TNFSF9 (TNF superfamily member 9) - Rat Genome Database

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Gene: TNFSF9 (TNF superfamily member 9) Homo sapiens
Analyze
Symbol: TNFSF9
Name: TNF superfamily member 9
RGD ID: 1343892
HGNC Page HGNC:11939
Description: Predicted to enable tumor necrosis factor receptor superfamily binding activity. Predicted to be involved in positive regulation of activated T cell proliferation and positive regulation of cytotoxic T cell differentiation. Predicted to act upstream of or within regulation of immature T cell proliferation in thymus. Predicted to be located in extracellular space and membrane. Predicted to be active in plasma membrane. Biomarker of acute myeloid leukemia; colorectal cancer; and multiple sclerosis.
Type: protein-coding
RefSeq Status: REVIEWED
Previously known as: 4-1BB ligand; 4-1BB-L; 4-1BBL; CD137 ligand; CD137L; homolog of mouse 4-1BB-L; receptor 4-1BB ligand; TNLG5A; tumor necrosis factor (ligand) superfamily member 9; tumor necrosis factor (ligand) superfamily, member 9; tumor necrosis factor ligand 5A; tumor necrosis factor ligand superfamily member 9; tumor necrosis factor superfamily member 9
RGD Orthologs
Mouse
Rat
Chinchilla
Bonobo
Dog
Squirrel
Pig
Green Monkey
Naked Mole-Rat
Alliance Orthologs
More Info more info ...
Allele / Splice: See ClinVar data
Latest Assembly: GRCh38 - Human Genome Assembly GRCh38
Position:
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
JBrowse: View Region in Genome Browser (JBrowse)
Model


Gene-Chemical Interaction Annotations     Click to see Annotation Detail View
(-)-anisomycin  (EXP)
(S)-colchicine  (EXP)
17beta-estradiol  (ISO)
17beta-estradiol 3-benzoate  (ISO)
1H-pyrazole  (ISO)
2,3,7,8-tetrachlorodibenzodioxine  (EXP,ISO)
2,4-dibromophenyl 2,4,5-tribromophenyl ether  (ISO)
5-aza-2'-deoxycytidine  (EXP)
6-propyl-2-thiouracil  (ISO)
7,12-dimethyltetraphene  (EXP)
acrylamide  (EXP,ISO)
actinomycin D  (EXP)
adefovir pivoxil  (EXP)
adenine  (EXP)
aflatoxin B1  (EXP)
all-trans-retinoic acid  (EXP,ISO)
amphetamine  (ISO)
aristolochic acid A  (EXP)
arsane  (EXP)
arsenic atom  (EXP)
arsenous acid  (EXP)
avobenzone  (EXP)
benzo[a]pyrene  (EXP)
benzo[a]pyrene diol epoxide I  (EXP)
beta-lapachone  (EXP)
bisphenol A  (ISO)
butanal  (EXP)
cadmium atom  (EXP)
cadmium dichloride  (EXP)
calciol  (ISO)
camptothecin  (EXP)
carbon nanotube  (ISO)
chloroacetaldehyde  (EXP)
chloroprene  (ISO)
chromium(6+)  (EXP)
cidofovir anhydrous  (EXP)
cisplatin  (EXP)
cobalt atom  (ISO)
cobalt dichloride  (EXP)
copper atom  (EXP)
copper(0)  (EXP)
copper(II) sulfate  (EXP)
cyclophosphamide  (EXP)
cyclosporin A  (EXP)
daunorubicin  (EXP)
DDE  (EXP)
deoxynivalenol  (EXP)
dexamethasone  (ISO)
dextran sulfate  (ISO)
diallyl trisulfide  (EXP)
diarsenic trioxide  (EXP)
dieldrin  (EXP)
diethylstilbestrol  (ISO)
dioxygen  (EXP,ISO)
dorsomorphin  (EXP)
endosulfan  (EXP,ISO)
entinostat  (EXP)
ethanol  (EXP,ISO)
etoposide  (EXP)
formaldehyde  (EXP)
furosemide  (ISO)
genistein  (EXP)
gentamycin  (ISO)
ifosfamide  (EXP)
ionomycin  (EXP)
iron dichloride  (EXP)
isoflurane  (ISO)
lead diacetate  (EXP)
lead(0)  (EXP)
Licochalcone B  (EXP)
lipopolysaccharide  (EXP,ISO)
MeIQx  (EXP)
mercury dibromide  (EXP)
methotrexate  (EXP)
methyl methanesulfonate  (EXP)
methylmercury chloride  (EXP)
nickel sulfate  (ISO)
Nutlin-3  (EXP)
ochratoxin A  (EXP)
ozone  (ISO)
p-chloromercuribenzoic acid  (EXP)
p-menthan-3-ol  (EXP)
panobinostat  (EXP)
paracetamol  (EXP)
paraquat  (ISO)
pentanal  (EXP)
perfluorohexanesulfonic acid  (ISO)
phenylmercury acetate  (EXP)
pinostrobin  (EXP)
poly(I:C)  (EXP)
potassium bromate  (EXP)
propanal  (EXP)
S-(1,2-dichlorovinyl)-L-cysteine  (EXP)
SB 431542  (EXP)
silicon dioxide  (EXP,ISO)
silver atom  (EXP)
silver(0)  (EXP)
sodium arsenite  (EXP,ISO)
Soman  (ISO)
temozolomide  (EXP)
testosterone  (ISO)
tetrachloromethane  (ISO)
thapsigargin  (EXP)
thiram  (EXP)
titanium dioxide  (ISO)
Tributyltin oxide  (EXP)
trichostatin A  (EXP)
troglitazone  (ISO)
urethane  (EXP)
valproic acid  (EXP)
vincristine  (EXP)
vorinostat  (EXP)
XL147  (ISO)
zinc atom  (EXP)
zinc(0)  (EXP)
zoledronic acid  (EXP)

