USH2A (usherin) - Rat Genome Database

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Gene: USH2A (usherin) Sus scrofa
Analyze
Symbol: USH2A
Name: usherin
RGD ID: 14290146
Description: ENCODES a protein that exhibits collagen binding (ortholog); identical protein binding (ortholog); myosin binding (ortholog); INVOLVED IN establishment of localization in cell (ortholog); establishment of protein localization (ortholog); hair cell differentiation (ortholog); PARTICIPATES IN auditory mechanotransduction pathway; retinitis pigmentosa pathway; ASSOCIATED WITH anxiety disorder (ortholog); autism spectrum disorder (ortholog); autosomal dominant nonsyndromic deafness 36 (ortholog); FOUND IN apical plasma membrane (ortholog); basement membrane (ortholog); ciliary basal body (ortholog); INTERACTS WITH resveratrol
Type: protein-coding
RefSeq Status: MODEL
RGD Orthologs
Human
Mouse
Rat
Chinchilla
Bonobo
Dog
Squirrel
Green Monkey
Naked Mole-Rat
Alliance Orthologs
More Info more info ...
Latest Assembly: Sscrofa11.1 - Pig Sscrofa11.1 Assembly
Position:
Pig AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Sscrofa11.1105,825,591 - 6,662,733 (-)NCBISscrofa11.1Sscrofa11.1susScr11Sscrofa11.1
Sscrofa10.2107,790,789 - 8,411,655 (-)NCBISscrofa10.2Sscrofa10.2susScr3
JBrowse: View Region in Genome Browser (JBrowse)
Model


Gene-Chemical Interaction Annotations     Click to see Annotation Detail View
resveratrol  (EXP)

Gene Ontology Annotations     Click to see Annotation Detail View

Molecular Function

Molecular Pathway Annotations     Click to see Annotation Detail View
References
Additional References at PubMed
PMID:22301074  


