LOC480786 (regenerating islet-derived protein 4) - Rat Genome Database

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Gene: LOC480786 (regenerating islet-derived protein 4) Canis lupus familiaris
Analyze
Symbol: LOC480786
Name: regenerating islet-derived protein 4
RGD ID: 12131400
Description: ENCODES a protein that exhibits calcium ion binding (ortholog); heparin binding (ortholog); mannan binding (ortholog); INVOLVED IN response to bacterium (ortholog); ASSOCIATED WITH genetic disease (ortholog); Hajdu-Cheney syndrome (ortholog); PHGDH deficiency (ortholog); FOUND IN cytoplasm (ortholog)
Type: protein-coding
RefSeq Status: MODEL
Previously known as: LOC475818; LOC491520; REG4; regenerating family member 4; regenerating islet-derived protein 4-like
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
CanFam3.11756,728,398 - 56,772,734 (-)NCBICanFam3.1CanFam3.1canFam3CanFam3.1
Dog10K_Boxer_Tasha1756,358,130 - 56,401,548 (-)NCBIDog10K_Boxer_Tasha
ROS_Cfam_1.01757,607,371 - 57,651,483 (-)NCBIROS_Cfam_1.0
UMICH_Zoey_3.11756,643,715 - 56,688,041 (-)NCBIUMICH_Zoey_3.1
UNSW_CanFamBas_1.01756,668,944 - 56,713,307 (-)NCBIUNSW_CanFamBas_1.0
UU_Cfam_GSD_1.01757,286,313 - 57,330,468 (-)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