References

References - curated
# Reference Title Reference Citation
1. Expression of CD137 and CD137 ligand in colorectal cancer patients. Dimberg J, etal., Oncol Rep. 2006 May;15(5):1197-200.
2. GOAs Human GO annotations GOA_HUMAN data from the GO Consortium
3. 4-1BBL cooperates with B7-1 and B7-2 in converting a B cell lymphoma cell line into a long-lasting antitumor vaccine. Guinn BA, etal., J Immunol. 1999 Apr 15;162(8):5003-10.
4. Increased soluble 4-1BB ligand (4-1BBL) levels in peripheral blood of patients with multiple sclerosis. Liu GZ, etal., Scand J Immunol. 2006 Oct;64(4):412-9.
5. Data Import for Chemical-Gene Interactions RGD automated import pipeline for gene-chemical interactions
6. Soluble CD137 (4-1BB) ligand is released following leukocyte activation and is found in sera of patients with hematological malignancies. Salih HR, etal., J Immunol. 2001 Oct 1;167(7):4059-66.
7. Soluble PD-1 facilitates 4-1BBL-triggered antitumor immunity against murine H22 hepatocarcinoma in vivo. Xiao H, etal., Clin Cancer Res. 2007 Mar 15;13(6):1823-30. Epub 2007 Feb 26.
8. Targeted and untargeted CD137L fusion proteins for the immunotherapy of experimental solid tumors. Zhang N, etal., Clin Cancer Res. 2007 May 1;13(9):2758-67. Epub 2007 Apr 25.
Additional References at PubMed
PMID:8088337   PMID:8405064   PMID:9045669   PMID:9418902   PMID:9607925   PMID:10528187   PMID:10850651   PMID:10946324   PMID:11994439   PMID:12477932   PMID:12590704   PMID:12645943  
PMID:13130507   PMID:14746806   PMID:14752253   PMID:15031666   PMID:15489334   PMID:16204238   PMID:16287062   PMID:16341674   PMID:17496895   PMID:17855813   PMID:17972956   PMID:17977894  
PMID:18026115   PMID:18395851   PMID:19029446   PMID:19217084   PMID:19225975   PMID:19423540   PMID:19573080   PMID:19684160   PMID:19759901   PMID:19773279   PMID:20008791   PMID:20032458  
PMID:20237496   PMID:20303781   PMID:20406964   PMID:20422976   PMID:20438785   PMID:20520765   PMID:20568250   PMID:20628624   PMID:20670353   PMID:21153322   PMID:21745658   PMID:21873635  
PMID:22021067   PMID:22526397   PMID:22797667   PMID:23095505   PMID:23620528   PMID:24084649   PMID:24198185   PMID:24639347   PMID:24899613   PMID:25631633   PMID:25872647   PMID:26116899  
PMID:26125931   PMID:26186194   PMID:26646413   PMID:26872462   PMID:27388616   PMID:27430526   PMID:27431276   PMID:27564312   PMID:28514442   PMID:28547807   PMID:28878391   PMID:29720398  
PMID:30194255   PMID:30545939   PMID:30552705   PMID:31632390   PMID:32076121   PMID:32077004   PMID:32661872   PMID:32807901   PMID:33073305   PMID:33572150   PMID:33845483   PMID:33961781  
PMID:34207500   PMID:34517345   PMID:34902807   PMID:35696571   PMID:35714694   PMID:35812455   PMID:38344886  


