane. Orthologous to human TMC4 (transmembrane channel like 4); INTERACTS WITH 17alpha-ethynylestradiol; 2,3,7,8-tetrachlorodibenzodioxine; 2,3,7,8-Tetrachlorodibenzofuran.

Type:

protein-coding

RefSeq Status:

VALIDATED

Previously known as:

LOC100909619; LOC308310; MGC124845; Tmc4b; transmembrane channel-like 4B; transmembrane channel-like gene family 4; transmembrane channel-like protein 4; transmembrane channel-like protein 4-like; voltage-gated chloride channel TMC4

RGD Orthologs

Alliance Orthologs

More Info

more info ...

Latest Assembly:

mRatBN7.2 - mRatBN7.2 Assembly

Position:

Rat Assembly	Chr	Position (strand)	Source	Genome Browsers
Rat Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
GRCr8	1	74,455,135 - 74,467,043 (+)	NCBI		GRCr8
mRatBN7.2	1	65,539,777 - 65,551,683 (+)	NCBI	mRatBN7.2	mRatBN7.2
mRatBN7.2 Ensembl	1	65,539,721 - 65,551,677 (+)	Ensembl		mRatBN7.2 Ensembl
UTH_Rnor_SHR_Utx	1	70,987,931 - 70,999,807 (+)	NCBI	Rnor_SHR	UTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.0	1	79,410,873 - 79,422,781 (+)	NCBI	Rnor_SHRSP	UTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.0	1	72,738,241 - 72,749,926 (+)	NCBI	Rnor_WKY	UTH_Rnor_WKY_Bbb_1.0
Rnor_6.0	1	64,114,687 - 64,126,576 (+)	NCBI	Rnor6.0	Rnor_6.0	rn6	Rnor6.0
Rnor_6.0 Ensembl	1	64,046,377 - 64,126,611 (+)	Ensembl	Rnor6.0		rn6	Rnor6.0
Rnor_5.0	1	63,038,642 - 63,074,292 (+)	NCBI	Rnor5.0	Rnor_5.0	rn5	Rnor5.0
RGSC_v3.4	1	63,852,716 - 63,864,605 (+)	NCBI	RGSC3.4	RGSC_v3.4	rn4	RGSC3.4
RGSC_v3.1	1	63,929,490 - 63,941,352 (+)	NCBI
Celera	1	63,264,866 - 63,276,719 (+)	NCBI		Celera
Cytogenetic Map	1	q12	NCBI

JBrowse:

View Region in Genome Browser (JBrowse)

Model

Annotation Click to see Annotation Detail View

Disease Annotations Click to see Annotation Detail View

Intellectual Developmental Disorder with Speech Delay, Autism, and Dysmorphic Facies (ISO)

Gene-Chemical Interaction Annotations Click to see Annotation Detail View

1,2-dichloroethane (ISO)

1,2-dimethylhydrazine (ISO)

17alpha-ethynylestradiol (EXP)

17beta-estradiol (ISO)

2,3,7,8-tetrachlorodibenzodioxine (EXP)

2,3,7,8-Tetrachlorodibenzofuran (EXP)

3-chloropropane-1,2-diol (EXP)

4,4'-sulfonyldiphenol (ISO)

4-hydroxyphenyl retinamide (ISO)

acrylamide (ISO)

aflatoxin B1 (EXP)

alpha-Zearalanol (EXP)

amphetamine (EXP)

aristolochic acid A (ISO)

benzo[a]pyrene (ISO)

benzo[e]pyrene (ISO)

bisphenol A (EXP,ISO)

bisphenol F (ISO)

butanal (ISO)

calcitriol (ISO)

chlordecone (ISO)

choline (ISO)

coumestrol (ISO)

diuron (EXP)

fluoxetine (EXP)

folic acid (ISO)

furan (EXP)

genistein (EXP)

hydrogen peroxide (ISO)

inulin (ISO)

L-methionine (ISO)

lipopolysaccharide (ISO)

maneb (ISO)

methapyrilene (ISO)

methotrexate (ISO)

nickel atom (ISO)

ozone (ISO)

paraquat (ISO)

perfluorohexanesulfonic acid (ISO)

perfluorooctane-1-sulfonic acid (ISO)

perfluorooctanoic acid (EXP)

potassium dichromate (ISO)

progesterone (ISO)

propanal (ISO)

resveratrol (ISO)

S-(1,2-dichlorovinyl)-L-cysteine (ISO)

silicon dioxide (ISO)

silver atom (ISO)

silver(0) (ISO)

sodium arsenite (ISO)

Tesaglitazar (EXP)

testosterone (ISO)

tetraphene (ISO)

tributylstannane (ISO)

triphenyl phosphate (ISO)

triptonide (ISO)

troglitazone (EXP)

valproic acid (ISO)

vinclozolin (EXP)

Gene Ontology Annotations Click to see Annotation Detail View

Biological Process

chloride transmembrane transport (IEA)

sensory perception of salty taste (ISO,ISS)

Cellular Component

plasma membrane (IEA)

