TNFRSF13C (TNF receptor superfamily member 13C) - Rat Genome Database

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Gene: TNFRSF13C (TNF receptor superfamily member 13C) Canis lupus familiaris
Analyze
Symbol: TNFRSF13C
Name: TNF receptor superfamily member 13C
RGD ID: 12187719
Description: ENCODES a protein that exhibits signaling receptor activity (inferred); INVOLVED IN B cell costimulation (ortholog); B cell homeostasis (ortholog); B cell proliferation (ortholog); ASSOCIATED WITH adenylosuccinase lyase deficiency (ortholog); Brain Injuries (ortholog); common variable immunodeficiency (ortholog); FOUND IN external side of plasma membrane (inferred); membrane (inferred)
Type: protein-coding
RefSeq Status: MODEL
Previously known as: tumor necrosis factor receptor superfamily member 13C
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
CanFam3.11023,430,960 - 23,434,972 (+)NCBICanFam3.1CanFam3.1canFam3CanFam3.1
CanFam3.1 Ensembl1023,433,052 - 23,438,946 (+)EnsemblCanFam3.1canFam3CanFam3.1
Dog10K_Boxer_Tasha1023,365,041 - 23,369,055 (+)NCBIDog10K_Boxer_Tasha
ROS_Cfam_1.01024,175,948 - 24,179,962 (+)NCBIROS_Cfam_1.0
ROS_Cfam_1.0 Ensembl1024,178,192 - 24,179,471 (+)EnsemblROS_Cfam_1.0 Ensembl
UMICH_Zoey_3.11023,892,942 - 23,896,956 (+)NCBIUMICH_Zoey_3.1
UNSW_CanFamBas_1.01024,214,176 - 24,218,207 (+)NCBIUNSW_CanFamBas_1.0
UU_Cfam_GSD_1.01024,388,325 - 24,392,339 (+)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:24814046   PMID:30032202  


