RNF38 (ring finger protein 38) - Rat Genome Database

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Gene: RNF38 (ring finger protein 38) Sus scrofa
Analyze
Symbol: RNF38
Name: ring finger protein 38
RGD ID: 14197105
Description: ENCODES a protein that exhibits metal ion binding (inferred); ubiquitin protein ligase activity (inferred); INVOLVED IN male gonad development (ortholog); ASSOCIATED WITH acromesomelic dysplasia, Maroteaux type (ortholog); distal arthrogryposis type 1A (ortholog); frontotemporal dementia and/or amyotrophic lateral sclerosis 6 (ortholog); FOUND IN sperm flagellum (ortholog)
Type: protein-coding
RefSeq Status: MODEL
Previously known as: E3 ubiquitin-protein ligase RNF38
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
Sscrofa11.1 Ensembl1237,111,012 - 237,235,485 (-)EnsemblSscrofa11.1susScr11Sscrofa11.1
Sscrofa11.11237,111,002 - 237,240,311 (-)NCBISscrofa11.1Sscrofa11.1susScr11Sscrofa11.1
Sscrofa10.21264,874,672 - 265,047,458 (-)NCBISscrofa10.2Sscrofa10.2susScr3
JBrowse: View Region in Genome Browser (JBrowse)
Model


