Cotl1 (coactosin-like F-actin binding protein 1) - Rat Genome Database

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Gene: Cotl1 (coactosin-like F-actin binding protein 1) Rattus norvegicus
Analyze
Symbol: Cotl1
Name: coactosin-like F-actin binding protein 1
RGD ID: 1305498
Description: Predicted to enable actin filament binding activity and enzyme binding activity. Predicted to be involved in defense response to fungus and regulation of actin filament polymerization. Predicted to be located in cytosol. Predicted to be active in cortical actin cytoskeleton and site of polarized growth. Predicted to colocalize with actin filament. Orthologous to human COTL1 (coactosin like F-actin binding protein 1); INTERACTS WITH 1-naphthyl isothiocyanate; 17beta-estradiol; 2,3,7,8-tetrachlorodibenzodioxine.
Type: protein-coding
RefSeq Status: PROVISIONAL
Previously known as: Clp; coactosin-like 1; coactosin-like 1 (Dictyostelium); Coactosin-like protein; LOC361422
RGD Orthologs
Human
Mouse
Chinchilla
Bonobo
Dog
Squirrel
Pig
Green Monkey
Naked Mole-Rat
Alliance Orthologs
More Info more info ...
Latest Assembly: mRatBN7.2 - mRatBN7.2 Assembly
Position:
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCr81964,780,309 - 64,814,629 (-)NCBIGRCr8
mRatBN7.21947,871,689 - 47,906,010 (-)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl1947,871,694 - 47,911,689 (-)EnsemblmRatBN7.2 Ensembl
UTH_Rnor_SHR_Utx1954,666,008 - 54,700,332 (-)NCBIRnor_SHRUTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.01955,346,754 - 55,381,075 (-)NCBIRnor_SHRSPUTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.01957,559,721 - 57,594,016 (-)NCBIRnor_WKYUTH_Rnor_WKY_Bbb_1.0
Rnor_6.01952,465,074 - 52,499,433 (-)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl1952,465,087 - 52,499,433 (-)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.01963,209,153 - 63,243,569 (-)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.41950,096,620 - 50,130,253 (-)NCBIRGSC3.4RGSC_v3.4rn4RGSC3.4
RGSC_v3.11950,101,505 - 50,135,146 (-)NCBI
Celera1947,128,853 - 47,162,796 (-)NCBICelera
Cytogenetic Map19q12NCBI
JBrowse: View Region in Genome Browser (JBrowse)
Model