Genomics

Comparative Map Data
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
(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
(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
14 total Variants

Clinical Variants
Name Type Condition(s) Position(s) Clinical significance
GRCh38/hg38 19p13.3-13.2(chr19:1972245-9648879)x3 copy number gain See cases [RCV000052879] Chr19:1972245..9648879 [GRCh38]
Chr19:1972244..9759555 [GRCh37]
Chr19:1923244..9620555 [NCBI36]
Chr19:19p13.3-13.2
pathogenic
GRCh38/hg38 19p13.3-13.2(chr19:4039158-9176125)x3 copy number gain Developmental Delay and additional significant developmental and morphological phenotypes referred for genetic testing [RCV000052881]|Developmental delay and additional significant developmental and morphological phenotypes referred for genetic testing [RCV000052881]|See cases [RCV000052881] Chr19:4039158..9176125 [GRCh38]
Chr19:4039156..9286801 [GRCh37]
Chr19:3990156..9147801 [NCBI36]
Chr19:19p13.3-13.2
pathogenic
GRCh38/hg38 19p13.3-13.2(chr19:265917-8564134)x3 copy number gain Developmental Delay and additional significant developmental and morphological phenotypes referred for genetic testing [RCV000052876]|Developmental delay and additional significant developmental and morphological phenotypes referred for genetic testing [RCV000052876]|See cases [RCV000052876] Chr19:265917..8564134 [GRCh38]
Chr19:265917..8629018 [GRCh37]
Chr19:216917..8535018 [NCBI36]
Chr19:19p13.3-13.2
pathogenic
GRCh38/hg38 19p13.3-13.2(chr19:5905175-6916287)x3 copy number gain See cases [RCV000139338] Chr19:5905175..6916287 [GRCh38]
Chr19:5905186..6916298 [GRCh37]
Chr19:5856186..6867298 [NCBI36]
Chr19:19p13.3-13.2
uncertain significance
GRCh38/hg38 19p13.3(chr19:259395-6795611)x3 copy number gain See cases [RCV000142627] Chr19:259395..6795611 [GRCh38]
Chr19:259395..6795622 [GRCh37]
Chr19:210395..6746622 [NCBI36]
Chr19:19p13.3
pathogenic
GRCh37/hg19 19p13.3-q13.43(chr19:260912-58956888)x3 copy number gain See cases [RCV000511289] Chr19:260912..58956888 [GRCh37]
Chr19:19p13.3-q13.43
pathogenic|uncertain significance
GRCh37/hg19 19p13.3-q13.43(chr19:260912-58956888) copy number gain See cases [RCV000512296] Chr19:260912..58956888 [GRCh37]
Chr19:19p13.3-q13.43
pathogenic
NM_003811.4(TNFSF9):c.154C>T (p.Pro52Ser) single nucleotide variant not specified [RCV004303862] Chr19:6531190 [GRCh38]
Chr19:6531201 [GRCh37]
Chr19:19p13.3
uncertain significance
GRCh37/hg19 19p13.3-13.2(chr19:3120160-9732820)x3 copy number gain not provided [RCV000684096] Chr19:3120160..9732820 [GRCh37]
Chr19:19p13.3-13.2
pathogenic
GRCh37/hg19 19p13.3-q13.43(chr19:68029-59110290)x3 copy number gain not provided [RCV000752439] Chr19:68029..59110290 [GRCh37]
Chr19:19p13.3-q13.43
pathogenic
GRCh37/hg19 19p13.3-q13.43(chr19:260912-59097160)x3 copy number gain not provided [RCV000752444] Chr19:260912..59097160 [GRCh37]
Chr19:19p13.3-q13.43
pathogenic
NM_003811.4(TNFSF9):c.673G>A (p.Ala225Thr) single nucleotide variant not specified [RCV004291375] Chr19:6534974 [GRCh38]
Chr19:6534985 [GRCh37]
Chr19:19p13.3
uncertain significance
NM_003811.4(TNFSF9):c.416G>C (p.Gly139Ala) single nucleotide variant not provided [RCV000889405] Chr19:6534717 [GRCh38]