Molecular Function

mechanosensitive monoatomic ion channel activity (IBA)

protein binding (ISO)

voltage-gated chloride channel activity (ISO,ISS)

References

References - curated

#	Reference Title	Reference Citation
1.	Phylogenetic-based propagation of functional annotations within the Gene Ontology consortium.	Gaudet P, etal., Brief Bioinform. 2011 Sep;12(5):449-62. doi: 10.1093/bib/bbr042. Epub 2011 Aug 27.
2.	GOA pipeline	RGD automated data pipeline
3.	Data Import for Chemical-Gene Interactions	RGD automated import pipeline for gene-chemical interactions

Additional References at PubMed

PMID:12477932	PMID:23533145

Genomics

Comparative Map Data

Tmc4
(Rattus norvegicus - Norway rat)

Rat Assembly	Chr	Position (strand)	Source	Genome Browsers
Rat Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
GRCr8	1	74,455,135 - 74,467,043 (+)	NCBI		GRCr8
mRatBN7.2	1	65,539,777 - 65,551,683 (+)	NCBI	mRatBN7.2	mRatBN7.2
mRatBN7.2 Ensembl	1	65,539,721 - 65,551,677 (+)	Ensembl		mRatBN7.2 Ensembl
UTH_Rnor_SHR_Utx	1	70,987,931 - 70,999,807 (+)	NCBI	Rnor_SHR	UTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.0	1	79,410,873 - 79,422,781 (+)	NCBI	Rnor_SHRSP	UTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.0	1	72,738,241 - 72,749,926 (+)	NCBI	Rnor_WKY	UTH_Rnor_WKY_Bbb_1.0
Rnor_6.0	1	64,114,687 - 64,126,576 (+)	NCBI	Rnor6.0	Rnor_6.0	rn6	Rnor6.0
Rnor_6.0 Ensembl	1	64,046,377 - 64,126,611 (+)	Ensembl	Rnor6.0		rn6	Rnor6.0
Rnor_5.0	1	63,038,642 - 63,074,292 (+)	NCBI	Rnor5.0	Rnor_5.0	rn5	Rnor5.0
RGSC_v3.4	1	63,852,716 - 63,864,605 (+)	NCBI	RGSC3.4	RGSC_v3.4	rn4	RGSC3.4
RGSC_v3.1	1	63,929,490 - 63,941,352 (+)	NCBI
Celera	1	63,264,866 - 63,276,719 (+)	NCBI		Celera
Cytogenetic Map	1	q12	NCBI

TMC4
(Homo sapiens - human)

Human Assembly	Chr	Position (strand)	Source	Genome Browsers
Human Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
GRCh38	19	54,160,108 - 54,173,160 (-)	NCBI	GRCh38	GRCh38	hg38	GRCh38
GRCh38.p14 Ensembl	19	54,160,108 - 54,173,250 (-)	Ensembl	GRCh38		hg38	GRCh38
GRCh37	19	54,663,846 - 54,676,854 (-)	NCBI	GRCh37	GRCh37	hg19	GRCh37
Build 36	19	59,355,658 - 59,368,664 (-)	NCBI	NCBI36	Build 36	hg18	NCBI36
Build 34	19	59,355,658 - 59,368,664	NCBI
Celera	19	51,705,119 - 51,718,235 (-)	NCBI		Celera
Cytogenetic Map	19	q13.42	NCBI
HuRef	19	50,980,131 - 50,993,068 (-)	NCBI		HuRef
CHM1_1	19	54,665,114 - 54,678,269 (-)	NCBI		CHM1_1
T2T-CHM13v2.0	19	57,240,374 - 57,253,360 (-)	NCBI		T2T-CHM13v2.0

Tmc4
(Mus musculus - house mouse)

Mouse Assembly	Chr	Position (strand)	Source	Genome Browsers
Mouse Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
GRCm39	7	3,668,790 - 3,680,522 (-)	NCBI	GRCm39	GRCm39	mm39
GRCm39 Ensembl	7	3,668,789 - 3,680,552 (-)	Ensembl		GRCm39 Ensembl
GRCm38	7	3,665,754 - 3,677,553 (-)	NCBI	GRCm38	GRCm38	mm10	GRCm38
GRCm38.p6 Ensembl	7	3,665,790 - 3,677,553 (-)	Ensembl	GRCm38		mm10	GRCm38
MGSCv37	7	3,617,356 - 3,629,155 (-)	NCBI	GRCm37	MGSCv37	mm9	NCBIm37
MGSCv36	7	3,268,877 - 3,280,599 (-)	NCBI		MGSCv36	mm8
Celera	7	3,577,673 - 3,589,680 (-)	NCBI		Celera
Cytogenetic Map	7	A1	NCBI
cM Map	7	2.11	NCBI

Tmc4
(Chinchilla lanigera - long-tailed chinchilla)

Chinchilla Assembly	Chr	Position (strand)	Source	Genome Browsers
Chinchilla Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
ChiLan1.0 Ensembl	NW_004955604	99,275 - 108,614 (+)	Ensembl	ChiLan1.0
ChiLan1.0	NW_004955604	99,214 - 106,409 (+)	NCBI	ChiLan1.0	ChiLan1.0

