EPYC (epiphycan) - Rat Genome Database

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Gene: EPYC (epiphycan) Canis lupus familiaris
Analyze
Symbol: EPYC
Name: epiphycan
RGD ID: 12362113
Description: INVOLVED IN articular cartilage development (ortholog); bone development (ortholog); sensory perception of sound (ortholog); ASSOCIATED WITH genetic disease (ortholog); FOUND IN extracellular matrix (inferred); extracellular space (inferred)
Type: protein-coding
RefSeq Status: MODEL
RGD Orthologs
Human
Mouse
Rat
Chinchilla
Bonobo
Squirrel
Pig
Green Monkey
Naked Mole-Rat
Alliance Genes
More Info more info ...
Latest Assembly: CanFam3.1 - Dog CanFam3.1 Assembly
Position:
Dog AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
CanFam3.11531,670,926 - 31,708,667 (-)NCBICanFam3.1CanFam3.1canFam3CanFam3.1
CanFam3.1 Ensembl1531,671,182 - 31,708,674 (-)EnsemblCanFam3.1canFam3CanFam3.1
Dog10K_Boxer_Tasha1532,125,595 - 32,163,398 (-)NCBIDog10K_Boxer_Tasha
ROS_Cfam_1.01532,326,679 - 32,364,492 (-)NCBIROS_Cfam_1.0
ROS_Cfam_1.0 Ensembl1532,326,938 - 32,364,484 (-)EnsemblROS_Cfam_1.0 Ensembl
UMICH_Zoey_3.11531,619,635 - 31,657,393 (-)NCBIUMICH_Zoey_3.1
UNSW_CanFamBas_1.01531,682,947 - 31,720,906 (-)NCBIUNSW_CanFamBas_1.0
UU_Cfam_GSD_1.01531,976,132 - 32,014,138 (-)NCBIUU_Cfam_GSD_1.0
JBrowse: View Region in Genome Browser (JBrowse)
Model