Disease Annotations     Click to see Annotation Detail View

Gene-Chemical Interaction Annotations     Click to see Annotation Detail View
(-)-epigallocatechin 3-gallate  (ISO)
(1->4)-beta-D-glucan  (ISO)
1,2-dimethylhydrazine  (ISO)
1-naphthyl isothiocyanate  (EXP)
17beta-estradiol  (EXP,ISO)
2,3,7,8-tetrachlorodibenzodioxine  (EXP,ISO)
3-isobutyl-1-methyl-7H-xanthine  (ISO)
3-methylcholanthrene  (ISO)
4,4'-diaminodiphenylmethane  (EXP)
4-hydroxyphenyl retinamide  (ISO)
6-propyl-2-thiouracil  (EXP)
acetamide  (EXP)
aflatoxin B1  (EXP,ISO)
Aflatoxin B2 alpha  (ISO)
all-trans-retinoic acid  (ISO)
antirheumatic drug  (ISO)
aristolochic acid A  (ISO)
arsenite(3-)  (ISO)
arsenous acid  (ISO)
beauvericin  (ISO)
benzo[a]pyrene  (ISO)
benzo[a]pyrene diol epoxide I  (ISO)
bisphenol A  (EXP,ISO)
Bisphenol B  (ISO)
butanal  (ISO)
cadmium atom  (ISO)
cadmium dichloride  (EXP,ISO)
cadmium sulfate  (ISO)
carbamazepine  (ISO)
carbon nanotube  (ISO)
chlordecone  (ISO)
chlorpyrifos  (ISO)
choline  (ISO)
chromium(6+)  (ISO)
cisplatin  (EXP,ISO)
clobetasol  (ISO)
cobalt dichloride  (ISO)
crocidolite asbestos  (ISO)
cyclosporin A  (ISO)
dexamethasone  (ISO)
dextran sulfate  (ISO)
diarsenic trioxide  (ISO)
diclofenac  (ISO)
dimethylarsinic acid  (ISO)
diquat  (ISO)
dorsomorphin  (ISO)
doxorubicin  (ISO)
endosulfan  (EXP)
ethyl methanesulfonate  (ISO)
fenthion  (ISO)
folic acid  (ISO)
genistein  (ISO)
gentamycin  (EXP)
glafenine  (EXP)
glycidyl methacrylate  (ISO)
glycine betaine  (EXP)
glyphosate  (EXP)
hydrazine  (ISO)
indometacin  (ISO)
isobutanol  (ISO)
ivermectin  (ISO)
L-methionine  (ISO)
methidathion  (ISO)
methyl methanesulfonate  (ISO)
methylarsonic acid  (ISO)
methylmercury chloride  (ISO)
monosodium L-glutamate  (ISO)
N-nitrosodiethylamine  (EXP)
N-nitrosodimethylamine  (EXP)
nevirapine  (EXP)
nickel atom  (ISO)
ochratoxin A  (EXP)
oxycodone  (EXP)
ozone  (EXP,ISO)
paracetamol  (EXP,ISO)
pentachlorophenol  (ISO)
pentanal  (ISO)
perfluorooctane-1-sulfonic acid  (ISO)
phenylmercury acetate  (ISO)
pirinixic acid  (ISO)
potassium chromate  (ISO)
progesterone  (ISO)
propanal  (ISO)
quercetin  (ISO)
resveratrol  (EXP)
rotenone  (EXP)
SB 431542  (ISO)
silicon dioxide  (EXP,ISO)
sodium arsenate  (ISO)
sodium arsenite  (ISO)
sodium fluoride  (ISO)
streptozocin  (EXP)
sunitinib  (ISO)
temozolomide  (ISO)
tetrachloromethane  (ISO)
thapsigargin  (ISO)
thioacetamide  (EXP)
titanium dioxide  (ISO)
trichloroethene  (EXP)
trichostatin A  (ISO)
triphenyl phosphate  (EXP,ISO)
triptonide  (ISO)
tris(2-butoxyethyl) phosphate  (ISO)
urethane  (ISO)
valproic acid  (ISO)
vinclozolin  (EXP)

Gene Ontology Annotations     Click to see Annotation Detail View

Biological Process

Cellular Component

Molecular Function

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. Rat ISS GO annotations from GOA human gene data--August 2006 GOA data from the GO Consortium
3. Rat ISS GO annotations from MGI mouse gene data--August 2006 MGD data from the GO Consortium
4. GOA pipeline RGD automated data pipeline
5. Data Import for Chemical-Gene Interactions RGD automated import pipeline for gene-chemical interactions
Additional References at PubMed
PMID:11297527   PMID:11583571   PMID:11785969   PMID:12477932   PMID:15489334   PMID:19056867   PMID:20458337   PMID:23376485   PMID:23533145   PMID:28925397  