Cellular Component

Molecular Function

References
Additional References at PubMed
PMID:30032202  


Genomics

Comparative Map Data
LOC480786
(Canis lupus familiaris - dog)
Dog AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
CanFam3.11756,728,398 - 56,772,734 (-)NCBICanFam3.1CanFam3.1canFam3CanFam3.1
Dog10K_Boxer_Tasha1756,358,130 - 56,401,548 (-)NCBIDog10K_Boxer_Tasha
ROS_Cfam_1.01757,607,371 - 57,651,483 (-)NCBIROS_Cfam_1.0
UMICH_Zoey_3.11756,643,715 - 56,688,041 (-)NCBIUMICH_Zoey_3.1
UNSW_CanFamBas_1.01756,668,944 - 56,713,307 (-)NCBIUNSW_CanFamBas_1.0
UU_Cfam_GSD_1.01757,286,313 - 57,330,468 (-)NCBIUU_Cfam_GSD_1.0
REG4
(Homo sapiens - human)
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh381119,794,017 - 119,811,460 (-)NCBIGRCh38GRCh38hg38GRCh38
GRCh38.p14 Ensembl1119,794,017 - 119,811,580 (-)EnsemblGRCh38hg38GRCh38
GRCh371120,336,640 - 120,354,083 (-)NCBIGRCh37GRCh37hg19GRCh37
Build 361120,138,231 - 120,155,726 (-)NCBINCBI36Build 36hg18NCBI36
Build 341120,048,750 - 120,066,245NCBI
Celera1118,567,357 - 118,584,911 (-)NCBICelera
Cytogenetic Map1p12NCBI
HuRef1118,195,171 - 118,212,723 (-)NCBIHuRef
CHM1_11120,452,143 - 120,469,705 (-)NCBICHM1_1
T2T-CHM13v2.01119,807,250 - 119,824,685 (-)NCBIT2T-CHM13v2.0
Reg4
(Mus musculus - house mouse)
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm39398,129,454 - 98,144,064 (+)NCBIGRCm39GRCm39mm39
GRCm39 Ensembl398,129,472 - 98,144,064 (+)EnsemblGRCm39 Ensembl
GRCm38398,222,138 - 98,236,748 (+)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl398,222,156 - 98,236,748 (+)EnsemblGRCm38mm10GRCm38
MGSCv37398,026,079 - 98,040,671 (+)NCBIGRCm37MGSCv37mm9NCBIm37
MGSCv36398,307,558 - 98,322,153 (+)NCBIMGSCv36mm8
Celera399,621,376 - 99,635,984 (+)NCBICelera
Cytogenetic Map3F2.2NCBI
cM Map342.73NCBI
Reg4
(Rattus norvegicus - Norway rat)
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCr82188,507,684 - 188,521,990 (+)NCBIGRCr8
mRatBN7.22185,818,946 - 185,833,252 (+)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl2185,821,210 - 185,833,353 (+)EnsemblmRatBN7.2 Ensembl
UTH_Rnor_SHR_Utx2193,469,977 - 193,481,571 (+)NCBIRnor_SHRUTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.02191,278,758 - 191,290,273 (+)NCBIRnor_SHRSPUTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.02186,102,549 - 186,114,143 (+)NCBIRnor_WKYUTH_Rnor_WKY_Bbb_1.0
Rnor_6.02200,395,253 - 200,410,009 (+)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl2200,397,967 - 200,409,528 (+)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.02219,871,507 - 219,885,867 (+)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.42193,066,427 - 193,077,988 (+)NCBIRGSC3.4RGSC_v3.4rn4RGSC3.4
RGSC_v3.12193,029,180 - 193,040,742 (+)NCBI
Celera2178,310,036 - 178,321,597 (+)NCBICelera
Cytogenetic Map2q34NCBI
Reg4
(Chinchilla lanigera - long-tailed chinchilla)
Chinchilla AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChiLan1.0NW_00495543522,886,351 - 22,895,884 (-)NCBIChiLan1.0ChiLan1.0
REG4
(Pan paniscus - bonobo/pygmy chimpanzee)
Bonobo AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
NHGRI_mPanPan1-v21112,417,443 - 112,434,874 (-)NCBINHGRI_mPanPan1-v2
NHGRI_mPanPan11112,019,785 - 112,037,219 (-)NCBINHGRI_mPanPan1
Mhudiblu_PPA_v0182,735,390 - 82,753,262 (+)NCBIMhudiblu_PPA_v0Mhudiblu_PPA_v0panPan3
PanPan1.11117,733,515 - 117,751,044 (+)NCBIpanpan1.1PanPan1.1panPan2
PanPan1.1 Ensembl1117,733,515 - 117,751,044 (+)Ensemblpanpan1.1panPan2
Reg4
(Ictidomys tridecemlineatus - thirteen-lined ground squirrel)
Squirrel AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HiC_Itri_2NW_0244050589,966,375 - 9,976,280 (+)NCBIHiC_Itri_2
SpeTri2.0 EnsemblNW_0049366274,512,726 - 4,520,080 (-)EnsemblSpeTri2.0SpeTri2.0 Ensembl
SpeTri2.0NW_0049366274,512,726 - 4,520,080 (-)NCBISpeTri2.0SpeTri2.0SpeTri2.0
REG4
(Sus scrofa - pig)
Pig AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Sscrofa11.1 Ensembl4101,337,282 - 101,357,025 (+)EnsemblSscrofa11.1susScr11Sscrofa11.1
Sscrofa11.14101,337,295 - 101,354,550 (+)NCBISscrofa11.1Sscrofa11.1susScr11Sscrofa11.1
Sscrofa10.24111,239,504 - 111,256,760 (+)NCBISscrofa10.2Sscrofa10.2susScr3
REG4
(Chlorocebus sabaeus - green monkey)
Green Monkey AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChlSab1.12013,975,721 - 13,995,645 (+)NCBIChlSab1.1ChlSab1.1chlSab2
ChlSab1.1 Ensembl2013,978,512 - 13,993,678 (+)EnsemblChlSab1.1ChlSab1.1 EnsemblchlSab2
Vero_WHO_p1.0NW_02366603816,606,542 - 16,624,406 (+)NCBIVero_WHO_p1.0Vero_WHO_p1.0
Reg4
(Heterocephalus glaber - naked mole-rat)
Naked Mole-Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HetGla_female_1.0 EnsemblNW_00462477215,386,024 - 15,398,761 (+)EnsemblHetGla_female_1.0HetGla_female_1.0 EnsemblhetGla2
HetGla 1.0NW_00462477215,385,265 - 15,399,281 (+)NCBIHetGla_female_1.0HetGla 1.0hetGla2

