TNFSF9 (TNF superfamily member 9) - Rat Genome Database

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Gene: TNFSF9 (TNF superfamily member 9) Canis lupus familiaris
Analyze
Symbol: TNFSF9
Name: TNF superfamily member 9
RGD ID: 12412471
Description: ENCODES a protein that exhibits signaling receptor binding (ortholog); INVOLVED IN myeloid dendritic cell differentiation (ortholog); positive regulation of activated T cell proliferation (ortholog); positive regulation of cytotoxic T cell differentiation (ortholog); ASSOCIATED WITH acute myeloid leukemia (ortholog); B-cell lymphoma (ortholog); colorectal cancer (ortholog); FOUND IN membrane (inferred); plasma membrane (inferred)
Type: protein-coding
RefSeq Status: MODEL
Previously known as: LOC476729; tumor necrosis factor ligand superfamily member 9; tumor necrosis factor superfamily member 9
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
CanFam3.12053,680,882 - 53,682,521 (-)NCBICanFam3.1CanFam3.1canFam3CanFam3.1
CanFam3.1 Ensembl2053,679,880 - 53,682,706 (-)EnsemblCanFam3.1canFam3CanFam3.1
Dog10K_Boxer_Tasha2053,426,553 - 53,439,382 (-)NCBIDog10K_Boxer_Tasha
ROS_Cfam_1.02054,333,423 - 54,336,590 (-)NCBIROS_Cfam_1.0
UMICH_Zoey_3.12053,400,156 - 53,403,326 (-)NCBIUMICH_Zoey_3.1
UNSW_CanFamBas_1.02053,848,757 - 53,851,741 (-)NCBIUNSW_CanFamBas_1.0
UU_Cfam_GSD_1.02054,077,742 - 54,080,911 (-)NCBIUU_Cfam_GSD_1.0
JBrowse: View Region in Genome Browser (JBrowse)
Model