Genomics

Comparative Map Data
USH2A
(Sus scrofa - pig)
Pig AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Sscrofa11.1105,825,591 - 6,662,733 (-)NCBISscrofa11.1Sscrofa11.1susScr11Sscrofa11.1
Sscrofa10.2107,790,789 - 8,411,655 (-)NCBISscrofa10.2Sscrofa10.2susScr3
USH2A
(Homo sapiens - human)
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh381215,622,891 - 216,423,448 (-)NCBIGRCh38GRCh38hg38GRCh38
GRCh38.p14 Ensembl1215,622,891 - 216,423,448 (-)EnsemblGRCh38hg38GRCh38
GRCh371215,796,233 - 216,596,790 (-)NCBIGRCh37GRCh37hg19GRCh37
Build 361213,862,859 - 214,663,361 (-)NCBINCBI36Build 36hg18NCBI36
Build 341212,735,682 - 212,985,133NCBI
Celera1189,020,056 - 189,820,422 (-)NCBICelera
Cytogenetic Map1q41NCBI
HuRef1186,470,498 - 187,272,188 (-)NCBIHuRef
CHM1_11217,068,567 - 217,869,890 (-)NCBICHM1_1
T2T-CHM13v2.01214,863,291 - 215,663,779 (-)NCBIT2T-CHM13v2.0
Ush2a
(Mus musculus - house mouse)
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm391187,995,035 - 188,697,694 (+)NCBIGRCm39GRCm39mm39
GRCm39 Ensembl1187,994,220 - 188,697,238 (+)EnsemblGRCm39 Ensembl
GRCm381188,262,838 - 188,965,497 (+)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl1188,262,023 - 188,965,041 (+)EnsemblGRCm38mm10GRCm38
MGSCv371190,086,717 - 190,788,920 (+)NCBIGRCm37MGSCv37mm9NCBIm37
MGSCv361189,963,822 - 190,665,716 (+)NCBIMGSCv36mm8
Celera1195,189,439 - 195,876,703 (+)NCBICelera
Cytogenetic Map1H6NCBI
cM Map192.29NCBI
Ush2a
(Rattus norvegicus - Norway rat)
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCr813102,368,783 - 103,035,230 (+)NCBIGRCr8
mRatBN7.21399,837,445 - 100,503,935 (+)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl1399,837,445 - 100,503,922 (+)EnsemblmRatBN7.2 Ensembl
UTH_Rnor_SHR_Utx13102,352,932 - 103,019,370 (+)NCBIRnor_SHRUTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.013103,742,004 - 104,408,169 (+)NCBIRnor_SHRSPUTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.013100,938,790 - 101,610,718 (+)NCBIRnor_WKYUTH_Rnor_WKY_Bbb_1.0
Rnor_6.013106,750,738 - 107,434,195 (+)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl13106,751,625 - 107,427,329 (+)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.013111,395,505 - 112,057,548 (+)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.413104,481,807 - 104,606,485 (+)NCBIRGSC3.4RGSC_v3.4rn4RGSC3.4
RGSC_v3.113104,670,849 - 104,795,529 (+)NCBI
Celera1399,331,812 - 99,994,577 (+)NCBICelera
Cytogenetic Map13q26NCBI
Ush2a
(Chinchilla lanigera - long-tailed chinchilla)
Chinchilla AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChiLan1.0 EnsemblNW_0049554061,838,885 - 2,496,980 (+)EnsemblChiLan1.0
ChiLan1.0NW_0049554061,837,831 - 2,499,664 (+)NCBIChiLan1.0ChiLan1.0
USH2A
(Pan paniscus - bonobo/pygmy chimpanzee)
Bonobo AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
NHGRI_mPanPan1-v2132,981,404 - 33,782,083 (+)NCBINHGRI_mPanPan1-v2
NHGRI_mPanPan1132,939,322 - 33,739,723 (+)NCBINHGRI_mPanPan1
Mhudiblu_PPA_v01191,193,130 - 191,994,664 (-)NCBIMhudiblu_PPA_v0Mhudiblu_PPA_v0panPan3
PanPan1.11196,048,086 - 196,850,216 (-)NCBIpanpan1.1PanPan1.1panPan2
PanPan1.1 Ensembl1196,048,086 - 196,850,216 (-)Ensemblpanpan1.1panPan2
USH2A
(Canis lupus familiaris - dog)
Dog AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
CanFam3.13811,063,221 - 11,750,444 (-)NCBICanFam3.1CanFam3.1canFam3CanFam3.1
CanFam3.1 Ensembl3811,063,817 - 11,750,444 (-)EnsemblCanFam3.1canFam3CanFam3.1
Dog10K_Boxer_Tasha3811,100,934 - 11,787,913 (-)NCBIDog10K_Boxer_Tasha
ROS_Cfam_1.03811,089,431 - 11,776,697 (-)NCBIROS_Cfam_1.0
ROS_Cfam_1.0 Ensembl3811,089,576 - 11,776,697 (-)EnsemblROS_Cfam_1.0 Ensembl
UMICH_Zoey_3.13811,101,486 - 11,789,687 (-)NCBIUMICH_Zoey_3.1
UNSW_CanFamBas_1.03811,453,699 - 12,141,739 (-)NCBIUNSW_CanFamBas_1.0
UU_Cfam_GSD_1.03811,739,438 - 12,442,329 (-)NCBIUU_Cfam_GSD_1.0
Ush2a
(Ictidomys tridecemlineatus - thirteen-lined ground squirrel)
Squirrel AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HiC_Itri_2NW_02440934460,113,945 - 60,848,953 (+)NCBIHiC_Itri_2
SpeTri2.0 EnsemblNW_0049366282,123,957 - 2,858,872 (+)EnsemblSpeTri2.0SpeTri2.0 Ensembl
SpeTri2.0NW_0049366282,123,917 - 2,859,958 (+)NCBISpeTri2.0SpeTri2.0SpeTri2.0
USH2A
(Chlorocebus sabaeus - green monkey)
Green Monkey AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChlSab1.12513,171,499 - 13,950,553 (+)NCBIChlSab1.1ChlSab1.1chlSab2
ChlSab1.1 Ensembl2513,173,576 - 13,947,724 (+)EnsemblChlSab1.1ChlSab1.1 EnsemblchlSab2
Vero_WHO_p1.0NW_02366605513,613,553 - 14,394,397 (+)NCBIVero_WHO_p1.0Vero_WHO_p1.0
Ush2a
(Heterocephalus glaber - naked mole-rat)
Naked Mole-Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HetGla_female_1.0 EnsemblNW_00462483549,877 - 758,640 (-)EnsemblHetGla_female_1.0HetGla_female_1.0 EnsemblhetGla2
HetGla 1.0NW_00462483548,213 - 758,640 (-)NCBIHetGla_female_1.0HetGla 1.0hetGla2