Gene Ontology Annotations     Click to see Annotation Detail View

Biological Process

Cellular Component

Molecular Function

References

Genomics

Comparative Map Data
RNF38
(Sus scrofa - pig)
Pig AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Sscrofa11.1 Ensembl1237,111,012 - 237,235,485 (-)EnsemblSscrofa11.1susScr11Sscrofa11.1
Sscrofa11.11237,111,002 - 237,240,311 (-)NCBISscrofa11.1Sscrofa11.1susScr11Sscrofa11.1
Sscrofa10.21264,874,672 - 265,047,458 (-)NCBISscrofa10.2Sscrofa10.2susScr3
RNF38
(Homo sapiens - human)
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh38936,336,400 - 36,487,669 (-)NCBIGRCh38GRCh38hg38GRCh38
GRCh38.p14 Ensembl936,336,396 - 36,487,548 (-)EnsemblGRCh38hg38GRCh38
GRCh37936,336,397 - 36,401,203 (-)NCBIGRCh37GRCh37hg19GRCh37
Build 36936,326,397 - 36,391,195 (-)NCBINCBI36Build 36hg18NCBI36
Build 34936,326,392 - 36,391,195NCBI
Celera936,269,750 - 36,334,476 (-)NCBICelera
Cytogenetic Map9p13.2NCBI
HuRef936,289,333 - 36,353,868 (-)NCBIHuRef
CHM1_1936,336,870 - 36,401,614 (-)NCBICHM1_1
T2T-CHM13v2.0936,358,438 - 36,510,372 (-)NCBIT2T-CHM13v2.0
Rnf38
(Mus musculus - house mouse)
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm39444,126,210 - 44,233,929 (-)NCBIGRCm39GRCm39mm39
GRCm39 Ensembl444,126,210 - 44,233,789 (-)EnsemblGRCm39 Ensembl
GRCm38444,126,210 - 44,233,905 (-)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl444,126,210 - 44,233,789 (-)EnsemblGRCm38mm10GRCm38
MGSCv37444,139,084 - 44,181,155 (-)NCBIGRCm37MGSCv37mm9NCBIm37
MGSCv36444,147,310 - 44,189,439 (-)NCBIMGSCv36mm8
Celera444,147,772 - 44,189,740 (-)NCBICelera
Cytogenetic Map4B1NCBI
cM Map423.13NCBI
Rnf38
(Rattus norvegicus - Norway rat)
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCr8563,154,507 - 63,263,138 (-)NCBIGRCr8
mRatBN7.2558,358,771 - 58,467,424 (-)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl558,361,976 - 58,467,446 (-)EnsemblmRatBN7.2 Ensembl
UTH_Rnor_SHR_Utx560,340,445 - 60,449,173 (-)NCBIRnor_SHRUTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.0562,159,254 - 62,267,981 (-)NCBIRnor_SHRSPUTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.0562,128,864 - 62,237,714 (-)NCBIRnor_WKYUTH_Rnor_WKY_Bbb_1.0
Rnor_6.0559,604,783 - 59,713,108 (-)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl559,607,476 - 59,647,633 (-)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.0564,128,873 - 64,235,392 (-)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.4560,600,918 - 60,631,312 (-)NCBIRGSC3.4RGSC_v3.4rn4RGSC3.4
RGSC_v3.1560,601,097 - 60,631,491 (-)NCBI
Celera556,940,197 - 56,970,567 (-)NCBICelera
Cytogenetic Map5q22NCBI
Rnf38
(Chinchilla lanigera - long-tailed chinchilla)
Chinchilla AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChiLan1.0 EnsemblNW_00495541929,993,358 - 30,063,705 (+)EnsemblChiLan1.0
ChiLan1.0NW_00495541929,903,917 - 30,063,705 (+)NCBIChiLan1.0ChiLan1.0
RNF38
(Pan paniscus - bonobo/pygmy chimpanzee)
Bonobo AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
NHGRI_mPanPan1-v21188,103,381 - 88,254,027 (+)NCBINHGRI_mPanPan1-v2
NHGRI_mPanPan1988,109,329 - 88,259,965 (+)NCBINHGRI_mPanPan1
Mhudiblu_PPA_v0936,185,284 - 36,335,915 (-)NCBIMhudiblu_PPA_v0Mhudiblu_PPA_v0panPan3
PanPan1.1936,985,427 - 37,134,188 (-)NCBIpanpan1.1PanPan1.1panPan2
PanPan1.1 Ensembl936,985,433 - 37,048,013 (-)Ensemblpanpan1.1panPan2
RNF38
(Canis lupus familiaris - dog)
Dog AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
CanFam3.11152,764,216 - 52,827,993 (-)NCBICanFam3.1CanFam3.1canFam3CanFam3.1
CanFam3.1 Ensembl1152,764,220 - 52,901,983 (-)EnsemblCanFam3.1canFam3CanFam3.1
Dog10K_Boxer_Tasha1151,353,757 - 51,418,498 (-)NCBIDog10K_Boxer_Tasha
ROS_Cfam_1.01153,869,281 - 53,934,174 (-)NCBIROS_Cfam_1.0
ROS_Cfam_1.0 Ensembl1153,867,413 - 54,009,221 (-)EnsemblROS_Cfam_1.0 Ensembl
UMICH_Zoey_3.11152,372,060 - 52,436,928 (-)NCBIUMICH_Zoey_3.1
UNSW_CanFamBas_1.01152,398,903 - 52,463,465 (-)NCBIUNSW_CanFamBas_1.0
UU_Cfam_GSD_1.01153,095,921 - 53,160,628 (-)NCBIUU_Cfam_GSD_1.0
Rnf38
(Ictidomys tridecemlineatus - thirteen-lined ground squirrel)
Squirrel AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HiC_Itri_2NW_024404947167,736,927 - 167,790,157 (-)NCBIHiC_Itri_2
SpeTri2.0 EnsemblNW_0049365244,281,224 - 4,337,733 (-)EnsemblSpeTri2.0SpeTri2.0 Ensembl
SpeTri2.0NW_0049365244,281,124 - 4,359,378 (-)NCBISpeTri2.0SpeTri2.0SpeTri2.0
RNF38
(Chlorocebus sabaeus - green monkey)
Green Monkey AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChlSab1.11244,083,814 - 44,224,206 (+)NCBIChlSab1.1ChlSab1.1chlSab2
ChlSab1.1 Ensembl1244,185,500 - 44,225,491 (+)EnsemblChlSab1.1ChlSab1.1 EnsemblchlSab2
Vero_WHO_p1.0NW_02366603841,170,221 - 41,312,770 (+)NCBIVero_WHO_p1.0Vero_WHO_p1.0
Rnf38
(Heterocephalus glaber - naked mole-rat)
Naked Mole-Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HetGla_female_1.0 EnsemblNW_00462493040,652 - 84,228 (-)EnsemblHetGla_female_1.0HetGla_female_1.0 EnsemblhetGla2
HetGla 1.0NW_00462493037,327 - 180,038 (-)NCBIHetGla_female_1.0HetGla 1.0hetGla2