Variants

.
Variants in LOC480786
820 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 8
Low 1 1 1
Below cutoff 4 5 20 5 5 5 5 2 12 9 5

Sequence

Nucleotide Sequences
RefSeq Transcripts XM_005630687 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_022404893 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_038422866 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_038422867 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_038422868 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_038499361 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_038499362 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_038499363 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_038561928 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_038561929 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_038561930 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_038626000 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_038626001 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_038626002 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_549728 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
GenBank Nucleotide AAEX04000017 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  JAAHUQ010000206 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  JAAQRD010000035 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  JAAUVH010000359 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  REHQ01000017 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles

Reference Sequences
RefSeq Acc Id: XM_022404893   ⟹   XP_022260601
Type: CODING
Position:
Dog AssemblyChrPosition (strand)Source
CanFam3.11756,728,398 - 56,772,652 (-)NCBI
Dog10K_Boxer_Tasha1756,358,130 - 56,401,548 (-)NCBI
Sequence:
RefSeq Acc Id: XM_038422866   ⟹   XP_038278794
Type: CODING
Position:
Dog AssemblyChrPosition (strand)Source
ROS_Cfam_1.01757,607,371 - 57,651,483 (-)NCBI
RefSeq Acc Id: XM_038422867   ⟹   XP_038278795
Type: CODING
Position:
Dog AssemblyChrPosition (strand)Source
ROS_Cfam_1.01757,607,371 - 57,651,453 (-)NCBI
RefSeq Acc Id: XM_038422868   ⟹   XP_038278796
Type: CODING
Position:
Dog AssemblyChrPosition (strand)Source
ROS_Cfam_1.01757,607,371 - 57,651,380 (-)NCBI
RefSeq Acc Id: XM_038499361   ⟹   XP_038355289
Type: CODING
Position:
Dog AssemblyChrPosition (strand)Source
UMICH_Zoey_3.11756,643,715 - 56,688,041 (-)NCBI
RefSeq Acc Id: XM_038499362   ⟹   XP_038355290
Type: CODING
Position:
Dog AssemblyChrPosition (strand)Source
UMICH_Zoey_3.11756,643,715 - 56,688,016 (-)NCBI
RefSeq Acc Id: XM_038499363   ⟹   XP_038355291
Type: CODING
Position:
Dog AssemblyChrPosition (strand)Source
UMICH_Zoey_3.11756,643,715 - 56,687,938 (-)NCBI
RefSeq Acc Id: XM_038561928   ⟹   XP_038417856
Type: CODING
Position:
Dog AssemblyChrPosition (strand)Source
UU_Cfam_GSD_1.01757,286,313 - 57,330,468 (-)NCBI
RefSeq Acc Id: XM_038561929   ⟹   XP_038417857
Type: CODING