Genomics

Comparative Map Data
Cotl1
(Rattus norvegicus - Norway rat)
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCr81964,780,309 - 64,814,629 (-)NCBIGRCr8
mRatBN7.21947,871,689 - 47,906,010 (-)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl1947,871,694 - 47,911,689 (-)EnsemblmRatBN7.2 Ensembl
UTH_Rnor_SHR_Utx1954,666,008 - 54,700,332 (-)NCBIRnor_SHRUTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.01955,346,754 - 55,381,075 (-)NCBIRnor_SHRSPUTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.01957,559,721 - 57,594,016 (-)NCBIRnor_WKYUTH_Rnor_WKY_Bbb_1.0
Rnor_6.01952,465,074 - 52,499,433 (-)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl1952,465,087 - 52,499,433 (-)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.01963,209,153 - 63,243,569 (-)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.41950,096,620 - 50,130,253 (-)NCBIRGSC3.4RGSC_v3.4rn4RGSC3.4
RGSC_v3.11950,101,505 - 50,135,146 (-)NCBI
Celera1947,128,853 - 47,162,796 (-)NCBICelera
Cytogenetic Map19q12NCBI
COTL1
(Homo sapiens - human)
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh381684,565,596 - 84,618,078 (-)NCBIGRCh38GRCh38hg38GRCh38
GRCh38.p14 Ensembl1684,565,596 - 84,618,078 (-)EnsemblGRCh38hg38GRCh38
GRCh371684,599,202 - 84,651,684 (-)NCBIGRCh37GRCh37hg19GRCh37
Build 361683,156,703 - 83,209,170 (-)NCBINCBI36Build 36hg18NCBI36
Build 341683,156,706 - 83,209,170NCBI
Celera1668,901,034 - 68,953,456 (-)NCBICelera
Cytogenetic Map16q24.1NCBI
HuRef1670,352,055 - 70,404,781 (-)NCBIHuRef
CHM1_11686,010,791 - 86,063,243 (-)NCBICHM1_1
T2T-CHM13v2.01690,631,897 - 90,684,371 (-)NCBIT2T-CHM13v2.0
Cotl1
(Mus musculus - house mouse)
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm398120,535,953 - 120,567,318 (-)NCBIGRCm39GRCm39mm39
GRCm39 Ensembl8120,535,961 - 120,567,283 (-)EnsemblGRCm39 Ensembl
GRCm388119,809,214 - 119,840,579 (-)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl8119,809,222 - 119,840,544 (-)EnsemblGRCm38mm10GRCm38
MGSCv378122,333,114 - 122,364,479 (-)NCBIGRCm37MGSCv37mm9NCBIm37
MGSCv368122,695,202 - 122,726,517 (-)NCBIMGSCv36mm8
Celera8124,025,809 - 124,057,174 (-)NCBICelera
Cytogenetic Map8E1NCBI
cM Map868.42NCBI
Cotl1
(Chinchilla lanigera - long-tailed chinchilla)
Chinchilla AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChiLan1.0 EnsemblNW_004955541153,542 - 183,965 (-)EnsemblChiLan1.0
ChiLan1.0NW_004955541153,542 - 183,965 (-)NCBIChiLan1.0ChiLan1.0
COTL1
(Pan paniscus - bonobo/pygmy chimpanzee)
Bonobo AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
NHGRI_mPanPan1-v21894,312,954 - 94,366,402 (-)NCBINHGRI_mPanPan1-v2
NHGRI_mPanPan116100,230,272 - 100,283,576 (-)NCBINHGRI_mPanPan1
Mhudiblu_PPA_v01665,231,112 - 65,284,079 (-)NCBIMhudiblu_PPA_v0Mhudiblu_PPA_v0panPan3
PanPan1.11684,572,810 - 84,625,177 (-)NCBIpanpan1.1PanPan1.1panPan2
PanPan1.1 Ensembl1684,572,816 - 84,625,177 (-)Ensemblpanpan1.1panPan2
COTL1
(Canis lupus familiaris - dog)
Dog AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
CanFam3.1567,872,065 - 67,909,536 (+)NCBICanFam3.1CanFam3.1canFam3CanFam3.1
CanFam3.1 Ensembl567,872,314 - 67,908,637 (+)EnsemblCanFam3.1canFam3CanFam3.1
Dog10K_Boxer_Tasha567,886,320 - 67,924,028 (+)NCBIDog10K_Boxer_Tasha
ROS_Cfam_1.0568,105,128 - 68,142,858 (+)NCBIROS_Cfam_1.0
ROS_Cfam_1.0 Ensembl568,104,864 - 68,142,853 (+)EnsemblROS_Cfam_1.0 Ensembl
UMICH_Zoey_3.1568,118,095 - 68,155,666 (+)NCBIUMICH_Zoey_3.1
UNSW_CanFamBas_1.0567,954,340 - 67,992,032 (+)NCBIUNSW_CanFamBas_1.0
UU_Cfam_GSD_1.0568,369,594 - 68,407,331 (+)NCBIUU_Cfam_GSD_1.0
Cotl1
(Ictidomys tridecemlineatus - thirteen-lined ground squirrel)
Squirrel AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HiC_Itri_2NW_02440934927,670,703 - 27,705,283 (+)NCBIHiC_Itri_2
SpeTri2.0 EnsemblNW_0049366413,423,144 - 3,455,432 (+)EnsemblSpeTri2.0SpeTri2.0 Ensembl
SpeTri2.0NW_0049366413,422,734 - 3,458,830 (+)NCBISpeTri2.0SpeTri2.0SpeTri2.0
COTL1
(Sus scrofa - pig)
Pig AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Sscrofa11.1 Ensembl64,099,414 - 4,147,469 (+)EnsemblSscrofa11.1susScr11Sscrofa11.1
Sscrofa11.164,099,341 - 4,146,281 (+)NCBISscrofa11.1Sscrofa11.1susScr11Sscrofa11.1
COTL1
(Chlorocebus sabaeus - green monkey)
Green Monkey AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChlSab1.1569,966,655 - 70,019,338 (-)NCBIChlSab1.1ChlSab1.1chlSab2
ChlSab1.1 Ensembl569,967,900 - 70,019,307 (-)EnsemblChlSab1.1ChlSab1.1 EnsemblchlSab2
Vero_WHO_p1.0NW_0236660475,730,731 - 5,784,025 (+)NCBIVero_WHO_p1.0Vero_WHO_p1.0
Cotl1
(Heterocephalus glaber - naked mole-rat)
Naked Mole-Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HetGla_female_1.0 EnsemblNW_0046247461,485,321 - 1,510,276 (-)EnsemblHetGla_female_1.0HetGla_female_1.0 EnsemblhetGla2
HetGla 1.0NW_0046247461,485,301 - 1,510,193 (-)NCBIHetGla_female_1.0HetGla 1.0hetGla2