Chr19:6534728 [GRCh37]
Chr19:19p13.3
likely benign
GRCh37/hg19 19p13.3(chr19:5949772-6699729)x3 copy number gain not provided [RCV001007028] Chr19:5949772..6699729 [GRCh37]
Chr19:19p13.3
uncertain significance
GRCh37/hg19 19p13.3(chr19:6246138-6823741)x3 copy number gain not provided [RCV001007029] Chr19:6246138..6823741 [GRCh37]
Chr19:19p13.3
uncertain significance
GRCh37/hg19 19p13.3(chr19:6096399-6699729)x3 copy number gain not provided [RCV001259930] Chr19:6096399..6699729 [GRCh37]
Chr19:19p13.3
uncertain significance
NC_000019.9:g.(?_6361586)_(8212364_?)del deletion Mucolipidosis type IV [RCV003109715] Chr19:6361586..8212364 [GRCh37]
Chr19:19p13.3-13.2
pathogenic
NM_003811.4(TNFSF9):c.362C>T (p.Thr121Met) single nucleotide variant not specified [RCV004208366] Chr19:6534663 [GRCh38]
Chr19:6534674 [GRCh37]
Chr19:19p13.3
uncertain significance
NM_003811.4(TNFSF9):c.16G>A (p.Asp6Asn) single nucleotide variant not specified [RCV004216596] Chr19:6531052 [GRCh38]
Chr19:6531063 [GRCh37]
Chr19:19p13.3
uncertain significance
NM_003811.4(TNFSF9):c.76G>C (p.Val26Leu) single nucleotide variant not specified [RCV004133333] Chr19:6531112 [GRCh38]
Chr19:6531123 [GRCh37]
Chr19:19p13.3
likely benign
NM_003811.4(TNFSF9):c.331A>G (p.Ser111Gly) single nucleotide variant not specified [RCV004107798] Chr19:6534632 [GRCh38]
Chr19:6534643 [GRCh37]
Chr19:19p13.3
uncertain significance
NM_003811.4(TNFSF9):c.419T>G (p.Val140Gly) single nucleotide variant not provided [RCV003152820] Chr19:6534720 [GRCh38]
Chr19:6534731 [GRCh37]
Chr19:19p13.3
uncertain significance
GRCh37/hg19 19p13.3-13.2(chr19:260912-7246777)x3 copy number gain not provided [RCV003485190] Chr19:260912..7246777 [GRCh37]
Chr19:19p13.3-13.2
pathogenic
NM_003811.4(TNFSF9):c.124G>A (p.Ala42Thr) single nucleotide variant not provided [RCV003406809] Chr19:6531160 [GRCh38]
Chr19:6531171 [GRCh37]
Chr19:19p13.3
benign
NM_003811.4(TNFSF9):c.10G>A (p.Ala4Thr) single nucleotide variant not specified [RCV004473242] Chr19:6531046 [GRCh38]
Chr19:6531057 [GRCh37]
Chr19:19p13.3
uncertain significance
NM_003811.4(TNFSF9):c.604C>G (p.Arg202Gly) single nucleotide variant not specified [RCV004473244] Chr19:6534905 [GRCh38]
Chr19:6534916 [GRCh37]
Chr19:19p13.3
uncertain significance
NM_003811.4(TNFSF9):c.692G>A (p.Gly231Asp) single nucleotide variant not specified [RCV004473246] Chr19:6534993 [GRCh38]
Chr19:6535004 [GRCh37]
Chr19:19p13.3
uncertain significance
NM_003811.4(TNFSF9):c.194C>G (p.Ala65Gly) single nucleotide variant not specified [RCV004473243] Chr19:6531230 [GRCh38]
Chr19:6531241 [GRCh37]
Chr19:19p13.3
uncertain significance
NM_003811.4(TNFSF9):c.625G>A (p.Gly209Ser) single nucleotide variant not specified [RCV004473245] Chr19:6534926 [GRCh38]
Chr19:6534937 [GRCh37]
Chr19:19p13.3
uncertain significance
NC_000019.9:g.(?_5691310)_(8008536_?)dup duplication not provided [RCV004579685] Chr19:5691310..8008536 [GRCh37]
Chr19:19p13.3-13.2
uncertain significance
NM_003811.4(TNFSF9):c.124G>C (p.Ala42Pro) single nucleotide variant not specified [RCV004682155] Chr19:6531160 [GRCh38]
Chr19:6531171 [GRCh37]
Chr19:19p13.3
uncertain significance
miRNA Target Status

