Tmem254 (transmembrane protein 254)

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Gene: Tmem254 (transmembrane protein 254) Rattus norvegicus

Analyze

Symbol:

Tmem254

Name:

transmembrane protein 254

RGD ID:

1305689

Description:

Predicted to be located in membrane. Orthologous to human TMEM254 (transmembrane protein 254); INTERACTS WITH 17beta-estradiol; 2,3,7,8-tetrachlorodibenzodioxine; 3,3',4,4',5-pentachlorobiphenyl.

Type:

protein-coding

RefSeq Status:

PROVISIONAL

Previously known as:

Fam213a; family with sequence similarity 213, member A; homolog of C10orf57; homolog of C10orf57 (human); LOC290529; MGC105674; RGD1305689; similar to DNA segment, Chr 14, ERATO Doi 449, expressed; transmembrane protein C10orf57 homolog

RGD Orthologs

Alliance Genes

More Info

more info ...

More Info

Species	Gene symbol and name	Data Source	Assertion derived from	less info ...
Orthologs ¹				less info ...
Homo sapiens (human):	TMEM254 (transmembrane protein 254)	HGNC	Ensembl, HomoloGene, Inparanoid, NCBI, OMA, OrthoDB, Panther
Mus musculus (house mouse):	Tmem254 (transmembrane protein 254)	Transitive Ortholog Pipeline	Transitive Ortholog Pipeline
Chinchilla lanigera (long-tailed chinchilla):	Tmem254 (transmembrane protein 254)	Transitive Ortholog Pipeline	Transitive Ortholog Pipeline
Pan paniscus (bonobo/pygmy chimpanzee):	TMEM254 (transmembrane protein 254)	Transitive Ortholog Pipeline	Transitive Ortholog Pipeline
Canis lupus familiaris (dog):	TMEM254 (transmembrane protein 254)	Transitive Ortholog Pipeline	Transitive Ortholog Pipeline
Ictidomys tridecemlineatus (thirteen-lined ground squirrel):	Tmem254 (transmembrane protein 254)	Transitive Ortholog Pipeline	Transitive Ortholog Pipeline
Sus scrofa (pig):	TMEM254 (transmembrane protein 254)	Transitive Ortholog Pipeline	Transitive Ortholog Pipeline
Chlorocebus sabaeus (green monkey):	TMEM254 (transmembrane protein 254)	Transitive Ortholog Pipeline	Transitive Ortholog Pipeline
Heterocephalus glaber (naked mole-rat):	Tmem254 (transmembrane protein 254)	Transitive Ortholog Pipeline	Transitive Ortholog Pipeline
Alliance orthologs ³
Homo sapiens (human):	TMEM254 (transmembrane protein 254)	Alliance	DIOPT (Ensembl Compara\|HGNC\|Hieranoid\|InParanoid\|OMA\|OrthoFinder\|OrthoInspector\|PANTHER\|PhylomeDB\|SonicParanoid)
Mus musculus (house mouse):	Tmem254 (transmembrane protein 254)	Alliance	DIOPT (Ensembl Compara\|Hieranoid\|InParanoid\|OMA\|OrthoFinder\|OrthoInspector\|PANTHER\|PhylomeDB\|SonicParanoid)
Danio rerio (zebrafish):	tmem254 (transmembrane protein 254)	Alliance	DIOPT (Ensembl Compara\|Hieranoid\|InParanoid\|OMA\|OrthoFinder\|OrthoInspector\|PANTHER\|PhylomeDB\|SonicParanoid)
Xenopus tropicalis (tropical clawed frog):	tmem254	Alliance	DIOPT (Ensembl Compara\|Hieranoid\|InParanoid\|OMA\|OrthoFinder\|OrthoInspector\|PANTHER\|PhylomeDB\|SonicParanoid)

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
mRatBN7.2	16	1,503,931 - 1,507,819 (-)	NCBI	mRatBN7.2	mRatBN7.2
mRatBN7.2 Ensembl	16	1,503,933 - 1,507,895 (-)	Ensembl		mRatBN7.2 Ensembl
UTH_Rnor_SHR_Utx	16	1,510,261 - 1,514,148 (-)	NCBI	Rnor_SHR	UTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.0	16	2,656,098 - 2,659,985 (-)	NCBI	Rnor_SHRSP	UTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.0	16	1,516,858 - 1,520,746 (-)	NCBI	Rnor_WKY	UTH_Rnor_WKY_Bbb_1.0
Rnor_6.0	16	3,817,402 - 3,821,270 (+)	NCBI	Rnor6.0	Rnor_6.0	rn6	Rnor6.0
Rnor_6.0 Ensembl	16	3,817,402 - 3,821,270 (+)	Ensembl	Rnor6.0		rn6	Rnor6.0
Rnor_5.0	16	3,783,384 - 3,787,313 (+)	NCBI	Rnor5.0	Rnor_5.0	rn5	Rnor5.0
RGSC_v3.4	16	1,542,246 - 1,546,190 (-)	NCBI	RGSC3.4	RGSC_v3.4	rn4	RGSC3.4
RGSC_v3.1	16	1,542,246 - 1,546,190 (-)	NCBI
Celera	16	1,479,734 - 1,483,581 (-)	NCBI		Celera
Cytogenetic Map	16	p16	NCBI

