RPTN (repetin) - Rat Genome Database

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Gene: RPTN (repetin) Canis lupus familiaris
Analyze
Symbol: RPTN
Name: repetin
RGD ID: 12300611
Description: ENCODES a protein that exhibits calcium ion binding (inferred); metal ion binding (inferred); transition metal ion binding (inferred); ASSOCIATED WITH gastrointestinal stromal tumor (ortholog); immunodeficiency 42 (ortholog); MHC class II deficiency (ortholog); FOUND IN cornified envelope (inferred)
Type: protein-coding
RefSeq Status: MODEL
RGD Orthologs
Human
Mouse
Rat
Chinchilla
Bonobo
Squirrel
Pig
Green Monkey
Alliance Orthologs
More Info more info ...
Latest Assembly: CanFam3.1 - Dog CanFam3.1 Assembly
Position:
Dog AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
CanFam3.11761,133,204 - 61,136,828 (-)NCBICanFam3.1CanFam3.1canFam3CanFam3.1
CanFam3.1 Ensembl1761,133,204 - 61,136,844 (-)EnsemblCanFam3.1canFam3CanFam3.1
Dog10K_Boxer_Tasha1760,576,499 - 60,580,831 (-)NCBIDog10K_Boxer_Tasha
ROS_Cfam_1.01762,152,277 - 62,156,733 (-)NCBIROS_Cfam_1.0
ROS_Cfam_1.0 Ensembl1762,152,260 - 62,158,024 (-)EnsemblROS_Cfam_1.0 Ensembl
UMICH_Zoey_3.11760,980,231 - 60,984,607 (-)NCBIUMICH_Zoey_3.1
UNSW_CanFamBas_1.01761,065,498 - 61,069,933 (-)NCBIUNSW_CanFamBas_1.0
UU_Cfam_GSD_1.01761,795,530 - 61,799,904 (-)NCBIUU_Cfam_GSD_1.0
JBrowse: View Region in Genome Browser (JBrowse)
Model