TMC4
(Pan paniscus - bonobo/pygmy chimpanzee)

Bonobo Assembly	Chr	Position (strand)	Source	Genome Browsers
Bonobo Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
NHGRI_mPanPan1-v2	20	60,165,756 - 60,179,433 (-)	NCBI		NHGRI_mPanPan1-v2
NHGRI_mPanPan1	19	62,087,703 - 62,100,931 (-)	NCBI		NHGRI_mPanPan1
Mhudiblu_PPA_v0	19	51,093,724 - 51,107,084 (-)	NCBI	Mhudiblu_PPA_v0	Mhudiblu_PPA_v0	panPan3
PanPan1.1	19	59,935,416 - 59,949,255 (-)	NCBI	panpan1.1	PanPan1.1	panPan2
PanPan1.1 Ensembl	19	59,935,416 - 59,949,266 (-)	Ensembl	panpan1.1		panPan2

TMC4
(Canis lupus familiaris - dog)

Dog Assembly	Chr	Position (strand)	Source	Genome Browsers
Dog Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
CanFam3.1	1	103,040,513 - 103,054,110 (+)	NCBI	CanFam3.1	CanFam3.1	canFam3	CanFam3.1
CanFam3.1 Ensembl	1	103,039,847 - 103,054,113 (+)	Ensembl	CanFam3.1		canFam3	CanFam3.1
Dog10K_Boxer_Tasha	1	103,102,339 - 103,115,932 (+)	NCBI		Dog10K_Boxer_Tasha
ROS_Cfam_1.0	1	103,685,750 - 103,699,499 (+)	NCBI		ROS_Cfam_1.0
ROS_Cfam_1.0 Ensembl	1	103,685,743 - 103,699,502 (+)	Ensembl		ROS_Cfam_1.0 Ensembl
UMICH_Zoey_3.1	1	103,323,921 - 103,337,543 (+)	NCBI		UMICH_Zoey_3.1
UNSW_CanFamBas_1.0	1	103,084,034 - 103,098,975 (+)	NCBI		UNSW_CanFamBas_1.0
UU_Cfam_GSD_1.0	1	103,798,929 - 103,812,701 (+)	NCBI		UU_Cfam_GSD_1.0

Tmc4
(Ictidomys tridecemlineatus - thirteen-lined ground squirrel)

Squirrel Assembly	Chr	Position (strand)	Source	Genome Browsers
Squirrel Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
HiC_Itri_2	NW_024409349	2,652,896 - 2,662,350 (+)	NCBI		HiC_Itri_2
SpeTri2.0	NW_004936994	275,451 - 284,738 (-)	NCBI	SpeTri2.0	SpeTri2.0		SpeTri2.0

TMC4
(Sus scrofa - pig)

Pig Assembly	Chr	Position (strand)	Source	Genome Browsers
Pig Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
Sscrofa11.1 Ensembl	6	55,955,991 - 55,970,280 (+)	Ensembl	Sscrofa11.1		susScr11	Sscrofa11.1
Sscrofa11.1	6	55,955,955 - 55,970,265 (+)	NCBI	Sscrofa11.1	Sscrofa11.1	susScr11	Sscrofa11.1
Sscrofa10.2	6	53,248,536 - 53,263,194 (-)	NCBI	Sscrofa10.2	Sscrofa10.2	susScr3

LOC103235243
(Chlorocebus sabaeus - green monkey)

Green Monkey Assembly	Chr	Position (strand)	Source	Genome Browsers
Green Monkey Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
ChlSab1.1	6	46,840,997 - 46,844,149 (-)	NCBI	ChlSab1.1	ChlSab1.1	chlSab2
Vero_WHO_p1.0	NW_023670981	422 - 1,667 (-)	NCBI	Vero_WHO_p1.0	Vero_WHO_p1.0

Tmc4
(Heterocephalus glaber - naked mole-rat)

Naked Mole-Rat Assembly	Chr	Position (strand)	Source	Genome Browsers
Naked Mole-Rat Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
HetGla_female_1.0 Ensembl	NW_004624832	2,417,850 - 2,425,035 (+)	Ensembl	HetGla_female_1.0	HetGla_female_1.0 Ensembl	hetGla2
HetGla 1.0	NW_004624832	2,417,727 - 2,425,209 (+)	NCBI	HetGla_female_1.0	HetGla 1.0	hetGla2

Variants

Variants in Tmc4
175 total Variants

miRNA Target Status

Predicted Target Of

	Summary Value
Count of predictions:	96
Count of miRNA genes:	78
Interacting mature miRNAs:	81
Transcripts:	ENSRNOT00000017074
Prediction methods:	Microtar, Miranda, Rnahybrid
Result types:	miRGate_prediction

The detailed report is available here: Full Report CSV TAB Printer

miRNA Target Status data imported from miRGate (http://mirgate.bioinfo.cnio.es/).
For more information about miRGate, see PMID:25858286 or access the full paper here.

QTLs in Region (mRatBN7.2)

The following QTLs overlap with this region.