Variants

.
Variants in RNF38
2960 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 hemolymphoid system musculoskeletal system nervous system renal system reproductive system respiratory system
High
Medium 8 2 3 5 23 1 3 3
Low 2 2 2 1
Below cutoff

Sequence

Nucleotide Sequences
RefSeq Transcripts XM_005660239 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_005660242 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_005660243 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_005660244 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_005660245 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_013993656 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_013993657 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_013993658 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_013993659 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_013993662 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_013993663 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_021066052 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
GenBank Nucleotide AEMK02000005 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  AK390848 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  FP015977 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  FP015987 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  GFLN01099338 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles

RefSeq Acc Id: ENSSSCT00000005882   ⟹   ENSSSCP00000005736
Type: CODING
Position:
Pig AssemblyChrPosition (strand)Source
Sscrofa11.1 Ensembl1237,111,013 - 237,171,761 (-)Ensembl
RefSeq Acc Id: ENSSSCT00000042166   ⟹   ENSSSCP00000039551
Type: CODING
Position:
Pig AssemblyChrPosition (strand)Source
Sscrofa11.1 Ensembl1237,111,012 - 237,235,485 (-)Ensembl
RefSeq Acc Id: ENSSSCT00000097528   ⟹   ENSSSCP00000079136
Type: CODING
Position:
Pig AssemblyChrPosition (strand)Source
Sscrofa11.1 Ensembl1237,111,012 - 237,171,761 (-)Ensembl
RefSeq Acc Id: XM_005660239   ⟹   XP_005660296
Type: CODING
Position:
Pig AssemblyChrPosition (strand)Source
Sscrofa11.11237,111,002 - 237,171,850 (-)NCBI
Sequence:
RefSeq Acc Id: XM_005660242   ⟹   XP_005660299
Type: CODING
Position:
Pig AssemblyChrPosition (strand)Source
Sscrofa11.11237,111,002 - 237,172,883 (-)NCBI
Sequence:
RefSeq Acc Id: XM_005660243   ⟹   XP_005660300
Type: CODING
Position:
Pig AssemblyChrPosition (strand)Source
Sscrofa11.11237,111,002 - 237,172,665 (-)NCBI
Sequence:
RefSeq Acc Id: XM_005660244   ⟹   XP_005660301
Type: CODING
Position:
Pig AssemblyChrPosition (strand)Source
Sscrofa11.11237,111,002 - 237,172,855 (-)NCBI
Sequence:
RefSeq Acc Id: XM_005660245   ⟹   XP_005660302
Type: CODING
Position:
Pig AssemblyChrPosition (strand)Source
Sscrofa11.11237,111,002 - 237,172,669 (-)NCBI
Sequence:
RefSeq Acc Id: XM_013993656   ⟹   XP_013849110
Type: CODING
Position:
Pig AssemblyChrPosition (strand)Source
Sscrofa11.11237,111,002 - 237,240,310 (-)NCBI
Sequence:
RefSeq Acc Id: XM_013993657   ⟹   XP_013849111
Type: CODING