Variants

.
Variants in USH2A
45977 total Variants

Expression


Sequence


Reference Sequences
RefSeq Acc Id: XM_021064292   ⟹   XP_020919951
Type: CODING
Position:
Pig AssemblyChrPosition (strand)Source
Sscrofa11.1105,825,591 - 6,662,733 (-)NCBI
Sequence:
Protein Sequences
Protein RefSeqs XP_020919951 (Get FASTA)   NCBI Sequence Viewer  
Ensembl Protein ENSSSCP00000051987.2
  ENSSSCP00005028398.1
Reference Protein Sequences
RefSeq Acc Id: XP_020919951   ⟸   XM_021064292
- UniProtKB: A0A8D0JR06 (UniProtKB/TrEMBL)
- Sequence:
Protein Domains
Fibronectin type-III   Laminin EGF-like   Laminin G   Laminin N-terminal


Additional Information

Database Acc Id Source(s)
Ensembl Genes ENSSSCG00000038066 UniProtKB/TrEMBL
  ENSSSCG00005028246 UniProtKB/TrEMBL
Ensembl Transcript ENSSSCT00000059954.3 UniProtKB/TrEMBL
  ENSSSCT00005046194.1 UniProtKB/TrEMBL
Gene3D-CATH 2.60.120.200 UniProtKB/TrEMBL
  2.60.40.10 UniProtKB/TrEMBL
  Galactose-binding domain-like UniProtKB/TrEMBL
  Laminin UniProtKB/TrEMBL
InterPro ConA-like_dom_sf UniProtKB/TrEMBL
  FN3_dom UniProtKB/TrEMBL
  FN3_sf UniProtKB/TrEMBL
  Ig-like_fold UniProtKB/TrEMBL
  LamG-like UniProtKB/TrEMBL
  Laminin_EGF UniProtKB/TrEMBL
  Laminin_G UniProtKB/TrEMBL
  Laminin_N UniProtKB/TrEMBL
NCBI Gene USH2A ENTREZGENE
PANTHER CYTOKINE RECEPTOR UniProtKB/TrEMBL
  LAMININ SUBUNIT GAMMA-1 UniProtKB/TrEMBL
  NETRIN/LAMININ-RELATED UniProtKB/TrEMBL
  USHERIN UniProtKB/TrEMBL
Pfam fn3 UniProtKB/TrEMBL
  Laminin_EGF UniProtKB/TrEMBL
  Laminin_G_2 UniProtKB/TrEMBL
  Laminin_G_3 UniProtKB/TrEMBL
  Laminin_N UniProtKB/TrEMBL
PRINTS EGFLAMININ UniProtKB/TrEMBL
PROSITE EGF_LAM_1 UniProtKB/TrEMBL
  EGF_LAM_2 UniProtKB/TrEMBL
  FN3 UniProtKB/TrEMBL
  LAM_G_DOMAIN UniProtKB/TrEMBL
  LAMININ_NTER UniProtKB/TrEMBL
SMART EGF_Lam UniProtKB/TrEMBL
  FN3 UniProtKB/TrEMBL
  LamG UniProtKB/TrEMBL
  LamGL UniProtKB/TrEMBL
  LamNT UniProtKB/TrEMBL
Superfamily-SCOP EGF/Laminin UniProtKB/TrEMBL
  SSF49265 UniProtKB/TrEMBL
  SSF49899 UniProtKB/TrEMBL
UniProt A0A287B6R5_PIG UniProtKB/TrEMBL
  A0A8D0JR06 ENTREZGENE, UniProtKB/TrEMBL
VGNC ID VGNC:95561 ENTREZGENE