RGD ID	Symbol	Name	LOD	P Value	Trait	Sub Trait	Chr	Start	Stop	Species
1331732	Srn4	Serum renin concentration QTL 4	4.467		renin activity (VT:0005581)	plasma renin activity level (CMO:0000116)	1	35239598	78430678	Rat
2313059	Bss55	Bone structure and strength QTL 55	3.2	0.0001	tibia size trait (VT:0100001)	tibia midshaft cross-sectional area (CMO:0001717)	1	43284731	118944897	Rat
631688	Hcas2	Hepatocarcinoma susceptibility QTL 2	3	0.0001	liver integrity trait (VT:0010547)	liver tumorous lesion number (CMO:0001068)	1	5925874	115540829	Rat
1578649	Bmd8	Bone mineral density QTL 8	4.9		femur mineral mass (VT:0010011)	trabecular volumetric bone mineral density (CMO:0001729)	1	49393172	94393172	Rat
1358359	Sradr1	Stress Responsive Adrenal Weight QTL 1	4.74		adrenal gland mass (VT:0010420)	both adrenal glands wet weight (CMO:0000164)	1	30882023	123479925	Rat
634314	Niddm44	Non-insulin dependent diabetes mellitus QTL 44			blood glucose amount (VT:0000188)	blood glucose level (CMO:0000046)	1	49393289	199050459	Rat
4889929	Bss87	Bone structure and strength QTL 87	6.7		tibia area (VT:1000281)	tibia-fibula cortical bone endosteal cross-sectional area (CMO:0001722)	1	53895117	82174945	Rat
1331792	Rf29	Renal function QTL 29	4.589		urine potassium amount (VT:0010539)	urine potassium level (CMO:0000128)	1	35239598	78430678	Rat
2313062	Bmd73	Bone mineral density QTL 73	3.9	0.0001	tibia mineral mass (VT:1000283)	compact volumetric bone mineral density (CMO:0001730)	1	11481312	82174945	Rat
8552900	Pigfal1	Plasma insulin-like growth factor 1 level QTL 1	7.4		blood insulin-like growth factor amount (VT:0010479)	plasma insulin-like growth factor 1 level (CMO:0001299)	1	34836858	79836858	Rat
1578654	Bss10	Bone structure and strength QTL 10	4		femur morphology trait (VT:0000559)	femoral neck cortical cross-sectional area (CMO:0001702)	1	49393172	159356837	Rat
1554320	Bmd1	Bone mineral density QTL 1	12.2	0.0001	femur mineral mass (VT:0010011)	volumetric bone mineral density (CMO:0001553)	1	509108	86060548	Rat
1354643	Foco2	Food consumption QTL 2	7.17	0.0001	eating behavior trait (VT:0001431)	food intake rate (CMO:0000427)	1	33449848	78449848	Rat
2302059	Pia36	Pristane induced arthritis QTL 36	3.8	0.001	blood immunoglobulin amount (VT:0002460)	serum immunoglobulin G1 level (CMO:0002115)	1	43333002	88333002	Rat
2313065	Bss67	Bone structure and strength QTL 67	3.1	0.0001	tibia area (VT:1000281)	tibia total energy absorbed before break (CMO:0001736)	1	11481312	82174945	Rat
1357400	Bw62	Body weight QTL62	4.05		inguinal fat pad mass (VT:0010424)	inguinal fat pad weight to body weight ratio (CMO:0001253)	1	22340647	67340647	Rat
2313069	Bss68	Bone structure and strength QTL 68	2.9	0.0001	tibia size trait (VT:0100001)	tibia total energy absorbed before break (CMO:0001736)	1	11481312	82174945	Rat
631495	Bp96	Blood pressure QTL 96	4.52		arterial blood pressure trait (VT:2000000)	systolic blood pressure (CMO:0000004)	1	22340647	102268831	Rat
2313075	Bss66	Bone structure and strength QTL 66	3.4	0.0001	tibia length (VT:0004357)	tibia length (CMO:0000450)	1	11481312	82174945	Rat
70225	Bp58	Blood pressure QTL 58	3.3		arterial blood pressure trait (VT:2000000)	systolic blood pressure (CMO:0000004)	1	32356093	162846471	Rat
2298545	Neuinf8	Neuroinflammation QTL 8	4.6		nervous system integrity trait (VT:0010566)	spinal cord beta-2 microglobulin mRNA level (CMO:0002125)	1	57336763	151090257	Rat
2313072	Bss53	Bone structure and strength QTL 53	4.3	0.0001	tibia length (VT:0004357)	tibia length (CMO:0000450)	1	43284731	118944897	Rat
1300167	Hrtrt2	Heart rate QTL 2	4.35		heart pumping trait (VT:2000009)	heart rate (CMO:0000002)	1	11481312	75088344	Rat