Genomics

Comparative Map Data
TNFRSF13C
(Canis lupus familiaris - dog)
Dog AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
CanFam3.11023,430,960 - 23,434,972 (+)NCBICanFam3.1CanFam3.1canFam3CanFam3.1
CanFam3.1 Ensembl1023,433,052 - 23,438,946 (+)EnsemblCanFam3.1canFam3CanFam3.1
Dog10K_Boxer_Tasha1023,365,041 - 23,369,055 (+)NCBIDog10K_Boxer_Tasha
ROS_Cfam_1.01024,175,948 - 24,179,962 (+)NCBIROS_Cfam_1.0
ROS_Cfam_1.0 Ensembl1024,178,192 - 24,179,471 (+)EnsemblROS_Cfam_1.0 Ensembl
UMICH_Zoey_3.11023,892,942 - 23,896,956 (+)NCBIUMICH_Zoey_3.1
UNSW_CanFamBas_1.01024,214,176 - 24,218,207 (+)NCBIUNSW_CanFamBas_1.0
UU_Cfam_GSD_1.01024,388,325 - 24,392,339 (+)NCBIUU_Cfam_GSD_1.0
TNFRSF13C
(Homo sapiens - human)
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh382241,922,032 - 41,926,806 (-)NCBIGRCh38GRCh38hg38GRCh38
GRCh38.p14 Ensembl2241,922,032 - 41,926,806 (-)EnsemblGRCh38hg38GRCh38
GRCh372242,318,036 - 42,322,810 (-)NCBIGRCh37GRCh37hg19GRCh37
Build 362240,650,982 - 40,652,728 (-)NCBINCBI36Build 36hg18NCBI36
Build 342240,645,535 - 40,647,282NCBI
Celera2226,127,271 - 26,129,056 (-)NCBICelera
Cytogenetic Map22q13.2NCBI
HuRef2225,286,634 - 25,288,419 (-)NCBIHuRef
CHM1_12242,281,235 - 42,283,020 (-)NCBICHM1_1
T2T-CHM13v2.02242,400,895 - 42,405,666 (-)NCBIT2T-CHM13v2.0
Tnfrsf13c
(Mus musculus - house mouse)
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm391582,105,943 - 82,108,581 (-)NCBIGRCm39GRCm39mm39
GRCm39 Ensembl1582,105,944 - 82,108,570 (-)EnsemblGRCm39 Ensembl
GRCm381582,221,742 - 82,224,380 (-)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl1582,221,743 - 82,224,369 (-)EnsemblGRCm38mm10GRCm38
MGSCv371582,052,174 - 82,054,766 (-)NCBIGRCm37MGSCv37mm9NCBIm37
MGSCv361582,048,999 - 82,051,591 (-)NCBIMGSCv36mm8
Celera1584,345,398 - 84,346,929 (-)NCBICelera
Cytogenetic Map15E1NCBI
cM Map1538.56NCBI
Tnfrsf13c
(Rattus norvegicus - Norway rat)
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCr87115,616,139 - 115,618,647 (-)NCBIGRCr8
mRatBN7.27113,736,046 - 113,738,523 (-)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl7113,736,055 - 113,738,517 (-)EnsemblmRatBN7.2 Ensembl
Rnor_6.07123,453,799 - 123,456,289 (-)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl7123,453,788 - 123,456,268 (-)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.07123,438,591 - 123,439,975 (-)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.47120,596,571 - 120,597,836 (-)NCBIRGSC3.4RGSC_v3.4rn4RGSC3.4
Celera7110,051,209 - 110,053,699 (-)NCBICelera
Cytogenetic Map7q34NCBI
Tnfrsf13c
(Chinchilla lanigera - long-tailed chinchilla)
Chinchilla AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChiLan1.0NW_00495541327,341,977 - 27,344,009 (-)NCBIChiLan1.0ChiLan1.0
TNFRSF13C
(Pan paniscus - bonobo/pygmy chimpanzee)
Bonobo AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
NHGRI_mPanPan1-v22351,751,774 - 51,758,115 (-)NCBINHGRI_mPanPan1-v2
NHGRI_mPanPan12254,449,100 - 54,457,327 (-)NCBINHGRI_mPanPan1
Mhudiblu_PPA_v02222,816,504 - 22,819,584 (-)NCBIMhudiblu_PPA_v0Mhudiblu_PPA_v0panPan3
Tnfrsf13c
(Ictidomys tridecemlineatus - thirteen-lined ground squirrel)
Squirrel AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HiC_Itri_2NW_0244049457,088,464 - 7,089,921 (+)NCBIHiC_Itri_2
SpeTri2.0NW_00493649298,878 - 101,920 (+)NCBISpeTri2.0SpeTri2.0SpeTri2.0
TNFRSF13C
(Sus scrofa - pig)
Pig AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Sscrofa11.1 Ensembl56,699,878 - 6,703,656 (+)EnsemblSscrofa11.1susScr11Sscrofa11.1
Sscrofa11.156,699,812 - 6,703,403 (+)NCBISscrofa11.1Sscrofa11.1susScr11Sscrofa11.1
TNFRSF13C
(Chlorocebus sabaeus - green monkey)
Green Monkey AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChlSab1.11924,457,381 - 24,459,438 (-)NCBIChlSab1.1ChlSab1.1chlSab2
Vero_WHO_p1.0NW_023666045100,952,971 - 100,954,833 (+)NCBIVero_WHO_p1.0Vero_WHO_p1.0
Tnfrsf13c
(Heterocephalus glaber - naked mole-rat)
Naked Mole-Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HetGla_female_1.0 EnsemblNW_0046247526,797,983 - 6,799,097 (+)EnsemblHetGla_female_1.0HetGla_female_1.0 EnsemblhetGla2
HetGla 1.0NW_0046247526,797,453 - 6,799,437 (+)NCBIHetGla_female_1.0HetGla 1.0hetGla2

Variants

.
Variants in TNFRSF13C
54 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 6
Low 4 2 17 6 6 6 9 8 6
Below cutoff 3 5 6 3 8 2

