Tnfsf14 (TNF superfamily member 14)

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Gene: Tnfsf14 (TNF superfamily member 14) Rattus norvegicus

Analyze

Symbol:

Tnfsf14

Name:

TNF superfamily member 14

RGD ID:

1588572

Description:

Predicted to enable cysteine-type endopeptidase inhibitor activity involved in apoptotic process; identical protein binding activity; and signaling receptor binding activity. Predicted to be involved in cellular response to mechanical stimulus and positive regulation of NIK/NF-kappaB signaling. Predicted to act upstream of or within several processes, including T cell costimulation; positive regulation of T cell chemotaxis; and positive regulation of myoblast fusion. Predicted to be integral component of membrane. Orthologous to human TNFSF14 (TNF superfamily member 14); PARTICIPATES IN cytokine mediated signaling pathway; INTERACTS WITH amphetamine; bisphenol A; doxorubicin.

Type:

protein-coding

RefSeq Status:

PROVISIONAL

Previously known as:

LOC301133; similar to Tumor necrosis factor ligand superfamily member 14 (CD258 antigen); Tnlg1d; tumor necrosis factor (ligand) superfamily, member 14; tumor necrosis factor ligand 1d; tumor necrosis factor ligand superfamily member 14; tumor necrosis factor superfamily member 14

RGD Orthologs

Human

Mouse

Chinchilla

Bonobo

Dog

Squirrel

Pig

Green Monkey

Naked Mole-Rat

Alliance Genes

More Info

more info ...

Latest Assembly:

mRatBN7.2 - mRatBN7.2 Assembly

Position:

Rat Assembly	Chr	Position (strand)	Source	Genome Browsers
Rat Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
mRatBN7.2	9	2,069,075 - 2,073,128 (-)	NCBI	mRatBN7.2
mRatBN7.2 Ensembl	9	2,069,104 - 2,073,216 (-)	Ensembl
Rnor_6.0	9	9,761,363 - 9,765,461 (+)	NCBI	Rnor6.0	Rnor_6.0	rn6	Rnor6.0
Rnor_6.0 Ensembl	9	9,761,536 - 9,765,186 (+)	Ensembl	Rnor6.0		rn6	Rnor6.0
Rnor_5.0	9	8,768,631 - 8,772,649 (+)	NCBI	Rnor5.0	Rnor_5.0	rn5	Rnor5.0
Celera	9	6,447,405 - 6,451,055 (+)	NCBI		Celera
Cytogenetic Map	9	q12	NCBI

JBrowse:

View Region in Genome Browser (JBrowse)

Model

Annotation Click to see Annotation Detail View

Disease Annotations Click to see Annotation Detail View

IgA glomerulonephritis (ISS)

multiple sclerosis (ISO)

rheumatoid arthritis (ISO)

Gene-Chemical Interaction Annotations Click to see Annotation Detail View

1-chloro-2,4-dinitrobenzene (ISO)

17beta-estradiol (ISO)

2,3,7,8-tetrachlorodibenzodioxine (ISO)

2-methylcholine (ISO)

3,3',4,4',5-pentachlorobiphenyl (ISO)

4-(ethoxymethylene)-2-phenyloxazol-5-one (ISO)

aflatoxin B1 (ISO)

all-trans-retinoic acid (ISO)

amphetamine (EXP)

antirheumatic drug (ISO)

aristolochic acid (ISO)

arsenous acid (ISO)

benzene (ISO)

benzo[a]pyrene (ISO)

bisphenol A (EXP)

bisphenol F (ISO)

butanal (ISO)

cannabidiol (ISO)

carbon nanotube (ISO)

cisplatin (ISO)

curcumin (ISO)

cyclosporin A (ISO)

deoxynivalenol (ISO)

dextran sulfate (ISO)

diarsenic trioxide (ISO)

diethylstilbestrol (ISO)

dioxygen (ISO)

doxorubicin (EXP)

genistein (ISO)

hydrogen peroxide (ISO)

isoflurane (EXP)

lipopolysaccharide (ISO)

methotrexate (ISO)

methylisothiazolinone (ISO)

monosodium L-glutamate (ISO)

N-Nitrosopyrrolidine (ISO)

nickel atom (ISO)

ozone (ISO)

p-menthan-3-ol (ISO)

paracetamol (ISO)

paraquat (ISO)

pentobarbital (EXP)

perfluorononanoic acid (ISO)

perfluoroundecanoic acid (ISO)

propanal (ISO)

resveratrol (ISO)

silicon dioxide (ISO)

silver atom (ISO)

silver(0) (ISO)

sulforaphane (ISO)

tamibarotene (ISO)

titanium dioxide (ISO)

toluene 2,4-diisocyanate (ISO)

tris(2-butoxyethyl) phosphate (ISO)

urethane (ISO)

vinclozolin (EXP)