10059597	Bp377	Blood pressure QTL 377	3.42	0.025	arterial blood pressure trait (VT:2000000)	systolic blood pressure (CMO:0000004)	1	32737458	199368955	Rat
2313078	Bss54	Bone structure and strength QTL 54	3.5	0.0001	tibia area (VT:1000281)	tibia midshaft cross-sectional area (CMO:0001717)	1	43284731	118944897	Rat
2313077	Bss69	Bone structure and strength QTL 69	3.5	0.0001	tibia strength trait (VT:1000284)	bone polar moment of inertia (CMO:0001558)	1	11481312	82174945	Rat
1331778	Rf28	Renal function QTL 28	4.66		urine potassium amount (VT:0010539)	urine potassium excretion rate (CMO:0000761)	1	45803140	78430678	Rat
2313402	Anxrr24	Anxiety related response QTL 24			aggression-related behavior trait (VT:0015014)	tameness/aggressiveness composite score (CMO:0002136)	1	48963584	144267916	Rat
1331785	Rf27	Renal function QTL 27	4.643		urine sodium amount (VT:0006274)	urine sodium level (CMO:0000129)	1	28879780	78430678	Rat
61342	Bp27	Blood pressure QTL 27	3.4	0.0006	arterial blood pressure trait (VT:2000000)	systolic blood pressure (CMO:0000004)	1	56732668	98773277	Rat
1300172	Bp172	Blood pressure QTL 172	3.56		arterial blood pressure trait (VT:2000000)	diastolic blood pressure (CMO:0000005)	1	32737273	90665040	Rat
4889962	Bss94	Bone structure and strength QTL 94	3.8		tibia area (VT:1000281)	tibia-fibula cortical bone endosteal cross-sectional area (CMO:0001722)	1	49361465	82174945	Rat
724520	Bp145	Blood pressure QTL 145	2.1	0.0024	arterial blood pressure trait (VT:2000000)	systolic blood pressure (CMO:0000004)	1	20784828	65784828	Rat
2313094	Bss58	Bone structure and strength QTL 58	3.7	0.0001	tibia strength trait (VT:1000284)	tibia total energy absorbed before break (CMO:0001736)	1	43284731	118944897	Rat
6903308	Scl36	Serum cholesterol QTL 36	2	0.0125	blood cholesterol amount (VT:0000180)	plasma total cholesterol level (CMO:0000585)	1	53863041	90532583	Rat
2313092	Bmd72	Bone mineral density QTL 72	2.5	0.0001	tibia mineral mass (VT:1000283)	total volumetric bone mineral density (CMO:0001728)	1	11481312	82174945	Rat
2300164	Bmd44	Bone mineral density QTL 44	5.4	0.0001	lumbar vertebra mineral mass (VT:0010511)	volumetric bone mineral density (CMO:0001553)	1	56949932	101949932	Rat
2313099	Bss56	Bone structure and strength QTL 56	2.4	0.0001	tibia size trait (VT:0100001)	tibia midshaft endosteal cross-sectional area (CMO:0001716)	1	43284731	118944897	Rat
2313098	Bmd70	Bone mineral density QTL 70	3.6	0.0001	tibia mineral mass (VT:1000283)	compact volumetric bone mineral density (CMO:0001730)	1	43284731	118944897	Rat
2313097	Bss70	Bone structure and strength QTL 70	3.5	0.0001	tibia strength trait (VT:1000284)	tibia total energy absorbed before break (CMO:0001736)	1	11481312	82174945	Rat
9589820	Insglur3	Insulin/glucose ratio QTL 3	10.75	0.001	blood insulin amount (VT:0001560)	calculated plasma insulin level (CMO:0002170)	1	34836858	79836858	Rat
152025249	Scl82	Serum cholesterol level QTL 82	4.77		blood cholesterol amount (VT:0000180)		1	50343510	99980958	Rat
738020	Pia8	Pristane induced arthritis QTL 8	4.7		joint integrity trait (VT:0010548)	joint inflammation composite score (CMO:0000919)	1	1	65833076	Rat
1354599	Bw29	Body weight QTL 29	3.46	0.001	body mass (VT:0001259)	body weight (CMO:0000012)	1	33449848	78449848	Rat
4889919	Bss86	Bone structure and strength QTL 86	4.1		tibia area (VT:1000281)	tibia midshaft total cross-sectional area (CMO:0001715)	1	53895117	82174945	Rat
8552948	Pigfal11	Plasma insulin-like growth factor 1 level QTL 11	4.7		blood insulin-like growth factor amount (VT:0010479)	plasma insulin-like growth factor 1 level (CMO:0001299)	1	34836858	79836858	Rat
2313051	Bss57	Bone structure and strength QTL 57	3.7	0.0001	tibia strength trait (VT:1000284)	bone polar moment of inertia (CMO:0001558)	1	43284731	118944897	Rat