Gene Ontology Annotations     Click to see Annotation Detail View

Cellular Component

Molecular Function

References
Additional References at PubMed
PMID:22301074   PMID:30032202  


Genomics

Comparative Map Data
RPTN
(Canis lupus familiaris - dog)
Dog AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
CanFam3.11761,133,204 - 61,136,828 (-)NCBICanFam3.1CanFam3.1canFam3CanFam3.1
CanFam3.1 Ensembl1761,133,204 - 61,136,844 (-)EnsemblCanFam3.1canFam3CanFam3.1
Dog10K_Boxer_Tasha1760,576,499 - 60,580,831 (-)NCBIDog10K_Boxer_Tasha
ROS_Cfam_1.01762,152,277 - 62,156,733 (-)NCBIROS_Cfam_1.0
ROS_Cfam_1.0 Ensembl1762,152,260 - 62,158,024 (-)EnsemblROS_Cfam_1.0 Ensembl
UMICH_Zoey_3.11760,980,231 - 60,984,607 (-)NCBIUMICH_Zoey_3.1
UNSW_CanFamBas_1.01761,065,498 - 61,069,933 (-)NCBIUNSW_CanFamBas_1.0
UU_Cfam_GSD_1.01761,795,530 - 61,799,904 (-)NCBIUU_Cfam_GSD_1.0
RPTN
(Homo sapiens - human)
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh381152,153,595 - 152,159,228 (-)NCBIGRCh38GRCh38hg38GRCh38
GRCh38.p14 Ensembl1152,153,595 - 152,159,228 (-)EnsemblGRCh38hg38GRCh38
GRCh371152,126,071 - 152,131,704 (-)NCBIGRCh37GRCh37hg19GRCh37
Build 361150,392,695 - 150,398,328 (-)NCBINCBI36Build 36hg18NCBI36
Celera1125,240,750 - 125,246,385 (-)NCBICelera
Cytogenetic Map1q21.3NCBI
HuRef1123,503,255 - 123,508,887 (-)NCBIHuRef
CHM1_11153,521,401 - 153,527,034 (-)NCBICHM1_1
T2T-CHM13v2.01151,277,164 - 151,282,795 (-)NCBIT2T-CHM13v2.0
Rptn
(Mus musculus - house mouse)
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm39393,301,006 - 93,306,749 (+)NCBIGRCm39GRCm39mm39
GRCm39 Ensembl393,301,006 - 93,306,749 (+)EnsemblGRCm39 Ensembl
GRCm38393,393,699 - 93,399,442 (+)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl393,393,699 - 93,399,442 (+)EnsemblGRCm38mm10GRCm38
MGSCv37393,197,621 - 93,203,364 (+)NCBIGRCm37MGSCv37mm9NCBIm37
MGSCv36393,479,103 - 93,484,846 (+)NCBIMGSCv36mm8
Celera393,696,638 - 93,702,381 (-)NCBICelera
Cytogenetic Map3F2.1NCBI
cM Map340.51NCBI
Rptn
(Rattus norvegicus - Norway rat)
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCr82181,743,463 - 181,750,101 (+)NCBIGRCr8
mRatBN7.22179,061,768 - 179,066,056 (+)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl2179,060,017 - 179,065,910 (+)EnsemblmRatBN7.2 Ensembl
Rnor_6.02193,722,394 - 193,729,040 (+)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl2193,724,248 - 193,728,302 (+)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.02211,138,880 - 211,144,821 (-)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.42186,483,053 - 186,487,110 (+)NCBIRGSC3.4RGSC_v3.4rn4RGSC3.4
RGSC_v3.12186,433,158 - 186,437,216 (+)NCBI
Celera2171,219,729 - 171,226,375 (-)NCBICelera
Cytogenetic Map2q34NCBI
Rptn
(Chinchilla lanigera - long-tailed chinchilla)
Chinchilla AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChiLan1.0NW_004955589245,804 - 252,190 (+)NCBIChiLan1.0ChiLan1.0
RPTN
(Pan paniscus - bonobo/pygmy chimpanzee)
Bonobo AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
NHGRI_mPanPan1-v2197,633,600 - 97,670,066 (+)NCBINHGRI_mPanPan1-v2
NHGRI_mPanPan1197,384,830 - 97,421,289 (+)NCBINHGRI_mPanPan1
Mhudiblu_PPA_v01127,512,265 - 127,518,017 (-)NCBIMhudiblu_PPA_v0Mhudiblu_PPA_v0panPan3
PanPan1.11131,154,900 - 131,158,060 (-)NCBIpanpan1.1PanPan1.1panPan2
Rptn
(Ictidomys tridecemlineatus - thirteen-lined ground squirrel)
Squirrel AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HiC_Itri_2NW_02440505823,261,892 - 23,292,253 (-)NCBIHiC_Itri_2
RPTN
(Sus scrofa - pig)
Pig AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Sscrofa11.1497,127,078 - 97,131,903 (+)NCBISscrofa11.1Sscrofa11.1susScr11Sscrofa11.1
Sscrofa10.24106,124,172 - 106,128,842 (+)NCBISscrofa10.2Sscrofa10.2susScr3
RPTN
(Chlorocebus sabaeus - green monkey)
Green Monkey AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChlSab1.12011,490,879 - 11,498,433 (+)NCBIChlSab1.1ChlSab1.1chlSab2
Vero_WHO_p1.0NW_02366603811,051,779 - 11,055,962 (+)NCBIVero_WHO_p1.0Vero_WHO_p1.0

Variants

.
Variants in RPTN
71 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 endocrine system integumental system nervous system reproductive system respiratory system
High
Medium 1
Low 5
Below cutoff 1 3 3 8 1