Disease Annotations     Click to see Annotation Detail View

Gene Ontology Annotations     Click to see Annotation Detail View

Biological Process

Cellular Component

References
Additional References at PubMed
PMID:22301074  


Genomics

Comparative Map Data
EPYC
(Canis lupus familiaris - dog)
Dog AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
CanFam3.11531,670,926 - 31,708,667 (-)NCBICanFam3.1CanFam3.1canFam3CanFam3.1
CanFam3.1 Ensembl1531,671,182 - 31,708,674 (-)EnsemblCanFam3.1canFam3CanFam3.1
Dog10K_Boxer_Tasha1532,125,595 - 32,163,398 (-)NCBIDog10K_Boxer_Tasha
ROS_Cfam_1.01532,326,679 - 32,364,492 (-)NCBIROS_Cfam_1.0
ROS_Cfam_1.0 Ensembl1532,326,938 - 32,364,484 (-)EnsemblROS_Cfam_1.0 Ensembl
UMICH_Zoey_3.11531,619,635 - 31,657,393 (-)NCBIUMICH_Zoey_3.1
UNSW_CanFamBas_1.01531,682,947 - 31,720,906 (-)NCBIUNSW_CanFamBas_1.0
UU_Cfam_GSD_1.01531,976,132 - 32,014,138 (-)NCBIUU_Cfam_GSD_1.0
EPYC
(Homo sapiens - human)
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh381290,963,682 - 91,004,972 (-)NCBIGRCh38GRCh38hg38GRCh38
GRCh38.p14 Ensembl1290,963,682 - 91,005,026 (-)EnsemblGRCh38hg38GRCh38
GRCh371291,357,459 - 91,398,749 (-)NCBIGRCh37GRCh37hg19GRCh37
Build 361289,881,591 - 89,922,934 (-)NCBINCBI36Build 36hg18NCBI36
Build 341289,859,933 - 89,901,275NCBI
Celera1291,028,588 - 91,069,952 (-)NCBICelera
Cytogenetic Map12q21.33NCBI
HuRef1288,425,207 - 88,466,578 (-)NCBIHuRef
CHM1_11291,322,430 - 91,363,770 (-)NCBICHM1_1
T2T-CHM13v2.01290,941,190 - 90,982,485 (-)NCBIT2T-CHM13v2.0
Epyc
(Mus musculus - house mouse)
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm391097,479,930 - 97,517,770 (+)NCBIGRCm39GRCm39mm39
GRCm39 Ensembl1097,479,930 - 97,518,316 (+)EnsemblGRCm39 Ensembl
GRCm381097,644,068 - 97,681,908 (+)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl1097,644,068 - 97,682,454 (+)EnsemblGRCm38mm10GRCm38
MGSCv371097,106,702 - 97,144,534 (+)NCBIGRCm37MGSCv37mm9NCBIm37
MGSCv361097,073,756 - 97,111,588 (+)NCBIMGSCv36mm8
Celera1099,615,059 - 99,652,892 (+)NCBICelera
Cytogenetic Map10C3NCBI
cM Map1050.35NCBI
Epyc
(Rattus norvegicus - Norway rat)
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCr8734,323,332 - 34,360,845 (+)NCBIGRCr8
mRatBN7.2732,436,620 - 32,474,326 (+)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl732,436,620 - 32,474,135 (+)EnsemblmRatBN7.2 Ensembl
UTH_Rnor_SHR_Utx734,410,533 - 34,448,089 (+)NCBIRnor_SHRUTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.0736,592,032 - 36,629,589 (+)NCBIRnor_SHRSPUTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.0736,333,092 - 36,370,648 (+)NCBIRnor_WKYUTH_Rnor_WKY_Bbb_1.0
Rnor_6.0738,897,278 - 38,934,989 (+)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl738,897,278 - 38,934,985 (+)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.0738,938,395 - 38,984,932 (+)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.4735,160,934 - 35,198,459 (+)NCBIRGSC3.4RGSC_v3.4rn4RGSC3.4
RGSC_v3.1735,184,757 - 35,218,169 (+)NCBI
Celera729,474,164 - 29,511,625 (+)NCBICelera
Cytogenetic Map7q13NCBI
Epyc
(Chinchilla lanigera - long-tailed chinchilla)
Chinchilla AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChiLan1.0 EnsemblNW_00495540528,182,829 - 28,212,870 (-)EnsemblChiLan1.0
ChiLan1.0NW_00495540528,182,890 - 28,212,864 (-)NCBIChiLan1.0ChiLan1.0
EPYC
(Pan paniscus - bonobo/pygmy chimpanzee)
Bonobo AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
NHGRI_mPanPan1-v21098,996,926 - 99,038,247 (-)NCBINHGRI_mPanPan1-v2
NHGRI_mPanPan11298,993,320 - 99,034,641 (-)NCBINHGRI_mPanPan1
Mhudiblu_PPA_v01288,497,063 - 88,538,440 (-)NCBIMhudiblu_PPA_v0Mhudiblu_PPA_v0panPan3
PanPan1.11291,812,513 - 91,853,875 (-)NCBIpanpan1.1PanPan1.1panPan2
PanPan1.1 Ensembl1291,812,513 - 91,853,875 (-)Ensemblpanpan1.1panPan2
Epyc
(Ictidomys tridecemlineatus - thirteen-lined ground squirrel)
Squirrel AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HiC_Itri_2NW_02440494528,473,084 - 28,509,259 (+)NCBIHiC_Itri_2
SpeTri2.0 EnsemblNW_0049365077,726,646 - 7,759,989 (-)EnsemblSpeTri2.0SpeTri2.0 Ensembl
SpeTri2.0NW_0049365077,726,539 - 7,759,989 (-)NCBISpeTri2.0SpeTri2.0SpeTri2.0
EPYC
(Sus scrofa - pig)
Pig AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Sscrofa11.1 Ensembl591,832,291 - 91,877,982 (+)EnsemblSscrofa11.1susScr11Sscrofa11.1
Sscrofa11.1591,837,672 - 91,877,779 (+)NCBISscrofa11.1Sscrofa11.1susScr11Sscrofa11.1
Sscrofa10.2596,316,644 - 96,356,417 (+)NCBISscrofa10.2Sscrofa10.2susScr3
EPYC
(Chlorocebus sabaeus - green monkey)
Green Monkey AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChlSab1.11186,373,807 - 86,423,670 (-)NCBIChlSab1.1ChlSab1.1chlSab2
ChlSab1.1 Ensembl1186,374,285 - 86,419,226 (-)EnsemblChlSab1.1ChlSab1.1 EnsemblchlSab2
Vero_WHO_p1.0NW_023666037158,763,843 - 158,811,341 (+)NCBIVero_WHO_p1.0Vero_WHO_p1.0
Epyc
(Heterocephalus glaber - naked mole-rat)
Naked Mole-Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HetGla_female_1.0 EnsemblNW_00462475015,655,736 - 15,689,563 (+)EnsemblHetGla_female_1.0HetGla_female_1.0 EnsemblhetGla2
HetGla 1.0NW_00462475015,655,736 - 15,689,787 (+)NCBIHetGla_female_1.0HetGla 1.0hetGla2