Markers in Region

RH132704

Rat Assembly	Chr	Position (strand)	Source	JBrowse
GRCr8	1	74,465,865 - 74,466,707 (+)	Marker Load Pipeline
mRatBN7.2	1	65,550,505 - 65,551,347 (+)	MAPPER	mRatBN7.2
Rnor_6.0	1	64,125,405 - 64,126,246	NCBI	Rnor6.0
Rnor_5.0	1	63,117,687 - 63,118,528	UniSTS	Rnor5.0
RGSC_v3.4	1	63,863,434 - 63,864,275	UniSTS	RGSC3.4
Celera	1	63,275,548 - 63,276,389	UniSTS
RH 3.4 Map	1	741.5	UniSTS
Cytogenetic Map	1	q12	UniSTS

RH132676

Rat Assembly	Chr	Position (strand)	Source	JBrowse
GRCr8	1	74,421,822 - 74,422,015 (+)	Marker Load Pipeline
mRatBN7.2	1	65,506,461 - 65,506,654 (+)	MAPPER	mRatBN7.2
Rnor_6.0	1	64,081,364 - 64,081,556	NCBI	Rnor6.0
Rnor_6.0	1	64,013,064 - 64,013,256	NCBI	Rnor6.0
Rnor_5.0	1	63,005,319 - 63,005,511	UniSTS	Rnor5.0
Rnor_5.0	1	63,073,644 - 63,073,836	UniSTS	Rnor5.0
RGSC_v3.4	1	63,819,393 - 63,819,585	UniSTS	RGSC3.4
Celera	1	63,231,568 - 63,231,760	UniSTS
RH 3.4 Map	5	804.4	UniSTS
Cytogenetic Map	1	q12	UniSTS

Expression

RNA-SEQ Expression

Click on a value in the shaded box below the category label to view a detailed expression data table for that system.

Download All Expressed Objects for this Gene

alimentary part of gastrointestinal system	appendage	circulatory system	ectoderm	endocrine system	endoderm	exocrine system	hemolymphoid system	hepatobiliary system	integumental system	mesenchyme	mesoderm	nervous system	renal system	reproductive system	respiratory system
9	2	25	103	78	84	53	23	53	6	170	61	90	45	59	31

Sequence

Nucleotide Sequences


RefSeq Transcripts	NM_001034104	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
GenBank Nucleotide	AC103574	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
	AC126217	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
	BC100657	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
	CH474101	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
	JAXUCZ010000001	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles

Ensembl Acc Id:

ENSRNOT00000080466 ⟹ ENSRNOP00000072396

Type:

CODING

Position:

Rat Assembly	Chr	Position (strand)	Source
Rnor_6.0 Ensembl	1	64,114,721 - 64,126,415 (+)	Ensembl

Ensembl Acc Id:

ENSRNOT00000085010 ⟹ ENSRNOP00000074156

Type:

CODING

Position:

Rat Assembly	Chr	Position (strand)	Source
mRatBN7.2 Ensembl	1	65,539,721 - 65,551,677 (+)	Ensembl
Rnor_6.0 Ensembl	1	64,046,377 - 64,126,611 (+)	Ensembl

RefSeq Acc Id:

NM_001034104 ⟹ NP_001029276

RefSeq Status:

VALIDATED

Type:

CODING

Position:

Rat Assembly	Chr	Position (strand)	Source
GRCr8	1	74,455,135 - 74,467,043 (+)	NCBI
mRatBN7.2	1	65,539,777 - 65,551,683 (+)	NCBI
Rnor_6.0	1	64,114,687 - 64,126,576 (+)	NCBI
Rnor_5.0	1	63,038,642 - 63,074,292 (+)	NCBI
RGSC_v3.4	1	63,852,716 - 63,864,605 (+)	RGD
Celera	1	63,264,866 - 63,276,719 (+)	RGD

Sequence:

show sequence

CAACGGGTGCAGAAAGTACAGTCCATCCACAAACATGGAAGAAAGTCCCAGGGAAGCCTGGGCC
CAATTCCCGGCCTGGTCTAGTTCCCGGAAAGCCAGAACAGGCCCATCACTGGCGTCTGTGCTGA
ATGACCTCCCGAGTGCTGCTACGCTTCGATACCGTGGCCCTGGTGTGCTCCCTTGGGGGACACT
GGATGAAAATGATGATGAAGGAAGAAGCCTTCAGGCCTTTGCAGAGACTGCCCAAATGGAATCT
CAGCCTTCCCGGGAACTTCCCTGGCCTATGCAAGCAAGGCGGGCACACAGGAAGAGCCAGGCTA
GAGAGCAGGTGGCTTCTGGCTCTGAATCGAGGGCTGCCTACTGGACCCAACAGCTTTCCAGAAC
CAAGGGGAAAATGAAAGAAGGCTTTCAAACTATACAGCCCTGGGCATGGACACTGAAGAAAATT
GGGGGCCAGTTTGGAGCAGGCACTGAGTCCTACTTCTCTCTGCTGCGCTTCCTGCTCTTTCTCA
ACCTGGGGGCATCTGTAATTGAAGTCTGCATGAAGCTGATCCCCACCTGGTTGGAAGGGGCTCC
TCCAGGTCCACCTGGCCCTAACATCTCCTCACCTTGTGGTTCCTATATTCCCCACACTCAAGGC
CTGGTCACCTTCCCCACCCAGCTCTTCAACTTGCTCTCTGGAGAGGGTTACCTAGAGTGGTCCC
CTCTGTTCTATGGGTTCTACCCACCCCGATCGAACCTGGCCATCACCTATCTGTGCTCCGTCTT
TGCCATCGGCCTCATCTACTTGCTATTCATCCTACACCGTTCGGTGTCCGGGTTGAAAGAGACA
CTGTTGGCTGAGTCAGATGTTCTGACCAGCTACAGTCATCGAGTGTTCTCAGCTTGGAATTTTG
GCCTCTGCGGGGACATGCACGTGCGGCTGCGGCAGCGCATCATTTTGTATGAACTGCAGGTGGA
CCTAGAGGAAGCAGCAGTCCGGCGCCGTGCTACGGAGCAGACGCTGGGCCAACGAGTCAAGGTG
TGGTCGATGAGGGCGCTGCTCAACTTGCTAGTCCTCGCGCTCCTGGGGGCTGCCTTCTATGGCA
TCTACTGGGCCACAGAGTACACCGTGACACTGCAGGAGACACCAGTTGTCCAACAGACCCCACT
ACTCAAGCTTCTGGTGAATTATCTTCCATCTATCTTCATTTCCGTGTTCAACTTTGTGCTGCCT
CCTGCGTTCACGTTCATTGCCTCACTAGAGGGCTACACTCACAGCCGTCAGATCGTCTTGATCC
TGCTTAGGACTGTGTTTTTGCGTCTGGCCTCCCTGGTGTTTCTTCTGTTCTCTCTGTGGAATCA
GATCACGTGTGGAGGAAACATGGAGGCAGAAGAATGCAAGGCTTGTGGCTACAATTACAAAGAA
ATTCCGTGCTGGGAGACTCGACTGGGCCAGGAGATGTACAAACTTGTGCTCTTTGATCTGCTGA
TGGGCCTGTTGGTCACGCTGTTGATCCAGTTTCCTAGGAAGATACTCTGTGGCCTCTGTCCTGG
GGCATTGGGTCGTCTGTCGGGAACTCTGGAGTTCCAGGTGCCCGATGAAGTGCTGGGACTCATC
TATGCTCAGACCGTGGTCTGGGTGGGAAGCTTTTTCTGCCCTTTACTACCTTTGATCAACACCG
CCAAGTTCCTCATACTTTTTTGGCTGAAGAAGATAACACTCTTCTCCATCTACTCACCGGCTTC
CCGAACCTTCCGAGCATCCACAGCAAATTTCTTTTTCCCCCTGGTACTCCTTGTGGGTCTGGCA
ATCTCTGCTGTCCCTGTGCTTTACAGTATCTTCCTGATCCCACCTTCTAAGCTGTGTGGTCCAT
TCCAAGGGAAGTTGTCCATTTGGGCCCAGATCCCTGAGTCCATTGAGAGCCTCCCTCAGACTGC
CCAGAATTTTCTCTACTTTCTGGGAACCCAGGCTTTTACTGTACCCCTTCTGATCGTCTCTAGC
ATCCTGATGATGTATACAGTAGCCCTGGCTAACTGTTATGGACGCCTCATCTCTGAGCTCAAAC
GCCAGATAGAGACGGAAGTACAAAATAAAGTCTTCCTAGCCCAGCGAGCTGTAGCTCTGAGCTC
AAGGAATGGAGTTTCCTGATTAGTCTGGCTGGACCTTCAGCCCCTCACACCCATCATAAACTTC
ATTGACTTCATATACCAAGCAGTGGGGCCCTCTCATCTCTGGAATCAAACCCCACGCCTTCTGC
CACCGAATGACACACTCTCAATTGAACCATGTTAATAAACAATAGCCAAGTCAAAAAAAAAAAA
AAA

hide sequence

Protein Sequences


Protein RefSeqs	NP_001029276	(Get FASTA)	NCBI Sequence Viewer
GenBank Protein	AAI00658	(Get FASTA)	NCBI Sequence Viewer
	EDL84930	(Get FASTA)	NCBI Sequence Viewer
Ensembl Protein	ENSRNOP00000074156.2
GenBank Protein	Q496Z4	(Get FASTA)	NCBI Sequence Viewer

RefSeq Acc Id:

NP_001029276 ⟸ NM_001034104

- UniProtKB:

Q496Z4 (UniProtKB/Swiss-Prot)

- Sequence:

show sequence

MEESPREAWAQFPAWSSSRKARTGPSLASVLNDLPSAATLRYRGPGVLPWGTLDENDDEGRSLQ
AFAETAQMESQPSRELPWPMQARRAHRKSQAREQVASGSESRAAYWTQQLSRTKGKMKEGFQTI
QPWAWTLKKIGGQFGAGTESYFSLLRFLLFLNLGASVIEVCMKLIPTWLEGAPPGPPGPNISSP
CGSYIPHTQGLVTFPTQLFNLLSGEGYLEWSPLFYGFYPPRSNLAITYLCSVFAIGLIYLLFIL
HRSVSGLKETLLAESDVLTSYSHRVFSAWNFGLCGDMHVRLRQRIILYELQVDLEEAAVRRRAT
EQTLGQRVKVWSMRALLNLLVLALLGAAFYGIYWATEYTVTLQETPVVQQTPLLKLLVNYLPSI
FISVFNFVLPPAFTFIASLEGYTHSRQIVLILLRTVFLRLASLVFLLFSLWNQITCGGNMEAEE
CKACGYNYKEIPCWETRLGQEMYKLVLFDLLMGLLVTLLIQFPRKILCGLCPGALGRLSGTLEF
QVPDEVLGLIYAQTVVWVGSFFCPLLPLINTAKFLILFWLKKITLFSIYSPASRTFRASTANFF
FPLVLLVGLAISAVPVLYSIFLIPPSKLCGPFQGKLSIWAQIPESIESLPQTAQNFLYFLGTQA
FTVPLLIVSSILMMYTVALANCYGRLISELKRQIETEVQNKVFLAQRAVALSSRNGVS

hide sequence

Ensembl Acc Id:

ENSRNOP00000072396 ⟸ ENSRNOT00000080466

Ensembl Acc Id:

ENSRNOP00000074156 ⟸ ENSRNOT00000085010

Protein Domains

TMC

Protein Structures

Name	Modeler	Protein Id	AA Range	Protein Structure
AF-Q496Z4-F1-model_v2	AlphaFold	Q496Z4	1-698	view protein structure

Transcriptome

eQTL		View at Phenogen
WGCNA		View at Phenogen
Tissue/Strain Expression		View at Phenogen

Promoters

RGD ID:

13689660

Promoter ID:

EPDNEW_R185

Type:

initiation region

Name:

Tmc4_1

Description:

transmembrane channel-like 4

SO ACC ID:

SO:0000170

Source:

EPDNEW (Eukaryotic Promoter Database, http://epd.vital-it.ch/)

Experiment Methods:

Single-end sequencing.

Position:

Rat Assembly	Chr	Position (strand)	Source
Rnor_6.0	1	64,114,704 - 64,114,764	EPDNEW

Additional Information

External Database Links

Database	Acc Id	Source(s)
AGR Gene	RGD:1304811	AgrOrtholog
BioCyc Gene	G2FUF-61040	BioCyc
Ensembl Genes	ENSRNOG00000059741	Ensembl, UniProtKB/TrEMBL
Ensembl Transcript	ENSRNOT00000085010.2	UniProtKB/TrEMBL
IMAGE_CLONE	IMAGE:7936370	IMAGE-MGC_LOAD
InterPro	TMC	UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
	TMC_dom	UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
KEGG Report	rno:308310	UniProtKB/Swiss-Prot
MGC_CLONE	MGC:124845	IMAGE-MGC_LOAD
NCBI Gene	308310	ENTREZGENE
PANTHER	PTHR23302	UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
	TRANSMEMBRANE CHANNEL-LIKE PROTEIN 4	UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
Pfam	TMC	UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
PhenoGen	Tmc4	PhenoGen
RatGTEx	ENSRNOG00000059741	RatGTEx
UniProt	A0A0G2K7D2_RAT	UniProtKB/TrEMBL
	A6KS23_RAT	UniProtKB/TrEMBL
	Q496Z4	ENTREZGENE, UniProtKB/Swiss-Prot

Nomenclature History

Date	Current Symbol	Current Name	Previous Symbol	Previous Name	Description	Reference	Status
2015-07-29	Tmc4	transmembrane channel-like 4	LOC100909619	transmembrane channel-like protein 4-like	Data merged from RGD:6502664	737654	PROVISIONAL
2012-07-05	LOC100909619	transmembrane channel-like protein 4-like			Symbol and Name status set to provisional	70820	PROVISIONAL
2008-09-25	Tmc4	transmembrane channel-like 4	Tmc4	transmembrane channel-like gene family 4	Nomenclature updated to reflect human and mouse nomenclature	1299863	APPROVED
2005-12-06	Tmc4	transmembrane channel-like gene family 4	Tmc4_predicted	transmembrane channel-like gene family 4 (predicted)	Symbol and Name updated	1559027	APPROVED
2005-01-12	Tmc4_predicted	transmembrane channel-like gene family 4 (predicted)			Symbol and Name status set to approved	70820	APPROVED

Gene Annotator (Functional Annotation) unavailable	Gene Annotator (Annotation Distribution) unavailable	Variant Visualizer (Genomic Variants) unavailble Variant Visualizer (Genomic Variants) unavailable
Gene Annotator (Functional Annotation)	Gene Annotator (Annotation Distribution)	Variant Visualizer (Genomic Variants)

InterViewer (Protein-Protein Interactions) unavailable	Gviewer (Genome Viewer) unavailable	Variant Visualizer (Damaging Variants) unavailble Variant Visualizer (Damaging Variants) unavailable
InterViewer (Protein-Protein Interactions)	GViewer (Genome Viewer)	Variant Visualizer (Damaging Variants)

Gene Annotator (Annotation Comparison) unavailable	OLGA (Gene List Generator) unavailable
Gene Annotator (Annotation Comparison)	OLGA (Gene List Generator)	Excel (Download)

MOET (Multi-Ontology Enrichement) unavailable	GOLF (Gene-Ortholog Location Finder) unavailable
MOET (Multi-Ontology Enrichement)	GOLF (Gene-Ortholog Location Finder)

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