XL147 (ISO)

zinc atom (ISO)

zinc dichloride (ISO)

zinc(0) (ISO)

Gene Ontology Annotations Click to see Annotation Detail View

Biological Process

apoptotic process (IEA)

cellular response to mechanical stimulus (ISO)

immune response (IEA)

negative regulation of cysteine-type endopeptidase activity involved in apoptotic process (IEA)

positive regulation of myoblast differentiation (ISO)

positive regulation of myoblast fusion (ISO)

positive regulation of NIK/NF-kappaB signaling (ISO)

positive regulation of T cell chemotaxis (ISO)

T cell chemotaxis (ISO)

T cell costimulation (ISO)

Cellular Component

integral component of membrane (IEA)

Molecular Function

cysteine-type endopeptidase inhibitor activity involved in apoptotic process (ISO)

identical protein binding (ISO)

protein binding (ISO)

signaling receptor binding (ISO)

tumor necrosis factor receptor binding (IEA)

Molecular Pathway Annotations Click to see Annotation Detail View

cytokine mediated signaling pathway (IEA)

References

References - curated


1.	Pipeline to import KEGG annotations from KEGG into RGD
2.	RGD automated data pipeline
3.	RGD automated import pipeline for ClinVar variants, variant-to-disease annotations and gene-to-disease annotations
4.	RGD automated import pipeline for gene-chemical interactions

Additional References at PubMed

PMID:10754304	PMID:12393901	PMID:15568026	PMID:19593445	PMID:21236258	PMID:23844157	PMID:25087510	PMID:26646413

Genomics

Comparative Map Data

Tnfsf14
(Rattus norvegicus - Norway rat)

Rat Assembly	Chr	Position (strand)	Source	Genome Browsers
Rat Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
mRatBN7.2	9	2,069,075 - 2,073,128 (-)	NCBI	mRatBN7.2
mRatBN7.2 Ensembl	9	2,069,104 - 2,073,216 (-)	Ensembl
Rnor_6.0	9	9,761,363 - 9,765,461 (+)	NCBI	Rnor6.0	Rnor_6.0	rn6	Rnor6.0
Rnor_6.0 Ensembl	9	9,761,536 - 9,765,186 (+)	Ensembl	Rnor6.0		rn6	Rnor6.0
Rnor_5.0	9	8,768,631 - 8,772,649 (+)	NCBI	Rnor5.0	Rnor_5.0	rn5	Rnor5.0
Celera	9	6,447,405 - 6,451,055 (+)	NCBI		Celera
Cytogenetic Map	9	q12	NCBI

TNFSF14
(Homo sapiens - human)

Human Assembly	Chr	Position (strand)	Source	Genome Browsers
Human Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
GRCh38	19	6,661,253 - 6,670,588 (-)	NCBI	GRCh38	GRCh38	hg38	GRCh38
GRCh38.p13 Ensembl	19	6,661,253 - 6,670,588 (-)	Ensembl	GRCh38		hg38	GRCh38
GRCh37	19	6,661,264 - 6,670,599 (-)	NCBI	GRCh37	GRCh37	hg19	GRCh37
Build 36	19	6,615,560 - 6,621,599 (-)	NCBI	NCBI36		hg18	NCBI36
Build 34	19	6,615,565 - 6,621,599	NCBI
Celera	19	6,604,701 - 6,612,155 (-)	NCBI
Cytogenetic Map	19	p13.3	NCBI
HuRef	19	6,425,122 - 6,432,649 (-)	NCBI		HuRef
CHM1_1	19	6,663,409 - 6,670,848 (-)	NCBI		CHM1_1
T2T-CHM13v2.0	19	6,650,888 - 6,660,217 (-)	NCBI

Tnfsf14
(Mus musculus - house mouse)

Mouse Assembly	Chr	Position (strand)	Source	Genome Browsers
Mouse Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
GRCm39	17	57,496,474 - 57,501,181 (-)	NCBI	GRCm39		mm39
GRCm39 Ensembl	17	57,496,492 - 57,501,177 (-)	Ensembl
GRCm38	17	57,189,474 - 57,194,181 (-)	NCBI	GRCm38	GRCm38	mm10	GRCm38
GRCm38.p6 Ensembl	17	57,189,492 - 57,194,177 (-)	Ensembl	GRCm38		mm10	GRCm38
MGSCv37	17	57,328,915 - 57,333,612 (-)	NCBI	GRCm37		mm9	NCBIm37
MGSCv36	17	56,874,827 - 56,889,591 (-)	NCBI			mm8
Celera	17	61,538,038 - 61,542,735 (-)	NCBI		Celera
Cytogenetic Map	17	D	NCBI

Tnfsf14
(Chinchilla lanigera - long-tailed chinchilla)