References
Additional References at PubMed
PMID:22301074   PMID:30032202  


Genomics

Comparative Map Data
TNFSF9
(Canis lupus familiaris - dog)
Dog AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
CanFam3.12053,680,882 - 53,682,521 (-)NCBICanFam3.1CanFam3.1canFam3CanFam3.1
CanFam3.1 Ensembl2053,679,880 - 53,682,706 (-)EnsemblCanFam3.1canFam3CanFam3.1
Dog10K_Boxer_Tasha2053,426,553 - 53,439,382 (-)NCBIDog10K_Boxer_Tasha
ROS_Cfam_1.02054,333,423 - 54,336,590 (-)NCBIROS_Cfam_1.0
UMICH_Zoey_3.12053,400,156 - 53,403,326 (-)NCBIUMICH_Zoey_3.1
UNSW_CanFamBas_1.02053,848,757 - 53,851,741 (-)NCBIUNSW_CanFamBas_1.0
UU_Cfam_GSD_1.02054,077,742 - 54,080,911 (-)NCBIUU_Cfam_GSD_1.0
TNFSF9
(Homo sapiens - human)
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh38196,531,026 - 6,535,924 (+)NCBIGRCh38GRCh38hg38GRCh38
GRCh38.p14 Ensembl196,531,026 - 6,535,924 (+)EnsemblGRCh38hg38GRCh38
GRCh37196,531,037 - 6,535,935 (+)NCBIGRCh37GRCh37hg19GRCh37
Build 36196,482,037 - 6,486,933 (+)NCBINCBI36Build 36hg18NCBI36
Build 34196,482,036 - 6,486,933NCBI
Celera196,470,827 - 6,475,769 (+)NCBICelera
Cytogenetic Map19p13.3NCBI
HuRef196,293,216 - 6,297,937 (+)NCBIHuRef
CHM1_1196,530,958 - 6,535,882 (+)NCBICHM1_1
T2T-CHM13v2.0196,520,520 - 6,525,499 (+)NCBIT2T-CHM13v2.0
Tnfsf9
(Mus musculus - house mouse)
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm391757,412,113 - 57,414,757 (+)NCBIGRCm39GRCm39mm39
GRCm39 Ensembl1757,412,325 - 57,414,757 (+)EnsemblGRCm39 Ensembl
GRCm381757,105,287 - 57,107,758 (+)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl1757,105,325 - 57,107,757 (+)EnsemblGRCm38mm10GRCm38
MGSCv371757,244,808 - 57,247,180 (+)NCBIGRCm37MGSCv37mm9NCBIm37
MGSCv361756,790,776 - 56,792,848 (+)NCBIMGSCv36mm8
Celera1761,453,915 - 61,456,287 (+)NCBICelera
Cytogenetic Map17DNCBI
cM Map1729.67NCBI
Tnfsf9
(Rattus norvegicus - Norway rat)
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCr892,031,011 - 2,033,345 (+)NCBIGRCr8
mRatBN7.291,944,017 - 1,946,351 (+)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl91,944,017 - 1,946,345 (+)EnsemblmRatBN7.2 Ensembl
UTH_Rnor_SHR_Utx92,378,289 - 2,380,620 (+)NCBIRnor_SHRUTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.0960,384 - 62,715 (+)NCBIRnor_SHRSPUTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.096,683,512 - 6,685,843 (+)NCBIRnor_WKYUTH_Rnor_WKY_Bbb_1.0
Rnor_6.099,909,942 - 9,912,276 (-)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl99,909,948 - 9,912,276 (-)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.098,913,004 - 8,915,338 (-)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
Celera96,571,461 - 6,573,795 (-)NCBICelera
Cytogenetic Map9q11NCBI
Tnfsf9
(Chinchilla lanigera - long-tailed chinchilla)
Chinchilla AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChiLan1.0NW_0049554953,101,965 - 3,107,552 (-)NCBIChiLan1.0ChiLan1.0
TNFSF9
(Pan paniscus - bonobo/pygmy chimpanzee)
Bonobo AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
NHGRI_mPanPan1-v22010,938,504 - 10,943,394 (+)NCBINHGRI_mPanPan1-v2
NHGRI_mPanPan11910,164,430 - 10,169,327 (+)NCBINHGRI_mPanPan1
Mhudiblu_PPA_v0195,558,021 - 5,562,901 (+)NCBIMhudiblu_PPA_v0Mhudiblu_PPA_v0panPan3
PanPan1.1196,476,941 - 6,483,352 (+)NCBIpanpan1.1PanPan1.1panPan2
PanPan1.1 Ensembl196,476,941 - 6,483,352 (+)Ensemblpanpan1.1panPan2
Tnfsf9
(Ictidomys tridecemlineatus - thirteen-lined ground squirrel)
Squirrel AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HiC_Itri_2NW_024405118213,987,493 - 213,989,882 (-)NCBIHiC_Itri_2
SpeTri2.0NW_0049365883,844,924 - 3,847,218 (+)NCBISpeTri2.0SpeTri2.0SpeTri2.0
TNFSF9
(Sus scrofa - pig)
Pig AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Sscrofa11.1 Ensembl272,578,821 - 72,582,745 (-)EnsemblSscrofa11.1susScr11Sscrofa11.1
Sscrofa11.1272,578,811 - 72,582,834 (-)NCBISscrofa11.1Sscrofa11.1susScr11Sscrofa11.1
Sscrofa10.2273,102,064 - 73,106,173 (+)NCBISscrofa10.2Sscrofa10.2susScr3
TNFSF9
(Chlorocebus sabaeus - green monkey)
Green Monkey AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChlSab1.166,131,157 - 6,136,345 (+)NCBIChlSab1.1ChlSab1.1chlSab2
ChlSab1.1 Ensembl66,131,571 - 6,135,463 (+)EnsemblChlSab1.1ChlSab1.1 EnsemblchlSab2
Vero_WHO_p1.0NW_0236660811,866,430 - 1,872,328 (-)NCBIVero_WHO_p1.0Vero_WHO_p1.0
Tnfsf9
(Heterocephalus glaber - naked mole-rat)
Naked Mole-Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HetGla 1.0NW_0046248283,615,860 - 3,623,377 (+)NCBIHetGla_female_1.0HetGla 1.0hetGla2

Variants

.
Variants in TNFSF9
11 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
Low 3 17 4 6 4 6 6 7 6
Below cutoff 2 5 5 2 2 5 6 8 3