Sequence


Reference Sequences
RefSeq Acc Id: ENSCAFT00000001546   ⟹   ENSCAFP00000001422
Type: CODING
Position:
Dog AssemblyChrPosition (strand)Source
CanFam3.1 Ensembl1023,433,052 - 23,438,946 (+)Ensembl
RefSeq Acc Id: ENSCAFT00845027762   ⟹   ENSCAFP00845021849
Type: CODING
Position:
Dog AssemblyChrPosition (strand)Source
ROS_Cfam_1.0 Ensembl1024,178,192 - 24,179,471 (+)Ensembl
RefSeq Acc Id: XM_038488460   ⟹   XP_038344388
Type: CODING
Position:
Dog AssemblyChrPosition (strand)Source
UMICH_Zoey_3.11023,892,942 - 23,896,956 (+)NCBI
RefSeq Acc Id: XM_038550385   ⟹   XP_038406313
Type: CODING
Position:
Dog AssemblyChrPosition (strand)Source
UU_Cfam_GSD_1.01024,388,325 - 24,392,339 (+)NCBI
RefSeq Acc Id: XM_038614354   ⟹   XP_038470282
Type: CODING
Position:
Dog AssemblyChrPosition (strand)Source
UNSW_CanFamBas_1.01024,214,191 - 24,218,207 (+)NCBI
RefSeq Acc Id: XM_038614355   ⟹   XP_038470283
Type: CODING
Position:
Dog AssemblyChrPosition (strand)Source
UNSW_CanFamBas_1.01024,214,176 - 24,218,207 (+)NCBI
RefSeq Acc Id: XM_038647563   ⟹   XP_038503491
Type: CODING
Position:
Dog AssemblyChrPosition (strand)Source
Dog10K_Boxer_Tasha1023,365,041 - 23,369,055 (+)NCBI
RefSeq Acc Id: XM_038679699   ⟹   XP_038535627
Type: CODING
Position:
Dog AssemblyChrPosition (strand)Source
ROS_Cfam_1.01024,175,948 - 24,179,962 (+)NCBI
Reference Protein Sequences
RefSeq Acc Id: ENSCAFP00000001422   ⟸   ENSCAFT00000001546
RefSeq Acc Id: XP_038344388   ⟸   XM_038488460
- Peptide Label: isoform X1
RefSeq Acc Id: XP_038470283   ⟸   XM_038614355
- Peptide Label: isoform X3
RefSeq Acc Id: XP_038470282   ⟸   XM_038614354
- Peptide Label: isoform X2
RefSeq Acc Id: XP_038535627   ⟸   XM_038679699
- Peptide Label: isoform X1
RefSeq Acc Id: XP_038503491   ⟸   XM_038647563
- Peptide Label: isoform X1
RefSeq Acc Id: XP_038406313   ⟸   XM_038550385
- Peptide Label: isoform X1
RefSeq Acc Id: ENSCAFP00845021849   ⟸   ENSCAFT00845027762
Protein Domains
Tumour necrosis factor receptor 13C TALL-1 binding

Promoters
RGD ID:13684944
Promoter ID:EPDNEW_C3012
Type:single initiation site
Name:TNFRSF13C_1
Description:TNF receptor superfamily member 13C
SO ACC ID:SO:0000170
Source:EPDNEW (Eukaryotic Promoter Database, http://epd.vital-it.ch/)
Experiment Methods:Single-end sequencing.
Position:
Dog AssemblyChrPosition (strand)Source
CanFam3.11023,433,211 - 23,433,271EPDNEW

Additional Information

Database Acc Id Source(s)
Ensembl Genes ENSCAFG00000001005 Ensembl
  ENSCAFG00000052288 UniProtKB/TrEMBL
  ENSCAFG00845015566 Ensembl, UniProtKB/TrEMBL
Ensembl Transcript ENSCAFT00000109166.1 UniProtKB/TrEMBL
  ENSCAFT00845027762.1 UniProtKB/TrEMBL
InterPro TNFR_13C UniProtKB/TrEMBL
  TNFR_13C/17 UniProtKB/TrEMBL
  TNFR_13C_TALL-1-bd UniProtKB/TrEMBL
NCBI Gene TNFRSF13C ENTREZGENE
PANTHER PTHR20437 UniProtKB/TrEMBL
  PTHR20437:SF2 UniProtKB/TrEMBL
Pfam BaffR-Tall_bind UniProtKB/TrEMBL
PRINTS TNFACTORR13C UniProtKB/TrEMBL
Superfamily-SCOP TNF receptor-like UniProtKB/TrEMBL
UniProt A0A8I3NLQ1_CANLF UniProtKB/TrEMBL
  A0A8P0TPN4_CANLF UniProtKB/TrEMBL
VGNC ID VGNC:54377 ENTREZGENE