Position:
Pig AssemblyChrPosition (strand)Source
Sscrofa11.11237,111,002 - 237,240,311 (-)NCBI
Sequence:
RefSeq Acc Id: XM_013993658   ⟹   XP_013849112
Type: CODING
Position:
Pig AssemblyChrPosition (strand)Source
Sscrofa11.11237,111,002 - 237,240,311 (-)NCBI
Sequence:
RefSeq Acc Id: XM_013993659   ⟹   XP_013849113
Type: CODING
Position:
Pig AssemblyChrPosition (strand)Source
Sscrofa11.11237,111,017 - 237,240,310 (-)NCBI
Sequence:
RefSeq Acc Id: XM_013993662   ⟹   XP_013849116
Type: CODING
Position:
Pig AssemblyChrPosition (strand)Source
Sscrofa11.11237,111,002 - 237,172,841 (-)NCBI
Sequence:
RefSeq Acc Id: XM_013993663   ⟹   XP_013849117
Type: CODING
Position:
Pig AssemblyChrPosition (strand)Source
Sscrofa11.11237,111,002 - 237,172,322 (-)NCBI
Sequence:
RefSeq Acc Id: XM_021066052   ⟹   XP_020921711
Type: CODING
Position:
Pig AssemblyChrPosition (strand)Source
Sscrofa11.11237,111,002 - 237,172,841 (-)NCBI
Sequence:
RefSeq Acc Id: XP_013849112   ⟸   XM_013993658
- Peptide Label: isoform X3
- UniProtKB: A0A287A6P9 (UniProtKB/TrEMBL)
- Sequence:
RefSeq Acc Id: XP_013849111   ⟸   XM_013993657
- Peptide Label: isoform X2
- UniProtKB: A0A287A6P9 (UniProtKB/TrEMBL)
- Sequence:
RefSeq Acc Id: XP_013849110   ⟸   XM_013993656
- Peptide Label: isoform X1
- UniProtKB: A0A4X1VNE5 (UniProtKB/TrEMBL),   F1ST85 (UniProtKB/TrEMBL)
- Sequence:
RefSeq Acc Id: XP_005660299   ⟸   XM_005660242
- Peptide Label: isoform X6
- UniProtKB: A0A8D0YNK1 (UniProtKB/TrEMBL),   A0A8D0J131 (UniProtKB/TrEMBL)
- Sequence:
RefSeq Acc Id: XP_005660301   ⟸   XM_005660244
- Peptide Label: isoform X6
- UniProtKB: A0A8D0YNK1 (UniProtKB/TrEMBL),   A0A8D0J131 (UniProtKB/TrEMBL)
- Sequence:
RefSeq Acc Id: XP_020921711   ⟸   XM_021066052
- Peptide Label: isoform X6
- UniProtKB: A0A8D0YNK1 (UniProtKB/TrEMBL),   A0A8D0J131 (UniProtKB/TrEMBL)
- Sequence:
RefSeq Acc Id: XP_013849116   ⟸   XM_013993662
- Peptide Label: isoform X6
- UniProtKB: A0A8D0YNK1 (UniProtKB/TrEMBL),   A0A8D0J131 (UniProtKB/TrEMBL)
- Sequence:
RefSeq Acc Id: XP_005660302   ⟸   XM_005660245
- Peptide Label: isoform X6
- UniProtKB: A0A8D0YNK1 (UniProtKB/TrEMBL),   A0A8D0J131 (UniProtKB/TrEMBL)
- Sequence:
RefSeq Acc Id: XP_005660300   ⟸   XM_005660243
- Peptide Label: isoform X6
- UniProtKB: A0A8D0YNK1 (UniProtKB/TrEMBL),   A0A8D0J131 (UniProtKB/TrEMBL)
- Sequence:
RefSeq Acc Id: XP_013849117   ⟸   XM_013993663
- Peptide Label: isoform X6
- UniProtKB: A0A8D0YNK1 (UniProtKB/TrEMBL),   A0A8D0J131 (UniProtKB/TrEMBL)
- Sequence:
RefSeq Acc Id: XP_005660296   ⟸   XM_005660239
- Peptide Label: isoform X5
- UniProtKB: A0A8D0LMD5 (UniProtKB/TrEMBL),   F1ST85 (UniProtKB/TrEMBL)
- Sequence:
RefSeq Acc Id: XP_013849113   ⟸   XM_013993659
- Peptide Label: isoform X4
- UniProtKB: A0A4X1VPX7 (UniProtKB/TrEMBL),   A0A287A6P9 (UniProtKB/TrEMBL)
- Sequence:
RefSeq Acc Id: ENSSSCP00000005736   ⟸   ENSSSCT00000005882
RefSeq Acc Id: ENSSSCP00000039551   ⟸   ENSSSCT00000042166
RefSeq Acc Id: ENSSSCP00000079136   ⟸   ENSSSCT00000097528
Protein Domains
RING-type