JBrowse:

View Region in Genome Browser (JBrowse)

Model

Annotation Click to see Annotation Detail View

Disease Annotations Click to see Annotation Detail View

genetic disease (ISO)

Neurodevelopmental Disorders (ISO)

Gene-Chemical Interaction Annotations Click to see Annotation Detail View

(+)-catechin (ISO)

17beta-estradiol (EXP)

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

2-hydroxypropanoic acid (ISO)

3,3',4,4',5-pentachlorobiphenyl (EXP)

3-isobutyl-1-methyl-7H-xanthine (ISO)

4,4'-sulfonyldiphenol (ISO)

4-hydroxyphenyl retinamide (ISO)

aflatoxin B1 (ISO)

all-trans-retinoic acid (ISO)

Aroclor 1254 (ISO)

benzo[a]pyrene (ISO)

bis(2-ethylhexyl) phthalate (ISO)

bisphenol A (EXP,ISO)

bisphenol F (ISO)

bortezomib (ISO)

butanal (ISO)

cadmium dichloride (EXP)

copper(II) sulfate (ISO)

cyclosporin A (ISO)

decabromodiphenyl ether (EXP)

dexamethasone (ISO)

dorsomorphin (ISO)

endosulfan (EXP)

fluoranthene (ISO)

Heptachlor epoxide (ISO)

indometacin (ISO)

isotretinoin (ISO)

lead diacetate (ISO)

methylmercury chloride (ISO)

nickel atom (ISO)

paracetamol (EXP,ISO)

pentanal (ISO)

pirinixic acid (ISO)

rac-lactic acid (ISO)

SB 431542 (ISO)

sunitinib (ISO)

temozolomide (ISO)

Tributyltin oxide (ISO)

triptonide (ISO)

tunicamycin (ISO)

urethane (ISO)

valproic acid (ISO)

vinclozolin (EXP)

Gene Ontology Annotations Click to see Annotation Detail View

Cellular Component

membrane (IEA)

Molecular Function

protein binding (ISO)

References

References - curated

#	Reference Title	Reference Citation
1.	GOA pipeline	RGD automated data pipeline
2.	Data Import for Chemical-Gene Interactions	RGD automated import pipeline for gene-chemical interactions

Additional References at PubMed

PMID:12477932	PMID:15489334

Genomics

Comparative Map Data

Tmem254
(Rattus norvegicus - Norway rat)

Rat Assembly	Chr	Position (strand)	Source	Genome Browsers
Rat Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
mRatBN7.2	16	1,503,931 - 1,507,819 (-)	NCBI	mRatBN7.2	mRatBN7.2
mRatBN7.2 Ensembl	16	1,503,933 - 1,507,895 (-)	Ensembl		mRatBN7.2 Ensembl
UTH_Rnor_SHR_Utx	16	1,510,261 - 1,514,148 (-)	NCBI	Rnor_SHR	UTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.0	16	2,656,098 - 2,659,985 (-)	NCBI	Rnor_SHRSP	UTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.0	16	1,516,858 - 1,520,746 (-)	NCBI	Rnor_WKY	UTH_Rnor_WKY_Bbb_1.0
Rnor_6.0	16	3,817,402 - 3,821,270 (+)	NCBI	Rnor6.0	Rnor_6.0	rn6	Rnor6.0
Rnor_6.0 Ensembl	16	3,817,402 - 3,821,270 (+)	Ensembl	Rnor6.0		rn6	Rnor6.0
Rnor_5.0	16	3,783,384 - 3,787,313 (+)	NCBI	Rnor5.0	Rnor_5.0	rn5	Rnor5.0
RGSC_v3.4	16	1,542,246 - 1,546,190 (-)	NCBI	RGSC3.4	RGSC_v3.4	rn4	RGSC3.4
RGSC_v3.1	16	1,542,246 - 1,546,190 (-)	NCBI
Celera	16	1,479,734 - 1,483,581 (-)	NCBI		Celera
Cytogenetic Map	16	p16	NCBI