Variants

.
Variants in EPYC
540 total Variants

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 reproductive system respiratory system adipose tissue
High
Medium 1 1 3
Low 1 1 5 7 3
Below cutoff 4 4 9 1 4 1 5 6 9 8 2

Sequence

Nucleotide Sequences
RefSeq Transcripts XM_005629219 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_014119758 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_014119759 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_038496244 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_038496245 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_038558631 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_038558632 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_038622530 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_038622531 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_038688217 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_038688218 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
GenBank Nucleotide AAEX04000015 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  JAAHUQ010000165 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  JAAQRD010000020 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  JAAUVH010000372 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  REHQ01000015 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles

Reference Sequences
RefSeq Acc Id: ENSCAFT00000009916   ⟹   ENSCAFP00000009203
Type: CODING
Position:
Dog AssemblyChrPosition (strand)Source
CanFam3.1 Ensembl1531,671,182 - 31,708,674 (-)Ensembl
RefSeq Acc Id: ENSCAFT00845034541   ⟹   ENSCAFP00845027061
Type: CODING
Position:
Dog AssemblyChrPosition (strand)Source
ROS_Cfam_1.0 Ensembl1532,326,938 - 32,364,484 (-)Ensembl
RefSeq Acc Id: XM_014119758   ⟹   XP_013975233
Type: CODING
Position:
Dog AssemblyChrPosition (strand)Source
CanFam3.11531,670,926 - 31,708,667 (-)NCBI
Dog10K_Boxer_Tasha1532,125,595 - 32,163,398 (-)NCBI
Sequence:
RefSeq Acc Id: XM_014119759   ⟹   XP_013975234
Type: CODING
Position:
Dog AssemblyChrPosition (strand)Source
CanFam3.11531,670,926 - 31,708,628 (-)NCBI
Dog10K_Boxer_Tasha1532,125,595 - 32,163,277 (-)NCBI
Sequence:
RefSeq Acc Id: XM_038496244   ⟹   XP_038352172
Type: CODING
Position:
Dog AssemblyChrPosition (strand)Source
UMICH_Zoey_3.11531,619,635 - 31,657,393 (-)NCBI
RefSeq Acc Id: XM_038496245   ⟹   XP_038352173
Type: CODING
Position:
Dog AssemblyChrPosition (strand)Source
UMICH_Zoey_3.11531,619,635 - 31,657,269 (-)NCBI
RefSeq Acc Id: XM_038558631   ⟹   XP_038414559
Type: CODING
Position:
Dog AssemblyChrPosition (strand)Source
UU_Cfam_GSD_1.01531,976,132 - 32,014,138 (-)NCBI
RefSeq Acc Id: XM_038558632   ⟹   XP_038414560
Type: CODING
Position:
Dog AssemblyChrPosition (strand)Source
UU_Cfam_GSD_1.01531,976,132 - 32,014,017 (-)NCBI
RefSeq Acc Id: XM_038622530   ⟹   XP_038478458
Type: CODING
Position:
Dog AssemblyChrPosition (strand)Source
UNSW_CanFamBas_1.01531,682,947 - 31,720,906 (-)NCBI
RefSeq Acc Id: XM_038622531   ⟹   XP_038478459
Type: CODING
Position:
Dog AssemblyChrPosition (strand)Source
UNSW_CanFamBas_1.01531,682,947 - 31,720,783 (-)NCBI
RefSeq Acc Id: XM_038688217   ⟹   XP_038544145
Type: CODING
Position:
Dog AssemblyChrPosition (strand)Source
ROS_Cfam_1.01532,326,679 - 32,364,492 (-)NCBI
RefSeq Acc Id: XM_038688218   ⟹   XP_038544146
Type: CODING
Position:
Dog AssemblyChrPosition (strand)Source
ROS_Cfam_1.01532,326,679 - 32,364,371 (-)NCBI
Reference Protein Sequences
RefSeq Acc Id: XP_013975233   ⟸   XM_014119758
- UniProtKB: A0A8C0SX28 (UniProtKB/TrEMBL),   A0A8I3S169 (UniProtKB/TrEMBL),   A0A8C0LEB4 (UniProtKB/TrEMBL)
- Sequence:
RefSeq Acc Id: XP_013975234   ⟸   XM_014119759
- UniProtKB: A0A8C0SX28 (UniProtKB/TrEMBL),   A0A8I3S169 (UniProtKB/TrEMBL),   A0A8C0LEB4 (UniProtKB/TrEMBL)
- Sequence:
RefSeq Acc Id: ENSCAFP00000009203   ⟸   ENSCAFT00000009916
RefSeq Acc Id: XP_038352172   ⟸   XM_038496244
RefSeq Acc Id: XP_038352173   ⟸   XM_038496245
RefSeq Acc Id: XP_038478458   ⟸   XM_038622530
RefSeq Acc Id: XP_038478459   ⟸   XM_038622531
RefSeq Acc Id: XP_038544145   ⟸   XM_038688217
- UniProtKB: A0A8C0SX28 (UniProtKB/TrEMBL),   A0A8I3S169 (UniProtKB/TrEMBL),   A0A8C0LEB4 (UniProtKB/TrEMBL)
RefSeq Acc Id: XP_038544146   ⟸   XM_038688218
- UniProtKB: A0A8C0SX28 (UniProtKB/TrEMBL),   A0A8I3S169 (UniProtKB/TrEMBL),   A0A8C0LEB4 (UniProtKB/TrEMBL)
RefSeq Acc Id: XP_038414559   ⟸   XM_038558631
- UniProtKB: A0A8C0LEB4 (UniProtKB/TrEMBL),   A0A8C0SX28 (UniProtKB/TrEMBL),   A0A8I3S169 (UniProtKB/TrEMBL)
RefSeq Acc Id: XP_038414560   ⟸   XM_038558632
- UniProtKB: A0A8C0LEB4 (UniProtKB/TrEMBL),   A0A8C0SX28 (UniProtKB/TrEMBL),   A0A8I3S169 (UniProtKB/TrEMBL)
RefSeq Acc Id: ENSCAFP00845027061   ⟸   ENSCAFT00845034541
Protein Domains
LRRNT