Additional Information

Database Acc Id Source(s)
Ensembl Genes ENSSSCG00000005343 Ensembl, ENTREZGENE, UniProtKB/TrEMBL
  ENSSSCG00005019745 UniProtKB/TrEMBL
  ENSSSCG00015025565 UniProtKB/TrEMBL
  ENSSSCG00025074677 UniProtKB/TrEMBL
  ENSSSCG00030071582 UniProtKB/TrEMBL
  ENSSSCG00035013809 UniProtKB/TrEMBL
  ENSSSCG00040059743 UniProtKB/TrEMBL
  ENSSSCG00045019905 UniProtKB/TrEMBL
  ENSSSCG00050078593 UniProtKB/TrEMBL
  ENSSSCG00055021522 UniProtKB/TrEMBL
  ENSSSCG00060048902 UniProtKB/TrEMBL
  ENSSSCG00065025076 UniProtKB/TrEMBL
  ENSSSCG00070025757 UniProtKB/TrEMBL
Ensembl Transcript ENSSSCT00000005882 ENTREZGENE
  ENSSSCT00000005882.5 UniProtKB/TrEMBL
  ENSSSCT00000042166 ENTREZGENE
  ENSSSCT00000042166.3 UniProtKB/TrEMBL
  ENSSSCT00000097528 ENTREZGENE
  ENSSSCT00000097528.1 UniProtKB/TrEMBL
  ENSSSCT00005031704.1 UniProtKB/TrEMBL
  ENSSSCT00005031718.1 UniProtKB/TrEMBL
  ENSSSCT00005031750.1 UniProtKB/TrEMBL
  ENSSSCT00015034276.1 UniProtKB/TrEMBL
  ENSSSCT00025103079.1 UniProtKB/TrEMBL
  ENSSSCT00030100339.1 UniProtKB/TrEMBL
  ENSSSCT00030100412.1 UniProtKB/TrEMBL
  ENSSSCT00035017449.1 UniProtKB/TrEMBL
  ENSSSCT00040081514.1 UniProtKB/TrEMBL
  ENSSSCT00040081747.1 UniProtKB/TrEMBL
  ENSSSCT00045034099.1 UniProtKB/TrEMBL
  ENSSSCT00045034240.1 UniProtKB/TrEMBL
  ENSSSCT00050108345.1 UniProtKB/TrEMBL
  ENSSSCT00050108360.1 UniProtKB/TrEMBL
  ENSSSCT00055042679.1 UniProtKB/TrEMBL
  ENSSSCT00055042879.1 UniProtKB/TrEMBL
  ENSSSCT00060066468.1 UniProtKB/TrEMBL
  ENSSSCT00060066484.1 UniProtKB/TrEMBL
  ENSSSCT00065033577.1 UniProtKB/TrEMBL
  ENSSSCT00070051509.1 UniProtKB/TrEMBL
  ENSSSCT00070051544.1 UniProtKB/TrEMBL
  ENSSSCT00070051586.1 UniProtKB/TrEMBL
Gene3D-CATH 3.30.40.10 UniProtKB/TrEMBL
InterPro Znf_RING UniProtKB/TrEMBL
  Znf_RING/FYVE/PHD UniProtKB/TrEMBL
KEGG Report ssc:100519814 UniProtKB/TrEMBL
NCBI Gene RNF38 ENTREZGENE
PANTHER E3 UBIQUITIN-PROTEIN LIGASE RNF38 UniProtKB/TrEMBL
  GH10160P UniProtKB/TrEMBL
Pfam zf-RING_2 UniProtKB/TrEMBL
PROSITE ZF_RING_2 UniProtKB/TrEMBL
SMART RING UniProtKB/TrEMBL
Superfamily-SCOP RING/U-box UniProtKB/TrEMBL
UniProt A0A287A6P9 ENTREZGENE, UniProtKB/TrEMBL
  A0A4X1VNE5 ENTREZGENE, UniProtKB/TrEMBL
  A0A4X1VPX7 ENTREZGENE, UniProtKB/TrEMBL
  A0A4X1VR81_PIG UniProtKB/TrEMBL
  A0A8D0J131 ENTREZGENE, UniProtKB/TrEMBL
  A0A8D0LMD2_PIG UniProtKB/TrEMBL
  A0A8D0LMD5 ENTREZGENE, UniProtKB/TrEMBL
  A0A8D0YNK1 ENTREZGENE, UniProtKB/TrEMBL
  A0A8W4FI64_PIG UniProtKB/TrEMBL
  F1ST85 ENTREZGENE, UniProtKB/TrEMBL
VGNC ID VGNC:92390 ENTREZGENE