Chinchilla Assembly	Chr	Position (strand)	Source	Genome Browsers
Chinchilla Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
ChiLan1.0 Ensembl	NW_004955495	2,829,402 - 2,835,335 (+)	Ensembl	ChiLan1.0
ChiLan1.0	NW_004955495	2,829,314 - 2,834,826 (+)	NCBI	ChiLan1.0	ChiLan1.0

TNFSF14
(Pan paniscus - bonobo/pygmy chimpanzee)

Bonobo Assembly	Chr	Position (strand)	Source	Genome Browsers
Bonobo Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
PanPan1.1	19	6,614,372 - 6,621,763 (-)	NCBI	panpan1.1	PanPan1.1	panPan2
PanPan1.1 Ensembl	19	6,614,378 - 6,621,763 (-)	Ensembl	panpan1.1		panPan2
Mhudiblu_PPA_v0	19	5,691,648 - 5,700,935 (-)	NCBI	Mhudiblu_PPA_v0		panPan3

TNFSF14
(Canis lupus familiaris - dog)

Dog Assembly	Chr	Position (strand)	Source	Genome Browsers
Dog Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
CanFam3.1	20	53,604,101 - 53,607,522 (+)	NCBI	CanFam3.1	CanFam3.1	canFam3	CanFam3.1
CanFam3.1 Ensembl	20	53,603,709 - 53,607,522 (+)	Ensembl	CanFam3.1		canFam3	CanFam3.1
Dog10K_Boxer_Tasha	20	53,351,781 - 53,355,064 (+)	NCBI
ROS_Cfam_1.0	20	54,258,226 - 54,261,513 (+)	NCBI
ROS_Cfam_1.0 Ensembl	20	54,258,091 - 54,261,536 (+)	Ensembl
UMICH_Zoey_3.1	20	53,325,114 - 53,328,394 (+)	NCBI
UNSW_CanFamBas_1.0	20	53,773,591 - 53,776,865 (+)	NCBI
UU_Cfam_GSD_1.0	20	54,002,586 - 54,005,871 (+)	NCBI

Tnfsf14
(Ictidomys tridecemlineatus - thirteen-lined ground squirrel)

Squirrel Assembly	Chr	Position (strand)	Source	Genome Browsers
Squirrel Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
HiC_Itri_2	NW_024405118	213,854,848 - 213,859,307 (+)	NCBI
SpeTri2.0	NW_004936588	3,976,492 - 3,979,825 (-)	NCBI	SpeTri2.0	SpeTri2.0		SpeTri2.0

TNFSF14
(Sus scrofa - pig)

Pig Assembly	Chr	Position (strand)	Source	Genome Browsers
Pig Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
Sscrofa11.1 Ensembl	2	72,473,477 - 72,484,017 (+)	Ensembl	Sscrofa11.1		susScr11	Sscrofa11.1
Sscrofa11.1	2	72,478,178 - 72,483,885 (+)	NCBI	Sscrofa11.1	Sscrofa11.1	susScr11	Sscrofa11.1
Sscrofa10.2	2	72,993,336 - 72,998,023 (+)	NCBI	Sscrofa10.2	Sscrofa10.2	susScr3

TNFSF14
(Chlorocebus sabaeus - green monkey)

Green Monkey Assembly	Chr	Position (strand)	Source	Genome Browsers
Green Monkey Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
ChlSab1.1	6	6,235,641 - 6,241,706 (-)	NCBI	ChlSab1.1		chlSab2
ChlSab1.1 Ensembl	6	6,236,193 - 6,241,311 (-)	Ensembl	ChlSab1.1		chlSab2
Vero_WHO_p1.0	NW_023666081	1,755,097 - 1,764,021 (+)	NCBI	Vero_WHO_p1.0

Tnfsf14
(Heterocephalus glaber - naked mole-rat)

Naked Mole-rat Assembly	Chr	Position (strand)	Source	Genome Browsers
Naked Mole-rat Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
HetGla 1.0	NW_004624828	3,763,849 - 3,770,500 (-)	NCBI	HetGla_female_1.0		hetGla2

QTLs in Region (mRatBN7.2)

The following QTLs overlap with this region.