Sequence


Reference Sequences
RefSeq Acc Id: ENSCAFT00000020605   ⟹   ENSCAFP00000019123
Type: CODING
Position:
Dog AssemblyChrPosition (strand)Source
CanFam3.1 Ensembl1761,133,204 - 61,136,844 (-)Ensembl
RefSeq Acc Id: ENSCAFT00845045553   ⟹   ENSCAFP00845035732
Type: CODING
Position:
Dog AssemblyChrPosition (strand)Source
ROS_Cfam_1.0 Ensembl1762,152,260 - 62,158,024 (-)Ensembl
RefSeq Acc Id: XM_038423226   ⟹   XP_038279154
Type: CODING
Position:
Dog AssemblyChrPosition (strand)Source
ROS_Cfam_1.01762,152,277 - 62,156,733 (-)NCBI
RefSeq Acc Id: XM_038453418   ⟹   XP_038309346
Type: CODING
Position:
Dog AssemblyChrPosition (strand)Source
Dog10K_Boxer_Tasha1760,576,499 - 60,580,831 (-)NCBI
RefSeq Acc Id: XM_038499711   ⟹   XP_038355639
Type: CODING
Position:
Dog AssemblyChrPosition (strand)Source
UMICH_Zoey_3.11760,980,231 - 60,984,607 (-)NCBI
RefSeq Acc Id: XM_038562284   ⟹   XP_038418212
Type: CODING
Position:
Dog AssemblyChrPosition (strand)Source
UU_Cfam_GSD_1.01761,795,530 - 61,799,904 (-)NCBI
RefSeq Acc Id: XM_038626376   ⟹   XP_038482304
Type: CODING
Position:
Dog AssemblyChrPosition (strand)Source
UNSW_CanFamBas_1.01761,065,498 - 61,069,933 (-)NCBI
Reference Protein Sequences
RefSeq Acc Id: ENSCAFP00000019123   ⟸   ENSCAFT00000020605
RefSeq Acc Id: XP_038355639   ⟸   XM_038499711
- Peptide Label: isoform X1
RefSeq Acc Id: XP_038482304   ⟸   XM_038626376
- Peptide Label: isoform X2
RefSeq Acc Id: XP_038279154   ⟸   XM_038423226
- Peptide Label: isoform X1
- UniProtKB: A0A8I3PMI7 (UniProtKB/TrEMBL)
RefSeq Acc Id: XP_038309346   ⟸   XM_038453418
- Peptide Label: isoform X1
- UniProtKB: A0A8P0TJ48 (UniProtKB/TrEMBL)
RefSeq Acc Id: XP_038418212   ⟸   XM_038562284
- Peptide Label: isoform X1
RefSeq Acc Id: ENSCAFP00845035732   ⟸   ENSCAFT00845045553
Protein Domains
EF-hand


Additional Information

Database Acc Id Source(s)
Ensembl Genes ENSCAFG00000012978 Ensembl
  ENSCAFG00000053948 UniProtKB/TrEMBL
  ENSCAFG00845025826 Ensembl, ENTREZGENE, UniProtKB/TrEMBL
Ensembl Transcript ENSCAFT00000100719.1 UniProtKB/TrEMBL
  ENSCAFT00845045553 ENTREZGENE
  ENSCAFT00845045553.1 UniProtKB/TrEMBL
Gene3D-CATH EF-hand UniProtKB/TrEMBL
InterPro EF-hand-dom_pair UniProtKB/TrEMBL
  EF_Hand_1_Ca_BS UniProtKB/TrEMBL
  EF_hand_dom UniProtKB/TrEMBL
  RPTN UniProtKB/TrEMBL
  S-100_dom UniProtKB/TrEMBL
  S100/CaBP7/8-like_CS UniProtKB/TrEMBL
  S100_Ca-bd_sub UniProtKB/TrEMBL
NCBI Gene RPTN ENTREZGENE
PANTHER PTHR14054 UniProtKB/TrEMBL
  REPETIN UniProtKB/TrEMBL
Pfam S_100 UniProtKB/TrEMBL
PROSITE EF_HAND_1 UniProtKB/TrEMBL
  EF_HAND_2 UniProtKB/TrEMBL
  S100_CABP UniProtKB/TrEMBL
SMART S_100 UniProtKB/TrEMBL
Superfamily-SCOP SSF47473 UniProtKB/TrEMBL
UniProt A0A8I3PMI7 ENTREZGENE, UniProtKB/TrEMBL
  A0A8P0TJ48 ENTREZGENE, UniProtKB/TrEMBL
VGNC ID VGNC:58330 ENTREZGENE