Predicted Target Of
Summary Value
Count of predictions:637
Count of miRNA genes:365
Interacting mature miRNAs:377
Transcripts:ENST00000245817
Prediction methods:Microtar, Miranda, Rnahybrid
Result types:miRGate_prediction

The detailed report is available here: Full Report CSV TAB Printer

miRNA Target Status data imported from miRGate (http://mirgate.bioinfo.cnio.es/).
For more information about miRGate, see PMID:25858286 or access the full paper here.


QTLs in Region (GRCh38)
The following QTLs overlap with this region.    Full Report CSV TAB Printer Gviewer
RGD IDSymbolNameLODP ValueTraitSub TraitChrStartStopSpecies
1298499UAE1_HUrinary albumin excretion QTL 1 (human)2.730.0009Urinary albumin excretionurine albumin:creatinine ratio (ACR)19116075902Human
1643451SLIPL6_HSerum lipid level QTL 6 (human)2.190.0008Lipid level19116075902Human
1581534BP76_HBlood pressure QTL 76 (human)20.001Blood pressurepulse pressure19116075902Human
1581535BP65_HBlood pressure QTL 65 (human)3.10.001Blood pressurepulse pressure19116075902Human
2314591INSUL4_HInsulin level QTL 4 (human)3.80.000038Insulin levelfasting19116075902Human
1298476BP3_HBlood pressure QTL 3 (human)2.4Blood pressuresystolic19116075902Human

Markers in Region
SHGC-35317  
Human AssemblyChrPosition (strand)SourceJBrowse
GRCh37196,535,156 - 6,535,355UniSTSGRCh37
Build 36196,486,156 - 6,486,355RGDNCBI36
Celera196,474,987 - 6,475,186RGD
Cytogenetic Map19p13.3UniSTS
HuRef196,297,157 - 6,297,356UniSTS
GeneMap99-GB4 RH Map1938.82UniSTS
Whitehead-RH Map1923.6UniSTS
GeneMap99-G3 RH Map19229.0UniSTS
G15865  
Human AssemblyChrPosition (strand)SourceJBrowse
GRCh37196,535,162 - 6,535,376UniSTSGRCh37
Build 36196,486,162 - 6,486,376RGDNCBI36
Celera196,474,993 - 6,475,207RGD
Cytogenetic Map19p13.3UniSTS
HuRef196,297,163 - 6,297,377UniSTS


Expression

RNA-SEQ Expression

adipose tissue
alimentary part of gastrointestinal system
appendage
circulatory system
ectoderm
endocrine system
endoderm
entire extraembryonic component
exocrine system
hemolymphoid system
hepatobiliary system
integumental system
mesenchyme
mesoderm
musculoskeletal system
nervous system
pharyngeal arch
renal system
reproductive system
respiratory system
sensory system
visual system
1203 2418 2770 2221 4945 1674 2291 6 599 1910 441 2267 7196 6393 52 3704 1 846 1720 1584 174 1