RGD ID	Symbol	Name	LOD	P Value	Trait	Sub Trait	Chr	Start	Stop	Species
10054141	Gmadr4	Adrenal mass QTL 4	2.45	0.0074	adrenal gland mass (VT:0010420)	both adrenal glands wet weight (CMO:0000164)	9	1	14209783	Rat
70226	Eae4	Experimental allergic encephalomyelitis QTL 4			nervous system integrity trait (VT:0010566)	experimental autoimmune encephalomyelitis incidence/prevalence measurement (CMO:0001046)	9	1	25661317	Rat
9589055	Scfw5	Subcutaneous fat weight QTL 5	5.55	0.001	subcutaneous adipose mass (VT:1000472)	abdominal subcutaneous fat pad weight (CMO:0002069)	9	1	37999212	Rat
7411592	Foco8	Food consumption QTL 8	7.4	0.001	eating behavior trait (VT:0001431)	feed conversion ratio (CMO:0001312)	9	1	37999212	Rat
9589158	Gluco65	Glucose level QTL 65	6.82	0.001	blood glucose amount (VT:0000188)	plasma glucose level (CMO:0000042)	9	1	37999212	Rat
1300124	Cm4	Cardiac mass QTL 4	3.55		heart mass (VT:0007028)	heart weight to body weight ratio (CMO:0000074)	9	1	40594091	Rat
1298088	Edpm11	Estrogen-dependent pituitary mass QTL 11	2.5		pituitary gland mass (VT:0010496)	pituitary gland wet weight (CMO:0000853)	9	1	43718459	Rat
1641911	Alcrsp13	Alcohol response QTL 13			response to alcohol trait (VT:0010489)	brain neurotensin receptor 1 density (CMO:0002068)	9	1	43718459	Rat
10054125	Srcrt7	Stress Responsive Cort QTL 7	3.33	0.0011	blood corticosterone amount (VT:0005345)	plasma corticosterone level (CMO:0001173)	9	1	87073594	Rat
1331757	Cdexp1	CD45RC expression in CD8 T cells QTL 1	4.3		CD8-positive T cell quantity (VT:0008077)	blood CD45RC(high) CD8 T cell count to CD45RC(low) CD8 T cell count ratio (CMO:0001990)	9	1024537	67509080	Rat
1354650	Despr5	Despair related QTL 5	4.01	0.0017	locomotor behavior trait (VT:0001392)	amount of time spent in voluntary immobility (CMO:0001043)	9	1254084	46254084	Rat
2303559	Gluco54	Glucose level QTL 54	2		blood glucose amount (VT:0000188)	blood glucose level (CMO:0000046)	9	1254084	46254084	Rat

miRNA Target Status

Predicted Target Of

	Summary Value
Count of predictions:	38
Count of miRNA genes:	37
Interacting mature miRNAs:	38
Transcripts:	ENSRNOT00000074247
Prediction methods:	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.

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	renal system	reproductive system	respiratory system	appendage
High
Medium
Low	2	1	29	21	19	21					3	10
Below cutoff	1	20	17	13		13	6	7	7	16	21	1	6

View RNA-SEQ Expression Data

Sequence

Nucleotide Sequences


RefSeq Transcripts	NM_001191803	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
	XM_008766755	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
	XM_039083146	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
GenBank Nucleotide	CH474092	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
	JACYVU010000204	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
	LN874407	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles

Reference Sequences

RefSeq Acc Id:

ENSRNOT00000074247 ⟹ ENSRNOP00000067356

RefSeq Status:

Type:

CODING

Position:

Rat Assembly	Chr	Position (strand)	Source
mRatBN7.2 Ensembl	9	2,069,104 - 2,073,216 (-)	Ensembl
Rnor_6.0 Ensembl	9	9,761,536 - 9,765,186 (+)	Ensembl

RefSeq Acc Id:

ENSRNOT00000107320 ⟹ ENSRNOP00000078327

RefSeq Status:

Type:

CODING

Position:

Rat Assembly	Chr	Position (strand)	Source
mRatBN7.2 Ensembl	9	2,069,104 - 2,073,216 (-)	Ensembl

RefSeq Acc Id:

NM_001191803 ⟹ NP_001178732

RefSeq Status:

PROVISIONAL

Type:

CODING

Position:

Rat Assembly	Chr	Position (strand)	Source
mRatBN7.2	9	2,069,350 - 2,073,000 (-)	NCBI
Rnor_6.0	9	9,761,536 - 9,765,186 (+)	NCBI
Rnor_5.0	9	8,768,631 - 8,772,649 (+)	NCBI
Celera	9	6,447,405 - 6,451,055 (+)	NCBI

Sequence:

show sequence

ATGGAGAGTGTGGTACAGCCTTCAGTGTTTGTGGTGGATGGACAGACAGACATCCCATTCAGGC
GGCTGGGACAGAACCACAGGAGACGGCACTGCGGCACTGTCCAGGTCAGCCTGGCCCTGCTGCT
GCTGCTGGGTGCTGGGCTGGCCACTGAGGGCTGGTTTCTCCTGAGACTGCATCAGCGTCTTGGG
GACATAGTAGCTCATCTGCCAGATGGAGGCAAAGGCTCCTGGGAGAAGCTGATACAAGATCAAC
GATCTCACCAGCCCAACCCAGCAGCACATCTCACAGGAGCTAACGCCAGCTTGATAGGCATTGG
TGGACCTCTGTTATGGGAGACACAACTTGGCCTGGCCTTCCTGAGGGGCCTGACGTATCATGAT
GGGGCCCTGGTGACCACCGAGGCTGGCTACTACTACGTGTACTCCAAAGTGCAGTTGAGTGGTG
TGGGCTGCCCCCAGGGGCTGGCCAATGGCCTCCCCATCACCCACGGGCTGTACAAGCGCACATC
CCGATACCCCAAGGAGTTAGAACTGCTGGTCAGCCGGCGGTCACCTTGTGGCCGGGCCAACAGC
TCCCGAGTCTGGTGGGACAGTAGTTTCCTCGGCGGAGTGGTACATCTGGAGGCCGGAGAAGAGG
TGGTGGTCCGCGTGCCTGGAAACCGCCTGGTCAGACCACGTGATGGCACGAGGTCCTATTTCGG
AGCTTTCATGATCTGA