TMEM254
(Homo sapiens - human)

Human Assembly	Chr	Position (strand)	Source	Genome Browsers
Human Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
GRCh38	10	80,078,665 - 80,092,551 (+)	NCBI	GRCh38	GRCh38	hg38	GRCh38
GRCh38.p14 Ensembl	10	80,078,646 - 80,092,557 (+)	Ensembl	GRCh38		hg38	GRCh38
GRCh37	10	81,838,421 - 81,852,307 (+)	NCBI	GRCh37	GRCh37	hg19	GRCh37
Build 36	10	81,828,406 - 81,842,286 (+)	NCBI	NCBI36	Build 36	hg18	NCBI36
Build 34	10	81,828,405 - 81,842,287	NCBI
Celera	10	75,829,384 - 75,843,265 (+)	NCBI		Celera
Cytogenetic Map	10	q22.3	NCBI
HuRef	10	75,681,811 - 75,695,863 (+)	NCBI		HuRef
CHM1_1	10	82,121,425 - 82,135,331 (+)	NCBI		CHM1_1
T2T-CHM13v2.0	10	80,947,824 - 80,961,714 (+)	NCBI		T2T-CHM13v2.0

Tmem254
(Mus musculus - house mouse)

Mouse Assembly	Chr	Position (strand)	Source	Genome Browsers
Mouse Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
GRCm39	14	25,923,722 - 25,928,096 (-)	NCBI	GRCm39	GRCm39	mm39
GRCm39 Ensembl	14	25,923,724 - 25,928,096 (-)	Ensembl		GRCm39 Ensembl
GRCm38	14	25,923,298 - 25,927,672 (-)	NCBI	GRCm38	GRCm38	mm10	GRCm38
GRCm38.p6 Ensembl	14	25,923,300 - 25,927,672 (-)	Ensembl	GRCm38		mm10	GRCm38
GRCm38.p6 Ensembl	14	26,063,919 - 26,067,355 (-)	Ensembl	GRCm38		mm10	GRCm38
GRCm38.p6 Ensembl	14	26,203,369 - 26,207,041 (-)	Ensembl	GRCm38		mm10	GRCm38
MGSCv37	14	26,742,784 - 26,747,158 (-)	NCBI	GRCm37	MGSCv37	mm9	NCBIm37
MGSCv36	14	24,757,354 - 24,760,394 (-)	NCBI		MGSCv36	mm8
MGSCv36	14	21,014,716 - 21,017,756 (-)	NCBI		MGSCv36	mm8
Cytogenetic Map	14	A3	NCBI
cM Map	14	15.49	NCBI

Tmem254
(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_004955437	13,061,162 - 13,067,024 (+)	Ensembl	ChiLan1.0
ChiLan1.0	NW_004955437	13,061,162 - 13,067,024 (+)	NCBI	ChiLan1.0	ChiLan1.0

TMEM254
(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	10	91,813,288 - 91,827,536 (-)	NCBI		NHGRI_mPanPan1
Mhudiblu_PPA_v0	10	76,179,649 - 76,193,828 (-)	NCBI	Mhudiblu_PPA_v0	Mhudiblu_PPA_v0	panPan3
PanPan1.1	10	78,837,374 - 78,851,309 (-)	NCBI	panpan1.1	PanPan1.1	panPan2
PanPan1.1 Ensembl	10	78,837,380 - 78,851,301 (-)	Ensembl	panpan1.1		panPan2

TMEM254
(Canis lupus familiaris - dog)

Dog Assembly	Chr	Position (strand)	Source	Genome Browsers
Dog Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
CanFam3.1	4	29,315,393 - 29,323,721 (-)	NCBI	CanFam3.1	CanFam3.1	canFam3	CanFam3.1
CanFam3.1 Ensembl	4	29,317,162 - 29,324,194 (-)	Ensembl	CanFam3.1		canFam3	CanFam3.1
Dog10K_Boxer_Tasha	4	29,439,876 - 29,448,174 (-)	NCBI		Dog10K_Boxer_Tasha
ROS_Cfam_1.0	4	29,617,448 - 29,625,815 (-)	NCBI		ROS_Cfam_1.0
ROS_Cfam_1.0 Ensembl	4	29,619,219 - 29,625,800 (-)	Ensembl		ROS_Cfam_1.0 Ensembl
UMICH_Zoey_3.1	4	29,487,034 - 29,495,315 (-)	NCBI		UMICH_Zoey_3.1
UNSW_CanFamBas_1.0	4	29,689,741 - 29,698,103 (-)	NCBI		UNSW_CanFamBas_1.0
UU_Cfam_GSD_1.0	4	30,043,663 - 30,052,080 (-)	NCBI		UU_Cfam_GSD_1.0