Sequence


Ensembl Acc Id: ENST00000245817   ⟹   ENSP00000245817
Type: CODING
Position:
Human AssemblyChrPosition (strand)Source
GRCh38.p14 Ensembl196,531,026 - 6,535,924 (+)Ensembl
RefSeq Acc Id: NM_003811   ⟹   NP_003802
RefSeq Status: REVIEWED
Type: CODING
Position:
Human AssemblyChrPosition (strand)Source
GRCh38196,531,026 - 6,535,924 (+)NCBI
GRCh37196,531,010 - 6,535,939 (+)ENTREZGENE
Build 36196,482,037 - 6,486,933 (+)NCBI Archive
HuRef196,293,216 - 6,297,937 (+)ENTREZGENE
CHM1_1196,530,958 - 6,535,882 (+)NCBI
T2T-CHM13v2.0196,520,520 - 6,525,499 (+)NCBI
Sequence:
RefSeq Acc Id: NP_003802   ⟸   NM_003811
- UniProtKB: Q2M3S2 (UniProtKB/Swiss-Prot),   P41273 (UniProtKB/Swiss-Prot),   A0A0U5J8I0 (UniProtKB/TrEMBL),   B2RA14 (UniProtKB/TrEMBL)
- Sequence:
Ensembl Acc Id: ENSP00000245817   ⟸   ENST00000245817
Protein Domains
THD

Protein Structures
Name Modeler Protein Id AA Range Protein Structure
AF-P41273-F1-model_v2 AlphaFold P41273 1-254 view protein structure

Promoters
RGD ID:6796128
Promoter ID:HG_KWN:28663
Type:CpG-Island
SO ACC ID:SO:0000170
Source:MPROMDB
Tissues & Cell Lines:CD4+TCell,   CD4+TCell_12Hour,   HeLa_S3,   Jurkat,   K562,   Lymphoblastoid,   NB4
Transcripts:NM_003811
Position:
Human AssemblyChrPosition (strand)Source
Build 36196,481,851 - 6,482,351 (+)MPROMDB
RGD ID:7238231
Promoter ID:EPDNEW_H24861
Type:multiple 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:
Human AssemblyChrPosition (strand)Source
GRCh38196,531,026 - 6,531,086EPDNEW

Additional Information

Database Acc Id Source(s)
AGR Gene HGNC:11939 AgrOrtholog
COSMIC TNFSF9 COSMIC
Ensembl Genes ENSG00000125657 Ensembl, ENTREZGENE, UniProtKB/Swiss-Prot
Ensembl Transcript ENST00000245817 ENTREZGENE
  ENST00000245817.5 UniProtKB/Swiss-Prot
Gene3D-CATH 2.60.120.40 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
GTEx ENSG00000125657 GTEx
HGNC ID HGNC:11939 ENTREZGENE
Human Proteome Map TNFSF9 Human Proteome Map
InterPro TNF_CS UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  TNF_dom UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  TNFSF9 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  Tumour_necrosis_fac-like_dom UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
KEGG Report hsa:8744 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
NCBI Gene 8744 ENTREZGENE
OMIM 606182 OMIM
PANTHER PTHR15153 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  TUMOR NECROSIS FACTOR LIGAND SUPERFAMILY MEMBER 9 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
Pfam TNF UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
PharmGKB PA36629 PharmGKB, RGD
PROSITE TNF_1 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  TNF_2 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
SMART TNF UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
Superfamily-SCOP SSF49842 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
UniProt A0A0U5J8I0 ENTREZGENE, UniProtKB/TrEMBL
  B2RA14 ENTREZGENE, UniProtKB/TrEMBL
  P41273 ENTREZGENE
  Q2M3S2 ENTREZGENE
  TNFL9_HUMAN UniProtKB/Swiss-Prot
UniProt Secondary Q2M3S2 UniProtKB/Swiss-Prot


Nomenclature History
Date Current Symbol Current Name Previous Symbol Previous Name Description Reference Status
2017-03-07 TNFSF9  TNF superfamily member 9  TNFSF9  tumor necrosis factor superfamily member 9  Symbol and/or name change 5135510 APPROVED
2015-11-24 TNFSF9  tumor necrosis factor superfamily member 9  TNFSF9  tumor necrosis factor (ligand) superfamily, member 9  Symbol and/or name change 5135510 APPROVED