Position:
Dog AssemblyChrPosition (strand)Source
UU_Cfam_GSD_1.01757,286,313 - 57,330,438 (-)NCBI
RefSeq Acc Id: XM_038561930   ⟹   XP_038417858
Type: CODING
Position:
Dog AssemblyChrPosition (strand)Source
UU_Cfam_GSD_1.01757,286,313 - 57,330,365 (-)NCBI
RefSeq Acc Id: XM_038626000   ⟹   XP_038481928
Type: CODING
Position:
Dog AssemblyChrPosition (strand)Source
UNSW_CanFamBas_1.01756,668,944 - 56,713,307 (-)NCBI
RefSeq Acc Id: XM_038626001   ⟹   XP_038481929
Type: CODING
Position:
Dog AssemblyChrPosition (strand)Source
UNSW_CanFamBas_1.01756,668,944 - 56,713,282 (-)NCBI
RefSeq Acc Id: XM_038626002   ⟹   XP_038481930
Type: CODING
Position:
Dog AssemblyChrPosition (strand)Source
UNSW_CanFamBas_1.01756,668,944 - 56,713,203 (-)NCBI
RefSeq Acc Id: XM_549728   ⟹   XP_549728
Type: CODING
Position:
Dog AssemblyChrPosition (strand)Source
CanFam3.11756,728,398 - 56,772,734 (-)NCBI
Dog10K_Boxer_Tasha1756,358,130 - 56,367,908 (-)NCBI
Sequence:
Reference Protein Sequences
RefSeq Acc Id: XP_549728   ⟸   XM_549728
- Peptide Label: isoform X3
- UniProtKB: A0A8C0R4R7 (UniProtKB/TrEMBL),   A0A8I3MZU3 (UniProtKB/TrEMBL),   A0A8P0NG78 (UniProtKB/TrEMBL),   A0A8C0SR47 (UniProtKB/TrEMBL)
- Sequence:
RefSeq Acc Id: XP_022260601   ⟸   XM_022404893
- Peptide Label: isoform X2
- UniProtKB: A0A8C0SR47 (UniProtKB/TrEMBL)
- Sequence:
RefSeq Acc Id: XP_038355289   ⟸   XM_038499361
- Peptide Label: isoform X1
RefSeq Acc Id: XP_038355290   ⟸   XM_038499362
- Peptide Label: isoform X1
RefSeq Acc Id: XP_038355291   ⟸   XM_038499363
- Peptide Label: isoform X2
RefSeq Acc Id: XP_038481928   ⟸   XM_038626000
- Peptide Label: isoform X1
RefSeq Acc Id: XP_038481929   ⟸   XM_038626001
- Peptide Label: isoform X1
RefSeq Acc Id: XP_038481930   ⟸   XM_038626002
- Peptide Label: isoform X2
RefSeq Acc Id: XP_038278794   ⟸   XM_038422866
- Peptide Label: isoform X1
- UniProtKB: A0A8C0R4R7 (UniProtKB/TrEMBL),   A0A8I3MZU3 (UniProtKB/TrEMBL),   A0A8P0NG78 (UniProtKB/TrEMBL),   A0A8C0SR47 (UniProtKB/TrEMBL)
RefSeq Acc Id: XP_038278795   ⟸   XM_038422867
- Peptide Label: isoform X1
- UniProtKB: A0A8C0R4R7 (UniProtKB/TrEMBL),   A0A8I3MZU3 (UniProtKB/TrEMBL),   A0A8P0NG78 (UniProtKB/TrEMBL),   A0A8C0SR47 (UniProtKB/TrEMBL)
RefSeq Acc Id: XP_038278796   ⟸   XM_038422868
- Peptide Label: isoform X2
- UniProtKB: A0A8C0SR47 (UniProtKB/TrEMBL)
RefSeq Acc Id: XP_038417856   ⟸   XM_038561928
- Peptide Label: isoform X1
- UniProtKB: A0A8C0R4R7 (UniProtKB/TrEMBL),   A0A8C0SR47 (UniProtKB/TrEMBL),   A0A8I3MZU3 (UniProtKB/TrEMBL),   A0A8P0NG78 (UniProtKB/TrEMBL)
RefSeq Acc Id: XP_038417857   ⟸   XM_038561929
- Peptide Label: isoform X1
- UniProtKB: A0A8C0R4R7 (UniProtKB/TrEMBL),   A0A8C0SR47 (UniProtKB/TrEMBL),   A0A8I3MZU3 (UniProtKB/TrEMBL),   A0A8P0NG78 (UniProtKB/TrEMBL)
RefSeq Acc Id: XP_038417858   ⟸   XM_038561930
- Peptide Label: isoform X2
- UniProtKB: A0A8C0SR47 (UniProtKB/TrEMBL)
Protein Domains
C-type lectin