Tmem254
(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_024407213	51,686,620 - 51,696,402 (+)	NCBI		HiC_Itri_2
SpeTri2.0 Ensembl	NW_004936521	179,357 - 189,824 (+)	Ensembl	SpeTri2.0
SpeTri2.0	NW_004936521	178,856 - 189,132 (+)	NCBI	SpeTri2.0	SpeTri2.0		SpeTri2.0

TMEM254
(Sus scrofa - pig)

Pig Assembly	Chr	Position (strand)	Source	Genome Browsers
Pig Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
Sscrofa11.1 Ensembl	14	81,931,301 - 81,940,401 (-)	Ensembl	Sscrofa11.1		susScr11	Sscrofa11.1
Sscrofa11.1	14	81,931,294 - 81,940,443 (-)	NCBI	Sscrofa11.1	Sscrofa11.1	susScr11	Sscrofa11.1
Sscrofa10.2	14	88,542,475 - 88,551,615 (-)	NCBI	Sscrofa10.2	Sscrofa10.2	susScr3

TMEM254
(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	9	51,710,027 - 51,724,078 (-)	NCBI	ChlSab1.1	ChlSab1.1	chlSab2
ChlSab1.1 Ensembl	9	51,708,127 - 51,724,156 (-)	Ensembl	ChlSab1.1	ChlSab1.1 Ensembl	chlSab2
Vero_WHO_p1.0	NW_023666048	12,054,600 - 12,068,904 (-)	NCBI	Vero_WHO_p1.0	Vero_WHO_p1.0

Tmem254
(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_004624754	12,544,580 - 12,550,168 (-)	Ensembl	HetGla_female_1.0	HetGla_female_1.0 Ensembl	hetGla2
HetGla 1.0	NW_004624754	12,543,266 - 12,549,910 (-)	NCBI	HetGla_female_1.0	HetGla 1.0	hetGla2