Sequence


Reference Sequences
RefSeq Acc Id: ENSCAFT00000044144   ⟹   ENSCAFP00000042006
Type: CODING
Position:
Dog AssemblyChrPosition (strand)Source
CanFam3.1 Ensembl2053,679,880 - 53,682,706 (-)Ensembl
RefSeq Acc Id: XM_038426669   ⟹   XP_038282597
Type: CODING
Position:
Dog AssemblyChrPosition (strand)Source
ROS_Cfam_1.02054,333,423 - 54,336,590 (-)NCBI
RefSeq Acc Id: XM_038455340   ⟹   XP_038311268
Type: CODING
Position:
Dog AssemblyChrPosition (strand)Source
Dog10K_Boxer_Tasha2053,426,553 - 53,439,382 (-)NCBI
RefSeq Acc Id: XM_038504976   ⟹   XP_038360904
Type: CODING
Position:
Dog AssemblyChrPosition (strand)Source
UMICH_Zoey_3.12053,400,156 - 53,403,326 (-)NCBI
RefSeq Acc Id: XM_038565388   ⟹   XP_038421316
Type: CODING
Position:
Dog AssemblyChrPosition (strand)Source
UU_Cfam_GSD_1.02054,077,742 - 54,080,911 (-)NCBI
RefSeq Acc Id: XM_038631693   ⟹   XP_038487621
Type: CODING
Position:
Dog AssemblyChrPosition (strand)Source
UNSW_CanFamBas_1.02053,848,757 - 53,851,741 (-)NCBI
Protein Sequences
Protein RefSeqs XP_038282597 (Get FASTA)   NCBI Sequence Viewer  
  XP_038311268 (Get FASTA)   NCBI Sequence Viewer  
  XP_038360904 (Get FASTA)   NCBI Sequence Viewer  
  XP_038421316 (Get FASTA)   NCBI Sequence Viewer  
  XP_038487621 (Get FASTA)   NCBI Sequence Viewer  
Ensembl Protein ENSCAFP00000042006.2
Reference Protein Sequences
RefSeq Acc Id: ENSCAFP00000042006   ⟸   ENSCAFT00000044144
RefSeq Acc Id: XP_038360904   ⟸   XM_038504976
- Peptide Label: isoform X1
RefSeq Acc Id: XP_038487621   ⟸   XM_038631693
- Peptide Label: isoform X2
RefSeq Acc Id: XP_038282597   ⟸   XM_038426669
- Peptide Label: isoform X1
- UniProtKB: A0A8C0L727 (UniProtKB/TrEMBL)
RefSeq Acc Id: XP_038311268   ⟸   XM_038455340
- Peptide Label: isoform X3
RefSeq Acc Id: XP_038421316   ⟸   XM_038565388
- Peptide Label: isoform X1
- UniProtKB: A0A8C0L727 (UniProtKB/TrEMBL)
Protein Domains
TNF family profile

Promoters
RGD ID:13687082
Promoter ID:EPDNEW_C5148
Type:single initiation site
Name:TNFSF9_1
Description:TNF superfamily member 9
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
CanFam3.12053,682,724 - 53,682,784EPDNEW

Additional Information

Database Acc Id Source(s)
Ensembl Genes ENSCAFG00000030400 Ensembl, UniProtKB/TrEMBL
Ensembl Transcript ENSCAFT00000044144.3 UniProtKB/TrEMBL
Gene3D-CATH 2.60.120.40 UniProtKB/TrEMBL
InterPro TNF_dom UniProtKB/TrEMBL
  TNFSF9 UniProtKB/TrEMBL
  Tumour_necrosis_fac-like_dom UniProtKB/TrEMBL
NCBI Gene TNFSF9 ENTREZGENE
PANTHER TUMOR NECROSIS FACTOR LIGAND SUPERFAMILY MEMBER 9 UniProtKB/TrEMBL
  TUMOR NECROSIS FACTOR LIGAND SUPERFAMILY MEMBER 9 UniProtKB/TrEMBL
Pfam TNF UniProtKB/TrEMBL
PROSITE TNF_2 UniProtKB/TrEMBL
SMART TNF UniProtKB/TrEMBL
Superfamily-SCOP TNF-like UniProtKB/TrEMBL
UniProt A0A8C0L727 ENTREZGENE
  A0A8P0NSR5_CANLF UniProtKB/TrEMBL
VGNC ID VGNC:47674 ENTREZGENE


Nomenclature History
Date Current Symbol Current Name Previous Symbol Previous Name Description Reference Status
2017-11-21 TNFSF9  TNF superfamily member 9  TNFSF9  TNF superfamily member 9  Data merged from RGD:13350259 737654 PROVISIONAL
2017-10-31 TNFSF9  TNF superfamily member 9  LOC476729    Symbol and/or name change 5135510 APPROVED
2017-09-12 LOC476729  TNF superfamily member 9  TNFSF9    Symbol and/or name change 5135510 APPROVED
2017-03-08 TNFSF9  TNF superfamily member 9    tumor necrosis factor superfamily member 9  Symbol and/or name change 5135510 APPROVED