Additional Information

Database Acc Id Source(s)
Ensembl Genes ENSCAFG00000029705 UniProtKB/TrEMBL
  ENSCAFG00030010213 UniProtKB/TrEMBL
  ENSCAFG00040014999 UniProtKB/TrEMBL
  ENSCAFG00040016430 UniProtKB/TrEMBL
  ENSCAFG00845007114 ENTREZGENE, UniProtKB/TrEMBL
  ENSCAFG00845008727 UniProtKB/TrEMBL
Ensembl Transcript ENSCAFT00000017256.3 UniProtKB/TrEMBL
  ENSCAFT00000022978.4 UniProtKB/TrEMBL
  ENSCAFT00000066372.2 UniProtKB/TrEMBL
  ENSCAFT00000081258.2 UniProtKB/TrEMBL
  ENSCAFT00030018886.1 UniProtKB/TrEMBL
  ENSCAFT00040027680.1 UniProtKB/TrEMBL
  ENSCAFT00040030294.1 UniProtKB/TrEMBL
  ENSCAFT00845012619.1 UniProtKB/TrEMBL
  ENSCAFT00845012655 ENTREZGENE
  ENSCAFT00845012655.1 UniProtKB/TrEMBL
  ENSCAFT00845015366.1 UniProtKB/TrEMBL
Gene3D-CATH 3.10.100.10 UniProtKB/TrEMBL
InterPro C-type_lectin-like UniProtKB/TrEMBL
  C-type_lectin-like/link_sf UniProtKB/TrEMBL
  C-type_lectin_CS UniProtKB/TrEMBL
  CTDL_fold UniProtKB/TrEMBL
NCBI Gene REG4 ENTREZGENE
PANTHER C-TYPE LECTIN DOMAIN FAMILY 19 MEMBER A-RELATED UniProtKB/TrEMBL
  MANNOSE, PHOSPHOLIPASE, LECTIN RECEPTOR RELATED UniProtKB/TrEMBL
  REGENERATING ISLET-DERIVED PROTEIN 3-GAMMA UniProtKB/TrEMBL
Pfam Lectin_C UniProtKB/TrEMBL
PRINTS PNCREATITSAP UniProtKB/TrEMBL
PROSITE C_TYPE_LECTIN_1 UniProtKB/TrEMBL
  C_TYPE_LECTIN_2 UniProtKB/TrEMBL
SMART CLECT UniProtKB/TrEMBL
Superfamily-SCOP SSF56436 UniProtKB/TrEMBL
UniProt A0A8C0MT47_CANLF UniProtKB/TrEMBL
  A0A8C0R4R7 ENTREZGENE
  A0A8C0SR47 ENTREZGENE, UniProtKB/TrEMBL
  A0A8I3MZU3 ENTREZGENE, UniProtKB/TrEMBL
  A0A8I3N0U4_CANLF UniProtKB/TrEMBL
  A0A8I3NBX6_CANLF UniProtKB/TrEMBL
  A0A8P0NG78 ENTREZGENE, UniProtKB/TrEMBL
  A0A8P0P9J5_CANLF UniProtKB/TrEMBL
  A0A8P0SFP9_CANLF UniProtKB/TrEMBL
  A0A8P0TAP7_CANLF UniProtKB/TrEMBL


Nomenclature History
Date Current Symbol Current Name Previous Symbol Previous Name Description Reference Status
2021-01-14 LOC480786  regenerating islet-derived protein 4  LOC491520  regenerating islet-derived protein 4-like  Data merged from RGD:12142808 737654 PROVISIONAL
2021-01-14 LOC480786  regenerating islet-derived protein 4  LOC475818  regenerating islet-derived protein 4-like  Data merged from RGD:12418832 737654 PROVISIONAL
2017-09-12 LOC480786  regenerating islet-derived protein 4  REG4  regenerating family member 4  Symbol and/or name change 5135510 APPROVED