Variants

Variants in Tmem254
35 total Variants

miRNA Target Status

Predicted Target Of

	Summary Value
Count of predictions:	67
Count of miRNA genes:	63
Interacting mature miRNAs:	63
Transcripts:	ENSRNOT00000015011
Prediction methods:	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
2325838	Bp347	Blood pressure QTL 347		0.001	arterial blood pressure trait (VT:2000000)	mean arterial blood pressure (CMO:0000009)	16	1	3080679	Rat
1357403	Slep4	Serum leptin concentration QTL 4	3.91		blood leptin amount (VT:0005667)	serum leptin level (CMO:0000780)	16	1	9639137	Rat
1600369	Hcas8	Hepatocarcinoma susceptibility QTL 8			liver integrity trait (VT:0010547)	liver tumorous lesion number (CMO:0001068)	16	1	22477621	Rat
631830	Alc7	Alcohol consumption QTL 7	2.9		consumption behavior trait (VT:0002069)	ethanol drink intake rate (CMO:0001407)	16	1	26727669	Rat
634355	Rends4	Renal damage susceptibility QTL 4		0.05	kidney blood vessel morphology trait (VT:0000530)	organ lesion measurement (CMO:0000677)	16	1	26727669	Rat
1582235	Insul8	Insulin level QTL 8	3.3	0.0063	blood insulin amount (VT:0001560)	calculated serum insulin level (CMO:0000359)	16	1	26727669	Rat
9590151	Scort8	Serum corticosterone level QTL 8	8.45	0.001	blood corticosterone amount (VT:0005345)	plasma corticosterone level (CMO:0001173)	16	1	30836262	Rat
2302380	Slep6	Serum leptin concentration QTL 6	3.36		blood leptin amount (VT:0005667)	serum leptin level (CMO:0000780)	16	1	32139025	Rat
2307172	Activ4	Activity QTL 4	3.71	0.00023	locomotor behavior trait (VT:0001392)	number of entries into a discrete space in an experimental apparatus (CMO:0000960)	16	1	33418960	Rat
1354584	Despr6	Despair related QTL 6	3.1	0.0067	locomotor behavior trait (VT:0001392)	amount of time spent in voluntary immobility (CMO:0001043)	16	1	39533930	Rat
2303566	Bw90	Body weight QTL 90	2		body mass (VT:0001259)	body weight (CMO:0000012)	16	1	39533930	Rat
631561	Hcuc2	Hepatic copper content QTL 2	2.8		liver copper amount (VT:0003065)	liver total copper weight (CMO:0001507)	16	1	39533949	Rat
6903319	Bw114	Body weight QTL 114	2.7	0.0037	body mass (VT:0001259)	body weight (CMO:0000012)	16	1	43534949	Rat
7411664	Foco30	Food consumption QTL 30	11	0.001	eating behavior trait (VT:0001431)	feed conversion ratio (CMO:0001312)	16	1	44588133	Rat
1354625	Despr7	Despair related QTL 7	3.16	0.016	locomotor behavior trait (VT:0001392)	amount of time spent in voluntary immobility (CMO:0001043)	16	1	44977551	Rat
1549842	Bp248	Blood pressure QTL 248		0.01	arterial blood pressure trait (VT:2000000)	mean arterial blood pressure (CMO:0000009)	16	380245	2995463	Rat
1600378	Arunc4	Aerobic running capacity QTL 4		0.03	exercise endurance trait (VT:0002332)	maximum distance run on treadmill (CMO:0001406)	16	380245	80345693	Rat
2293343	Glom16	Glomerulus QTL 16	7.4		kidney glomerulus integrity trait (VT:0010546)	kidney sclerotic glomeruli count to total glomeruli count ratio (CMO:0001269)	16	832236	46053497	Rat
2312660	Bw95	Body weight QTL 95		0.05	inguinal fat pad mass (VT:0010424)	inguinal fat pad weight to body weight ratio (CMO:0001253)	16	832236	59492508	Rat
2312663	Slep9	Serum leptin concentration QTL 9		0.001	blood leptin amount (VT:0005667)	serum leptin level (CMO:0000780)	16	832236	59492508	Rat
2312666	Insul16	Insulin level QTL 16		0.01	blood insulin amount (VT:0001560)	serum insulin level (CMO:0000358)	16	832236	59492508	Rat
2312669	Stl23	Serum triglyceride level QTL 23		0.01	blood triglyceride amount (VT:0002644)	serum triglyceride level (CMO:0000360)	16	832236	59492508	Rat
12903278	Am16	Aortic mass QTL 16		0.019	aorta mass (VT:0002845)	aorta weight to aorta length to body weight ratio (CMO:0002722)	16	832380	2995225	Rat
12903279	Cm115	Cardiac mass QTL 115		0.001	heart mass (VT:0007028)	heart wet weight to body weight ratio (CMO:0002408)	16	832380	2995225	Rat
12903281	Cm116	Cardiac mass QTL 116		0.001	heart left ventricle mass (VT:0007031)	heart left ventricle weight to body weight ratio (CMO:0000530)	16	832380	2995225	Rat
12903952	Cm117	Cardiac mass QTL 117		0.001	heart right ventricle mass (VT:0007033)	heart right ventricle weight to body weight ratio (CMO:0000914)	16	832380	2995225	Rat
12903954	Bw186	Body weight QTL 186		0.011	body mass (VT:0001259)	body weight (CMO:0000012)	16	832380	2995225	Rat
2301404	Bp321	Blood pressure QTL 321		0.05	arterial blood pressure trait (VT:2000000)	mean arterial blood pressure (CMO:0000009)	16	832380	2995225	Rat
12903955	Kidm69	Kidney mass QTL 69		0.001	kidney mass (VT:0002707)	both kidneys wet weight to body weight ratio (CMO:0000340)	16	832380	4227609	Rat

Expression

RNA-SEQ Expression

High: > 1000 TPM value Medium: Between 11 and 1000 TPM
Low: Between 0.5 and 10 TPM Below Cutoff: < 0.5 TPM

	alimentary part of gastrointestinal system	circulatory system	endocrine system	exocrine system	hemolymphoid system	hepatobiliary system	integumental system	musculoskeletal system	nervous system	renal system	reproductive system	respiratory system	appendage
High
Medium	3	28	52	39	19	39			74	29	34	11
Low		15	5	2		2	8	11		6	7		8
Below cutoff

View RNA-SEQ Expression Data

Sequence

Nucleotide Sequences


RefSeq Transcripts	NM_001008297	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
	XM_006252573	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
	XM_039094246	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
GenBank Nucleotide	BC086323	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
	CH474067	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
	FQ213064	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
	FQ220194	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
	JACYVU010000273	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles

RefSeq Acc Id:

ENSRNOT00000015011 ⟹ ENSRNOP00000015011

Type:

CODING

Position:

Rat Assembly	Chr	Position (strand)	Source
mRatBN7.2 Ensembl	16	1,503,933 - 1,507,895 (-)	Ensembl
Rnor_6.0 Ensembl	16	3,817,402 - 3,821,270 (+)	Ensembl

RefSeq Acc Id:

ENSRNOT00000088566 ⟹ ENSRNOP00000069971

Type:

CODING

Position:

Rat Assembly	Chr	Position (strand)	Source
mRatBN7.2 Ensembl	16	1,503,937 - 1,507,410 (-)	Ensembl
Rnor_6.0 Ensembl	16	3,817,757 - 3,820,684 (+)	Ensembl

RefSeq Acc Id:

ENSRNOT00000108510 ⟹ ENSRNOP00000093036

Type:

CODING

Position:

Rat Assembly	Chr	Position (strand)	Source
mRatBN7.2 Ensembl	16	1,503,933 - 1,506,284 (-)	Ensembl

RefSeq Acc Id:

NM_001008297 ⟹ NP_001008298

RefSeq Status:

PROVISIONAL

Type:

CODING

Position:

Rat Assembly	Chr	Position (strand)	Source
mRatBN7.2	16	1,503,931 - 1,507,819 (-)	NCBI
Rnor_6.0	16	3,817,402 - 3,821,270 (+)	NCBI
Rnor_5.0	16	3,783,384 - 3,787,313 (+)	NCBI
RGSC_v3.4	16	1,542,246 - 1,546,190 (-)	RGD
Celera	16	1,479,734 - 1,483,581 (-)	RGD

Sequence:

show sequence

GCTCGGAAACTTGACTCGCCGTTATCAAGGAGGCAAGAGAGCGGCTACTATAACTGAAATTGAG
AGGTGCCTCCTGCACCGGGAGTACGGAGACTCGGTCCCCAGGTCACTGCAGCCAAAACCTTCCG
GGTCTGGTGCACAGGAAGCCGCTCGCCCCTCCCCGGCCACCTTCCACTGGGTGCAAGAGACGGT
CCGCTGGGGTCGCTGCAGCGATGGGGACGGCCACAGGCGCTAGCTACTTCCAGAGGGGCAGCTT
GTTCTGGTTCACAGTCATCGCCGTCTCCTTCAGCTACTACACGTGGGTTGTCTTCTGGCCTCAG
AGTATCCCCTATCAGAGCCTTGGGCCCCTGGGTCCCTTCACAAAGTACTTGGTGGACCACTATC
ACACGCTCCTGAGGAATGGGTACTGGCTTGCGTGGCTAGTTCATGTGGGAGAGTCCTTGTATGC
CTTGGTATTGTGCAGGCGTAAAGGAATCACAGACAGCCAGGCCCAGCTCCTCTGGTTCCTACAG
ACTTTTCTGTTTGGTGTAGCCTCTCTCTCCATCCTGTTTGCTTACAGACCAAAGCACCAAAAAC
ATAATTAAAGGAGAAAGCGGGGTTTCCTTTCCACTTCTTCAAGCCCTCCTTCAGTGGGTCCTGG
TTTCCAGGATGATCTCTCTGTCTTCTAGGTAGTGTTGTCATAGAAACCTGTCTGAGACCCTCTA
GTTACTATGATTTTGGTGCTCTGACCAACCTTGGTTAGACCTATTGTTGTCTAACAAAGAAATA
AGCAAGGCCCTGCCCTTCCAGCTCTGCAGGCTTCTGGCCTGAAGAAGGCCTCAGGCCACTTTCC
TGAGGTCCTTAGCTGAGCCATTTCCCACCCTTTGACTGAGACAAGTAAACTAGATTTGTCTGTG
GGTCCACCTTTGCTCCGTGTAGTGTTTTGAATATGCTTGGCCCATGGGAAGTGGCACTATTAGG
AGGTGTGGTGTTACTGTGGAGGCCAGGCTTTGAGGTCTCATATATTAGCTCAAGTCTGACCAGT
GTGAAACGGTCTCCTCTTGGCTGCCTCAAGATCAAGATGTAGAACTCTCAGCTTTTTTCCCAGC
ACCATGTCTGCCTGGACACTGCCATGCTTCTCGCCATAATGGACTGAGCCTCTGAAACTGTAAA
CCAGCCCCATTAAATGTTGTCCTTTGTTAAGAAAAAAAAAAAAAAAAAAAAAAAAAAA

hide sequence

RefSeq Acc Id:

XM_006252573 ⟹ XP_006252635

Type:

CODING

Position:

Rat Assembly	Chr	Position (strand)	Source
mRatBN7.2	16	1,503,931 - 1,507,501 (-)	NCBI
Rnor_6.0	16	3,817,709 - 3,821,270 (+)	NCBI
Rnor_5.0	16	3,783,384 - 3,787,313 (+)	NCBI