hide sequence

RefSeq Acc Id:

XM_039083146 ⟹ XP_038939074

RefSeq Status:

Type:

CODING

Position:

Rat Assembly	Chr	Position (strand)	Source
mRatBN7.2	9	2,069,075 - 2,073,128 (-)	NCBI

Protein Sequences


Protein RefSeqs	NP_001178732	(Get FASTA)	NCBI Sequence Viewer
	XP_038939074	(Get FASTA)	NCBI Sequence Viewer
GenBank Protein	CTQ86172	(Get FASTA)	NCBI Sequence Viewer
	EDL83572	(Get FASTA)	NCBI Sequence Viewer

Reference Sequences

RefSeq Acc Id:

NP_001178732 ⟸ NM_001191803

- UniProtKB:

M0RCN2 (UniProtKB/TrEMBL)

- Sequence:

show sequence

MESVVQPSVFVVDGQTDIPFRRLGQNHRRRHCGTVQVSLALLLLLGAGLATEGWFLLRLHQRLG
DIVAHLPDGGKGSWEKLIQDQRSHQPNPAAHLTGANASLIGIGGPLLWETQLGLAFLRGLTYHD
GALVTTEAGYYYVYSKVQLSGVGCPQGLANGLPITHGLYKRTSRYPKELELLVSRRSPCGRANS
SRVWWDSSFLGGVVHLEAGEEVVVRVPGNRLVRPRDGTRSYFGAFMI

hide sequence

RefSeq Acc Id:

ENSRNOP00000067356 ⟸ ENSRNOT00000074247

RefSeq Acc Id:	XP_038939074 ⟸ XM_039083146
- Peptide Label:	isoform X1

RefSeq Acc Id:

ENSRNOP00000078327 ⟸ ENSRNOT00000107320

Protein Domains

TNF_2

Protein Structures

Name	Modeler	Protein Id	AA Range	Protein Structure
AF-M0RCN2-F1-model_v2	AlphaFold	M0RCN2	1-239	view protein structure

Transcriptome

eQTL		View at Phenogen
WGCNA		View at Phenogen
Tissue/Strain Expression		View at Phenogen

Strain Variation

Strain Sequence Variants (MRatBN7.2)

ACI/EurMcwi (2019)

Visual

CSV

TAB

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Platform:	GSPMC-Illumina-NovaSeq6000
Secondary Analysis:	BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder:	MCW
Description:	Dr. Mindy Dwinell - Hybrid rat diversity program

ACI/N (2020)

Visual

CSV

TAB

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Platform:	GSPMC-Illumina-NovaSeq6000
Secondary Analysis:	BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder:	NIH
Description:	Dr. Mindy Dwinell - Hybrid rat diversity program

BN-Lx/CubMcwi (2019)

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CSV

TAB

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Platform:	GSPMC-Illumina-NovaSeq6000
Secondary Analysis:	BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder:	MCW
Description:	Dr. Mindy Dwinell - Hybrid rat diversity program

BN/NHsdMcwi (2019)

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CSV

TAB

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Platform:	GSPMC-Illumina-NovaSeq6000
Secondary Analysis:	BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder:	MCW
Description:	Dr. Mindy Dwinell - Hybrid rat diversity program

BN/NHsdMcwi (2020)

Visual

CSV

TAB

Printer

Platform:	GSPMC-Illumina-NovaSeq6000
Secondary Analysis:	BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder:	MCW
Description:	Dr. Mindy Dwinell - Hybrid rat diversity program

BN/SsN (2020)

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CSV

TAB

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Platform:	GSPMC-Illumina-NovaSeq6000
Secondary Analysis:	BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder:	NIH
Description:	Dr. Mindy Dwinell - Hybrid rat diversity program

BUF/N (2020)

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CSV

TAB

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Platform:	GSPMC-Illumina-NovaSeq6000
Secondary Analysis:	BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder:	NIH
Description:	Dr. Mindy Dwinell - Hybrid rat diversity program

BXH2/CubMcwi (2020)

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CSV

TAB

Printer

Platform:	GSPMC-Illumina-NovaSeq6000
Secondary Analysis:	BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder:	MCW
Description:	Dr. Mindy Dwinell - Hybrid rat diversity program