Variants

.
Variants in Cotl1
158 total Variants
miRNA Target Status

Predicted Target Of
Summary Value
Count of predictions:67
Count of miRNA genes:55
Interacting mature miRNAs:61
Transcripts:ENSRNOT00000021954
Prediction methods:Miranda, Rnahybrid, Targetscan
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.    Full Report CSV TAB Printer Gviewer
RGD IDSymbolNameLODP ValueTraitSub TraitChrStartStopSpecies
1578764Stresp19Stress response QTL 193.60.001blood renin amount (VT:0003349)plasma renin activity level (CMO:0000116)191563020157337602Rat
61350Bp32Blood pressure QTL 320.012arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)192048357557337602Rat
5135224Leukc1Leukocyte quantity QTL 1eosinophil quantity (VT:0002602)blood eosinophil count (CMO:0000033)194434021455283277Rat
724546Kidm3Kidney mass QTL 33.1kidney mass (VT:0002707)calculated kidney weight (CMO:0000160)192932249057337602Rat
2317848Alcrsp21Alcohol response QTL 211.8999999761581420.05response to alcohol trait (VT:0010489)duration of loss of righting reflex (CMO:0002289)19320477748204777Rat
7411549Bw130Body weight QTL 13050.001body mass (VT:0001259)body weight gain (CMO:0000420)191545586057337602Rat
1358200Insglur2Insulin/glucose ratio QTL 24.1blood glucose amount (VT:0000188)serum glucose level (CMO:0000543)193383821455283146Rat
724566Uae12Urinary albumin excretion QTL 125urine albumin amount (VT:0002871)urine albumin level (CMO:0000130)19218792756457239Rat
1331737Uae29Urinary albumin excretion QTL 295.5urine albumin amount (VT:0002871)urine albumin level (CMO:0000130)19409615555283277Rat
2298478Eau8Experimental allergic uveoretinitis QTL 80.0163uvea integrity trait (VT:0010551)experimental autoimmune uveitis score (CMO:0001504)191715443357337602Rat