Sequence:

show sequence

CGCGAACCGCAGGCAGGCGCCGCGCAAGCGCACTGGCCAGTCAGGGCTAAGCCTGGGGAACCGG
CTCGTCAGGCTCTTCCTGCGTGGACCGGGGCGGGAAGCGATTCTGGCCCAACGATTCAGTGTTT
AGGTCTCTCGAGATGGTGTTGGCGAAGTCGGAAGCCCGTAGGGACCCCACTGCATACTTCCGTG
CAGCCAGACCCTGGCCCTCGCTGATCACCGTCCTGGGGCTGGGCTACTTCGCGTGGGTTGTCTT
CTGGCCTCAGAGTATCCCCTATCAGAGCCTTGGGCCCCTGGGTCCCTTCACAAAGTACTTGGTG
GACCACTATCACACGCTCCTGAGGAATGGGTACTGGCTTGCGTGGCTAGTTCATGTGGGAGAGT
CCTTGTATGCCTTGGTATTGTGCAGGCGTAAAGGAATCACAGACAGCCAGGCCCAGCTCCTCTG
GTTCCTACAGACTTTTCTGTTTGGTGTAGCCTCTCTCTCCATCCTGTTTGCTTACAGACCAAAG
CACCAAAAACATAATTAAAGGAGAAAGCGGGGTTTCCTTTCCACTTCTTCAAGCCCTCCTTCAG
TGGGTCCTGGTTTCCAGGATGATCTCTCTGTCTTCTAGGTAGTGTTGTCATAGAAACCTGTCTG
AGACCCTCTAGTTACTATGATTTTGGTGCTCTGACCAACCTTGGTTAGACCTATTGTTGTCTAA
CAAAGAAATAAGCAAGGCCCTGCCCTTCCAGCTCTGCAGGCTTCTGGCCTGAAGAAGGCCTCAG
GCCACTTTCCTGAGGTCCTTAGCTGAGCCATTTCCCACCCTTTGACTGAGACAAGTAAACTAGA
TTTGTCTGTGGGTCCACCTTTGCTCCGTGTAGTGTTTTGAATATGCTTGGCCCATGGGAAGTGG
CACTATTAGGAGGTGTGGTGTTACTGTGGAGGCCAGGCTTTGAGGTCTCATATATTAGCTCAAG
TCTGACCAGTGTGAAACGGTCTCCTCTTGGCTGCCTCAAGATCAAGATGTAGAACTCTCAGCTT
TTTTCCCAGCACCATGTCTGCCTGGACACTGCCATGCTTCTCGCCATAATGGACTGAGCCTCTG
AAACTGTAAACCAGCCCCATTAAATGTTGTCCTTTGTTAAGA

hide sequence

RefSeq Acc Id:

XM_039094246 ⟹ XP_038950174

Type:

CODING

Position:

Rat Assembly	Chr	Position (strand)	Source
mRatBN7.2	16	1,503,931 - 1,507,383 (-)	NCBI

Protein Sequences


Protein RefSeqs	NP_001008298	(Get FASTA)	NCBI Sequence Viewer
	XP_006252635	(Get FASTA)	NCBI Sequence Viewer
	XP_038950174	(Get FASTA)	NCBI Sequence Viewer
GenBank Protein	AAH86323	(Get FASTA)	NCBI Sequence Viewer
	EDL75083	(Get FASTA)	NCBI Sequence Viewer
	EDL75084	(Get FASTA)	NCBI Sequence Viewer
	EDL75085	(Get FASTA)	NCBI Sequence Viewer
Ensembl Protein	ENSRNOP00000015011
	ENSRNOP00000069971
	ENSRNOP00000069971.1
	ENSRNOP00000093036.1
GenBank Protein	Q5U220	(Get FASTA)	NCBI Sequence Viewer

RefSeq Acc Id:	NP_001008298 ⟸ NM_001008297
- UniProtKB:	Q5U220 (UniProtKB/Swiss-Prot), A6KMI5 (UniProtKB/TrEMBL)
- Sequence:	show sequence MGTATGASYFQRGSLFWFTVIAVSFSYYTWVVFWPQSIPYQSLGPLGPFTKYLVDHYHTLLRNG YWLAWLVHVGESLYALVLCRRKGITDSQAQLLWFLQTFLFGVASLSILFAYRPKHQKHN hide sequence

RefSeq Acc Id:	XP_006252635 ⟸ XM_006252573
- Peptide Label:	isoform X1
- UniProtKB:	A0A0G2JWQ4 (UniProtKB/TrEMBL)
- Sequence:	show sequence MVLAKSEARRDPTAYFRAARPWPSLITVLGLGYFAWVVFWPQSIPYQSLGPLGPFTKYLVDHYH TLLRNGYWLAWLVHVGESLYALVLCRRKGITDSQAQLLWFLQTFLFGVASLSILFAYRPKHQKH N hide sequence