BXH3/CubMcwi (2020)

Visual

CSV

TAB

Printer

Platform:	GSPMC-Illumina-NovaSeq6000
Secondary Analysis:	BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder:	MCW
Description:	Dr. Mindy Dwinell - Hybrid rat diversity program

DA/OlaHsd (2019)

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CSV

TAB

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Platform:	GSPMC-Illumina-NovaSeq6000
Secondary Analysis:	BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder:	Envigo
Description:	Dr. Mindy Dwinell - Hybrid rat diversity program

F344/DuCrl (2019)

Visual

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Platform:	GSPMC-Illumina-NovaSeq6000
Secondary Analysis:	BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder:	Charles River
Description:	Dr. Mindy Dwinell - Hybrid rat diversity program

F344/N (2020)

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Platform:	GSPMC-Illumina-NovaSeq6000
Secondary Analysis:	BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder:	NIH
Description:	Dr. Mindy Dwinell - Hybrid rat diversity program

F344/NCrl (2019)

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Platform:	GSPMC-Illumina-NovaSeq6000
Secondary Analysis:	BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder:	Charles River
Description:	Dr. Mindy Dwinell - Hybrid rat diversity program

F344/Stm (2019)

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Platform:	GSPMC-Illumina-NovaSeq6000
Secondary Analysis:	BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder:	Japan
Description:	Dr. Mindy Dwinell - Hybrid rat diversity program

FHH/EurMcwi (2019)

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Platform:	GSPMC-Illumina-NovaSeq6000
Secondary Analysis:	BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder:	MCW
Description:	Dr. Mindy Dwinell - Hybrid rat diversity program

FXLE16/Stm (2020)

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Platform:	GSPMC-Illumina-NovaSeq6000
Secondary Analysis:	BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder:	Japan
Description:	Dr. Mindy Dwinell - Hybrid rat diversity program

FXLE18/Stm (2020)

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Platform:	GSPMC-Illumina-NovaSeq6000
Secondary Analysis:	BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder:	Japan
Description:	Dr. Mindy Dwinell - Hybrid rat diversity program

GK/FarMcwi (2019)

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Platform:	GSPMC-Illumina-NovaSeq6000
Secondary Analysis:	BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder:	MCW
Description:	Dr. Mindy Dwinell - Hybrid rat diversity program

HXB10/IpcvMcwi (2019)

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Platform:	GSPMC-Illumina-NovaSeq6000
Secondary Analysis:	BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder:	MCW
Description:	Dr. Mindy Dwinell - Hybrid rat diversity program

HXB2/IpcvMcwi (2019)

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Platform:	GSPMC-Illumina-NovaSeq6000
Secondary Analysis:	BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder:	MCW
Description:	Dr. Mindy Dwinell - Hybrid rat diversity program

HXB20/IpcvMcwi (2020)

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Platform:	GSPMC-Illumina-NovaSeq6000
Secondary Analysis:	BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder:	MCW
Description:	Dr. Mindy Dwinell - Hybrid rat diversity program

HXB31/IpcvMcwi (2019)

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Platform:	GSPMC-Illumina-NovaSeq6000
Secondary Analysis:	BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder:	MCW
Description:	Dr. Mindy Dwinell - Hybrid rat diversity program

HXB4/IpcvMcwi (2020)

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Platform:	GSPMC-Illumina-NovaSeq6000
Secondary Analysis:	BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder:	MCW
Description:	Dr. Mindy Dwinell - Hybrid rat diversity program

LE/Stm (2019)

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Platform:	GSPMC-Illumina-NovaSeq6000
Secondary Analysis:	BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder:	MCW
Description:	Dr. Mindy Dwinell - Hybrid rat diversity program

LEW/Crl (2019)

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Platform:	GSPMC-Illumina-NovaSeq6000
Secondary Analysis:	BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder:	Charles River
Description:	Dr. Mindy Dwinell - Hybrid rat diversity program

LEXF10A/StmMcwi (2020)

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Platform:	GSPMC-Illumina-NovaSeq6000
Secondary Analysis:	BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder:	MCW
Description:	Dr. Mindy Dwinell - Hybrid rat diversity program

LEXF11/Stm (2020)

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Platform:	GSPMC-Illumina-NovaSeq6000
Secondary Analysis:	BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder:	Japan
Description:	Dr. Mindy Dwinell - Hybrid rat diversity program

LEXF1A/Stm (2019)

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Platform:	GSPMC-Illumina-NovaSeq6000
Secondary Analysis:	BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder:	Japan
Description:	Dr. Mindy Dwinell - Hybrid rat diversity program

LEXF1C/Stm (2019)

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Platform:	GSPMC-Illumina-NovaSeq6000
Secondary Analysis:	BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder:	Japan
Description:	Dr. Mindy Dwinell - Hybrid rat diversity program