Expression

RNA-SEQ Expression

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 11 49 113 91 90 59 25 59 6 218 97 93 45 60 31

Sequence


Ensembl Acc Id: ENSRNOT00000021954   ⟹   ENSRNOP00000021954
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2 Ensembl1947,871,694 - 47,911,689 (-)Ensembl
Rnor_6.0 Ensembl1952,465,087 - 52,499,433 (-)Ensembl
RefSeq Acc Id: NM_001108452   ⟹   NP_001101922
RefSeq Status: PROVISIONAL
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr81964,780,309 - 64,814,629 (-)NCBI
mRatBN7.21947,871,689 - 47,906,010 (-)NCBI
Rnor_6.01952,465,074 - 52,499,433 (-)NCBI
Rnor_5.01963,209,153 - 63,243,569 (-)NCBI
RGSC_v3.41950,096,620 - 50,130,253 (-)RGD
Celera1947,128,853 - 47,162,796 (-)RGD
Sequence:
RefSeq Acc Id: NP_001101922   ⟸   NM_001108452
- UniProtKB: B0BNA5 (UniProtKB/Swiss-Prot),   A6IZK6 (UniProtKB/TrEMBL)
- Sequence:
Ensembl Acc Id: ENSRNOP00000021954   ⟸   ENSRNOT00000021954
Protein Domains
ADF-H

Protein Structures
Name Modeler Protein Id AA Range Protein Structure
AF-B0BNA5-F1-model_v2 AlphaFold B0BNA5 1-142 view protein structure

Transcriptome

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

Promoters
RGD ID:13701186
Promoter ID:EPDNEW_R11708
Type:multiple initiation site
Name:Cotl1_1
Description:coactosin-like F-actin binding protein 1
SO ACC ID:SO:0000170
Source:EPDNEW (Eukaryotic Promoter Database, http://epd.vital-it.ch/)
Experiment Methods:Single-end sequencing.
Position:
Rat AssemblyChrPosition (strand)Source
Rnor_6.01952,499,409 - 52,499,469EPDNEW

Additional Information

Database Acc Id Source(s)
AGR Gene RGD:1305498 AgrOrtholog
BioCyc Gene G2FUF-5502 BioCyc
Ensembl Genes ENSRNOG00000016257 Ensembl, UniProtKB/TrEMBL
Ensembl Transcript ENSRNOT00000021954.8 UniProtKB/TrEMBL
Gene3D-CATH 3.40.20.10 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
IMAGE_CLONE IMAGE:9100871 IMAGE-MGC_LOAD
InterPro ADF-H UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  ADF-H/Gelsolin-like_dom_sf UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
KEGG Report rno:361422 UniProtKB/Swiss-Prot
MGC_CLONE MGC:187925 IMAGE-MGC_LOAD
NCBI Gene 361422 ENTREZGENE
PANTHER CORTACTIN AND DREBRIN UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  PTHR10829:SF29 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
Pfam Cofilin_ADF UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
PhenoGen Cotl1 PhenoGen
PROSITE ADF_H UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
RatGTEx ENSRNOG00000016257 RatGTEx
SMART ADF UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
Superfamily-SCOP Actin depolymerizing proteins UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
UniProt A0A8L2QC84_RAT UniProtKB/TrEMBL
  A6IZK6 ENTREZGENE, UniProtKB/TrEMBL
  B0BNA5 ENTREZGENE, UniProtKB/Swiss-Prot


Nomenclature History
Date Current Symbol Current Name Previous Symbol Previous Name Description Reference Status
2014-03-12 Cotl1  coactosin-like F-actin binding protein 1  Cotl1  coactosin-like 1 (Dictyostelium)  Nomenclature updated to reflect human and mouse nomenclature 1299863 APPROVED
2008-04-30 Cotl1  coactosin-like 1 (Dictyostelium)   Cotl1_predicted  coactosin-like 1 (Dictyostelium) (predicted)  'predicted' is removed 2292626 APPROVED
2005-01-12 Cotl1_predicted  coactosin-like 1 (Dictyostelium) (predicted)      Symbol and Name status set to approved 70820 APPROVED