RefSeq Acc Id:

ENSRNOP00000015011 ⟸ ENSRNOT00000015011

RefSeq Acc Id:

ENSRNOP00000069971 ⟸ ENSRNOT00000088566

RefSeq Acc Id:	XP_038950174 ⟸ XM_039094246
- Peptide Label:	isoform X2

RefSeq Acc Id:

ENSRNOP00000093036 ⟸ ENSRNOT00000108510

Protein Structures

Name	Modeler	Protein Id	AA Range	Protein Structure
AF-Q5U220-F1-model_v2	AlphaFold	Q5U220	1-123	view protein structure

Transcriptome

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

Promoters

RGD ID:

13699902

Promoter ID:

EPDNEW_R10426

Type:

initiation region

Name:

Tmem254_1

Description:

transmembrane protein 254

SO ACC ID:

SO:0000170

Source:

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

Alternative Promoters:

null; see alsoEPDNEW_R10427

Experiment Methods:

Single-end sequencing.

Position:

Rat Assembly	Chr	Position (strand)	Source
Rnor_6.0	16	3,817,323 - 3,817,383	EPDNEW

RGD ID:

13699924

Promoter ID:

EPDNEW_R10427

Type:

single initiation site

Name:

Tmem254_2

Description:

transmembrane protein 254

SO ACC ID:

SO:0000170

Source:

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

Alternative Promoters:

null; see alsoEPDNEW_R10426

Experiment Methods:

Single-end sequencing.

Position:

Rat Assembly	Chr	Position (strand)	Source
Rnor_6.0	16	3,817,779 - 3,817,839	EPDNEW

Additional Information

External Database Links

Database	Acc Id	Source(s)
AGR Gene	RGD:1305689	AgrOrtholog
BioCyc Gene	G2FUF-12263	BioCyc
Ensembl Genes	ENSRNOG00000011276	Ensembl, ENTREZGENE, UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
Ensembl Transcript	ENSRNOT00000015011	ENTREZGENE, UniProtKB/Swiss-Prot
	ENSRNOT00000088566	ENTREZGENE
	ENSRNOT00000088566.2	UniProtKB/TrEMBL
	ENSRNOT00000108510.1	UniProtKB/TrEMBL
IMAGE_CLONE	IMAGE:7304524	IMAGE-MGC_LOAD
InterPro	TMEM254	UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
KEGG Report	rno:290529	UniProtKB/Swiss-Prot
MGC_CLONE	MGC:105674	IMAGE-MGC_LOAD
NCBI Gene	290529	ENTREZGENE
PANTHER	PTHR34104	UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
	TRANSMEMBRANE PROTEIN 254	UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
Pfam	DUF4499	UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
PhenoGen	Tmem254	PhenoGen
RatGTEx	ENSRNOG00000011276	RatGTEx
UniProt	A0A0G2JWQ4	ENTREZGENE, UniProtKB/TrEMBL
	A0A8I6AF16_RAT	UniProtKB/TrEMBL
	A6KMI5	ENTREZGENE, UniProtKB/TrEMBL
	Q5U220	ENTREZGENE, UniProtKB/Swiss-Prot

Nomenclature History

Date	Current Symbol	Current Name	Previous Symbol	Previous Name	Description	Reference	Status
2012-11-19	Tmem254	transmembrane protein 254	RGD1305689	homolog of C10orf57 (human)	Nomenclature updated to reflect human and mouse nomenclature	1299863	APPROVED
2012-10-10	RGD1305689	homolog of C10orf57 (human)	Fam213a	family with sequence similarity 213, member A	Nomenclature updated to reflect human and mouse nomenclature	1299863	APPROVED
2011-12-06	Fam213a	family with sequence similarity 213, member A	RGD1305689	similar to DNA segment, Chr 14, ERATO Doi 449, expressed	Nomenclature updated to reflect human and mouse nomenclature	1299863	APPROVED
2005-12-06	RGD1305689	similar to DNA segment, Chr 14, ERATO Doi 449, expressed	RGD1305689_predicted	similar to DNA segment, Chr 14, ERATO Doi 449, expressed (predicted)	Symbol and Name updated	1559027	APPROVED
2005-01-20	RGD1305689_predicted	similar to DNA segment, Chr 14, ERATO Doi 449, expressed (predicted)	LOC290529_predicted		Symbol and Name status set to approved	1331353	APPROVED
2005-01-12	LOC290529_predicted	similar to DNA segment, Chr 14, ERATO Doi 449, expressed (predicted)			Symbol and Name status set to provisional	70820	PROVISIONAL

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)

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

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