LEXF2B/Stm (2019)

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Platform:	GSPMC-Illumina-NovaSeq6000
Secondary Analysis:	BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder:	Japan
Description:	Dr. Mindy Dwinell - Hybrid rat diversity program

LEXF3/Stm (2020)

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Platform:	GSPMC-Illumina-NovaSeq6000
Secondary Analysis:	BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder:	Japan
Description:	Dr. Mindy Dwinell - Hybrid rat diversity program

LEXF4/Stm (2020)

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Platform:	GSPMC-Illumina-NovaSeq6000
Secondary Analysis:	BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder:	Japan
Description:	Dr. Mindy Dwinell - Hybrid rat diversity program

LH/MavRrrcAek (2020)

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Platform:	GSPMC-Illumina-NovaSeq6000
Secondary Analysis:	BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder:	Kwitek
Description:	Dr. Mindy Dwinell - Hybrid rat diversity program

LL/MavRrrcAek (2020)

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Platform:	GSPMC-Illumina-NovaSeq6000
Secondary Analysis:	BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder:	Kwitek
Description:	Dr. Mindy Dwinell - Hybrid rat diversity program

LN/MavRrrcAek (2020)

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Platform:	GSPMC-Illumina-NovaSeq6000
Secondary Analysis:	BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder:	Kwitek
Description:	Dr. Mindy Dwinell - Hybrid rat diversity program

M520/N (2020)

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Platform:	GSPMC-Illumina-NovaSeq6000
Secondary Analysis:	BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder:	NIH
Description:	Dr. Mindy Dwinell - Hybrid rat diversity program

M520/NRrrcMcwi (2019)

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Platform:	GSPMC-Illumina-NovaSeq6000
Secondary Analysis:	BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder:	MCW
Description:	Dr. Mindy Dwinell - Hybrid rat diversity program

MR/N (2020)

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Platform:	GSPMC-Illumina-NovaSeq6000
Secondary Analysis:	BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder:	NIH
Description:	Dr. Mindy Dwinell - Hybrid rat diversity program

MWF/Hsd (2019)

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Platform:	GSPMC-Illumina-NovaSeq6000
Secondary Analysis:	BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder:	MCW
Description:	Dr. Mindy Dwinell - Hybrid rat diversity program

PVG/Seac (2019)

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Platform:	GSPMC-Illumina-NovaSeq6000
Secondary Analysis:	BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder:	Japan
Description:	Dr. Mindy Dwinell - Hybrid rat diversity program

SHR/OlalpcvMcwi (2019)

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Platform:	GSPMC-Illumina-NovaSeq6000
Secondary Analysis:	BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder:	MCW
Description:	Dr. Mindy Dwinell - Hybrid rat diversity program

SHRSP/A3NCrl (2019)

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Platform:	GSPMC-Illumina-NovaSeq6000
Secondary Analysis:	BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder:	Charles River
Description:	Dr. Mindy Dwinell - Hybrid rat diversity program

SR/JrHsd (2020)

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Platform:	GSPMC-Illumina-NovaSeq6000
Secondary Analysis:	BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder:	Envigo
Description:	Dr. Mindy Dwinell - Hybrid rat diversity program

SS/JrHsdMcwi (2019)

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Platform:	GSPMC-Illumina-NovaSeq6000
Secondary Analysis:	BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder:	MCW
Description:	Dr. Mindy Dwinell - Hybrid rat diversity program

WAG/RijCrl (2020)

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Platform:	GSPMC-Illumina-NovaSeq6000
Secondary Analysis:	BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder:	Charles River
Description:	Dr. Mindy Dwinell - Hybrid rat diversity program

WKY/N (2020)

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Platform:	GSPMC-Illumina-NovaSeq6000
Secondary Analysis:	BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder:	NIH
Description:	Dr. Mindy Dwinell - Hybrid rat diversity program

WKY/NCrl (2019)

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Platform:	GSPMC-Illumina-NovaSeq6000
Secondary Analysis:	BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder:	Charles River
Description:	Dr. Mindy Dwinell - Hybrid rat diversity program

WN/N (2020)

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Platform:	GSPMC-Illumina-NovaSeq6000
Secondary Analysis:	BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder:	NIH
Description:	Dr. Mindy Dwinell - Hybrid rat diversity program