Additional Information

Database Acc Id Source(s)
Ensembl Genes ENSCAFG00000006129 Ensembl, UniProtKB/TrEMBL
  ENSCAFG00030007609 UniProtKB/TrEMBL
  ENSCAFG00030016504 UniProtKB/TrEMBL
  ENSCAFG00040016780 UniProtKB/TrEMBL
  ENSCAFG00845019572 Ensembl, ENTREZGENE, UniProtKB/TrEMBL
Ensembl Transcript ENSCAFT00000009916.5 UniProtKB/TrEMBL
  ENSCAFT00030013942.1 UniProtKB/TrEMBL
  ENSCAFT00030013994.1 UniProtKB/TrEMBL
  ENSCAFT00030014053.1 UniProtKB/TrEMBL
  ENSCAFT00030030426.1 UniProtKB/TrEMBL
  ENSCAFT00040030974.1 UniProtKB/TrEMBL
  ENSCAFT00845034541 ENTREZGENE
  ENSCAFT00845034541.1 UniProtKB/TrEMBL
Gene3D-CATH 3.80.10.10 UniProtKB/TrEMBL
InterPro Leu-rich_rpt UniProtKB/TrEMBL
  Leu-rich_rpt_typical-subtyp UniProtKB/TrEMBL
  LRR_dom_sf UniProtKB/TrEMBL
  LRRNT UniProtKB/TrEMBL
  Mimecan/Epiphycan UniProtKB/TrEMBL
KEGG Report cfa:100855602 UniProtKB/TrEMBL
NCBI Gene EPYC ENTREZGENE
PANTHER PTHR46269 UniProtKB/TrEMBL
  PTHR46269:SF3 UniProtKB/TrEMBL
Pfam LRR_1 UniProtKB/TrEMBL
  LRR_8 UniProtKB/TrEMBL
  LRRNT UniProtKB/TrEMBL
PROSITE LRR UniProtKB/TrEMBL
SMART LRR_TYP UniProtKB/TrEMBL
  LRRNT UniProtKB/TrEMBL
Superfamily-SCOP L domain-like UniProtKB/TrEMBL
UniProt A0A8C0LEB4 ENTREZGENE
  A0A8C0MLP3_CANLF UniProtKB/TrEMBL
  A0A8C0MP06_CANLF UniProtKB/TrEMBL
  A0A8C0SX28 ENTREZGENE, UniProtKB/TrEMBL
  A0A8I3S169 ENTREZGENE, UniProtKB/TrEMBL
VGNC ID VGNC:40431 ENTREZGENE