Damaging Variants

Assembly: Rnor_6.0

Chromosome	Start Pos	End Pos	Reference Nucleotide	Variant Nucleotide	Variant Type	Strain
9	9761525	9761526	G	A	snv	ACI/EurMcwi (MCW), WKY/NCrl (2019), FHH/EurMcwi (MCW), GH/OmrMcwi (MCW), ACI/EurMcwi (RGD), SHR/NHsd (RGD), SHRSP/Gcrc (RGD), WAG/Rij (RGD), WKY/NCrl (RGD), WKY/Gcrc (RGD), ACI/EurMcwi (2019), ACI/N (2020), F344/DuCrl (2019), F344/N (2020), FHH/EurMcwi (2019), FXLE16/Stm (2020), WAG/RijCrl (2020), WKY/N (2020), WN/N (2020), FHL/EurMcwi (MCW), BBDP/Wor (RGD), F344/NCrl (RGD), FHH/EurMcwi (RGD), FHL/EurMcwi (RGD), MHS/Gib (RGD), WKY/NHsd (RGD), BXH2/CubMcwi (2020), BXH3/CubMcwi (2020), F344/NCrl (2019), F344/Stm (2019), HXB10/IpcvMcwi (2019), HXB20/IpcvMcwi (2020), HXB2/IpcvMcwi (2019), HXB4/IpcvMcwi (2020), LEXF3/Stm (2020), MR/N (2020), MWF/Hsd (2019), PVG/Seac (2019), SHRSP/A3NCrl (2019), SHR/OlalpcvMcwi (2019), COP/CrCrl (MCW & UW)

Additional Information

External Database Links

Database	Acc Id	Source(s)
AGR Gene	RGD:1588572	AgrOrtholog
BioCyc Gene	G2FUF-28484	BioCyc
Ensembl Genes	ENSRNOG00000047730	Ensembl, UniProtKB/TrEMBL
Ensembl Protein	ENSRNOP00000067356	UniProtKB/TrEMBL
Ensembl Transcript	ENSRNOT00000074247	UniProtKB/TrEMBL
Gene3D-CATH	2.60.120.40	UniProtKB/TrEMBL
InterPro	TNF	UniProtKB/TrEMBL
	TNF_a/b/c	UniProtKB/TrEMBL
	Tumour_necrosis_fac-like_dom	UniProtKB/TrEMBL
KEGG Report	rno:301133	UniProtKB/TrEMBL
NCBI Gene	301133	ENTREZGENE
Pfam	TNF	UniProtKB/TrEMBL
PhenoGen	Tnfsf14	PhenoGen
PRINTS	TNECROSISFCT	UniProtKB/TrEMBL
PROSITE	TNF_2	UniProtKB/TrEMBL
SMART	TNF	UniProtKB/TrEMBL
Superfamily-SCOP	TNF_like	UniProtKB/TrEMBL
UniProt	M0RCN2	ENTREZGENE, UniProtKB/TrEMBL

Nomenclature History

Date	Current Symbol	Current Name	Previous Symbol	Previous Name	Description	Reference	Status
2017-03-21	Tnfsf14	TNF superfamily member 14	Tnfsf14	tumor necrosis factor superfamily member 14	Nomenclature updated to reflect human and mouse nomenclature	1299863	APPROVED
2015-11-25	Tnfsf14	tumor necrosis factor superfamily member 14	Tnfsf14	tumor necrosis factor (ligand) superfamily, member 14	Nomenclature updated to reflect human and mouse nomenclature	1299863	APPROVED
2008-03-04	Tnfsf14	tumor necrosis factor (ligand) superfamily, member 14	LOC301133	similar to Tumor necrosis factor ligand superfamily member 14 (CD258 antigen)	Nomenclature updated to reflect human and mouse nomenclature	1299863	APPROVED
2006-11-19	LOC301133	similar to Tumor necrosis factor ligand superfamily member 14 (CD258 antigen)			Symbol and Name status set to provisional	70820	PROVISIONAL

Gene Annotator (Functional Annotation) unavailable	Gene Annotator (Annotation Distribution) unavailable	Variant Visualizer (Genomic Variants) unavailble Variant Visualizer (Genomic Variants) unavailable
Gene Annotator (Functional Annotation)	Gene Annotator (Annotation Distribution)	Variant Visualizer (Genomic Variants)

InterViewer (Protein-Protein Interactions) unavailable	Gviewer (Genome Viewer) unavailable	Variant Visualizer (Damaging Variants) unavailble Variant Visualizer (Damaging Variants) unavailable
InterViewer (Protein-Protein Interactions)	GViewer (Genome Viewer)	Variant Visualizer (Damaging Variants)

Gene Annotator (Annotation Comparison) unavailable	OLGA (Gene List Generator) unavailable
Gene Annotator (Annotation Comparison)	OLGA (Gene List Generator)	Excel (Download)

MOET (Multi-Ontology Enrichement) unavailable	GOLF (Gene-Ortholog Location Finder) unavailable
MOET (Multi-Ontology Enrichement)	GOLF (Gene-Ortholog Location Finder)

Imported Disease Annotations - CTD

Imported Disease Annotations - MGI

Imported Annotations - KEGG (archival)

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Imported Disease Annotations - CTD

Imported Disease Annotations - MGI

Imported Annotations - KEGG (archival)