Litaf (lipopolysaccharide induced TNF factor) - Rat Genome Database

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Gene: Litaf (lipopolysaccharide induced TNF factor) Chinchilla lanigera
Analyze
Symbol: Litaf
Name: lipopolysaccharide induced TNF factor
RGD ID: 8920730
Description: ENCODES a protein that exhibits DNA-binding transcription activator activity, RNA polymerase II-specific (ortholog); identical protein binding (ortholog); RNA polymerase II cis-regulatory region sequence-specific DNA binding (ortholog); INVOLVED IN cellular response to lipopolysaccharide (ortholog); negative regulation of non-canonical NF-kappaB signal transduction (ortholog); positive regulation of canonical NF-kappaB signal transduction (ortholog); ASSOCIATED WITH basal cell carcinoma (ortholog); Charcot-Marie-Tooth disease (ortholog); Charcot-Marie-Tooth disease type 1 (ortholog); FOUND IN cytoplasmic side of early endosome membrane (ortholog); cytoplasmic side of late endosome membrane (ortholog); cytoplasmic side of lysosomal membrane (ortholog)
Type: protein-coding
RefSeq Status: MODEL
Previously known as: lipopolysaccharide-induced TNF factor; lipopolysaccharide-induced tumor necrosis factor-alpha factor; lipopolysaccharide-induced tumor necrosis factor-alpha factor homolog
RGD Orthologs
Human
Mouse
Rat
Bonobo
Dog
Squirrel
Pig
Green Monkey
Naked Mole-Rat
Alliance Orthologs
More Info more info ...
Latest Assembly: ChiLan1.0 - Chinchilla ChiLan1.0 Assembly
Position:
Chinchilla AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChiLan1.0 EnsemblNW_0049554427,077,823 - 7,083,437 (+)EnsemblChiLan1.0
ChiLan1.0NW_0049554427,054,418 - 7,084,973 (+)NCBIChiLan1.0ChiLan1.0
JBrowse: View Region in Genome Browser (JBrowse)
Model


Gene Ontology Annotations     Click to see Annotation Detail View

References

References - curated
# Reference Title Reference Citation
1. Transitive Annotation Pipeline Automated assignment of GO, PW and RDO ISO annotations across species
2. OMIM Disease Annotation Pipeline OMIM Disease Annotation Pipeline
Additional References at PubMed
PMID:30032202  


Genomics

Comparative Map Data
Litaf
(Chinchilla lanigera - long-tailed chinchilla)
Chinchilla AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChiLan1.0 EnsemblNW_0049554427,077,823 - 7,083,437 (+)EnsemblChiLan1.0
ChiLan1.0NW_0049554427,054,418 - 7,084,973 (+)NCBIChiLan1.0ChiLan1.0
LITAF
(Homo sapiens - human)
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh381611,547,722 - 11,640,317 (-)NCBIGRCh38GRCh38hg38GRCh38
GRCh38.p14 Ensembl1611,546,875 - 11,636,381 (-)EnsemblGRCh38hg38GRCh38
GRCh371611,641,578 - 11,681,322 (-)NCBIGRCh37GRCh37hg19GRCh37
Build 361611,549,357 - 11,587,730 (-)NCBINCBI36Build 36hg18NCBI36
Build 341611,549,957 - 11,587,730NCBI
Celera1611,813,516 - 11,854,903 (-)NCBICelera
Cytogenetic Map16p13.13NCBI
HuRef1611,558,982 - 11,598,664 (-)NCBIHuRef
CHM1_11611,641,642 - 11,681,379 (-)NCBICHM1_1
T2T-CHM13v2.01611,583,827 - 11,676,644 (-)NCBIT2T-CHM13v2.0
Litaf
(Mus musculus - house mouse)
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm391610,777,137 - 10,810,985 (-)NCBIGRCm39GRCm39mm39
GRCm39 Ensembl1610,777,139 - 10,884,021 (-)EnsemblGRCm39 Ensembl
GRCm381610,959,273 - 10,993,121 (-)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl1610,959,275 - 11,066,157 (-)EnsemblGRCm38mm10GRCm38
MGSCv371610,959,366 - 10,993,214 (-)NCBIGRCm37MGSCv37mm9NCBIm37
MGSCv361610,872,852 - 10,880,228 (-)NCBIMGSCv36mm8
Celera1611,588,622 - 11,622,564 (-)NCBICelera
Cytogenetic Map16A1NCBI
cM Map166.28NCBI
Litaf
(Rattus norvegicus - Norway rat)
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCr8105,163,258 - 5,199,930 (+)NCBIGRCr8
mRatBN7.2104,656,308 - 4,692,981 (+)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl104,625,552 - 4,692,763 (+)EnsemblmRatBN7.2 Ensembl
UTH_Rnor_SHR_Utx109,352,930 - 9,389,597 (+)NCBIRnor_SHRUTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.0108,874,034 - 8,910,699 (+)NCBIRnor_SHRSPUTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.0104,512,289 - 4,548,952 (+)NCBIRnor_WKYUTH_Rnor_WKY_Bbb_1.0
Rnor_6.0104,753,546 - 4,763,272 (+)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl104,719,713 - 4,763,510 (+)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.0103,580,243 - 3,589,969 (+)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.4104,614,177 - 4,623,903 (+)NCBIRGSC3.4RGSC_v3.4rn4RGSC3.4
RGSC_v3.1104,587,486 - 4,623,903 (+)NCBI
Celera103,704,946 - 3,714,672 (+)NCBICelera
Cytogenetic Map10q11NCBI
LITAF
(Pan paniscus - bonobo/pygmy chimpanzee)
Bonobo AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
NHGRI_mPanPan1-v21812,096,353 - 12,135,778 (-)NCBINHGRI_mPanPan1-v2
NHGRI_mPanPan11615,866,852 - 15,905,996 (-)NCBINHGRI_mPanPan1
Mhudiblu_PPA_v01610,488,738 - 10,527,843 (-)NCBIMhudiblu_PPA_v0Mhudiblu_PPA_v0panPan3
PanPan1.11611,714,325 - 11,753,902 (-)NCBIpanpan1.1PanPan1.1panPan2
PanPan1.1 Ensembl1611,714,325 - 11,750,521 (-)Ensemblpanpan1.1panPan2
LITAF
(Canis lupus familiaris - dog)
Dog AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
CanFam3.1631,229,153 - 31,259,670 (+)NCBICanFam3.1CanFam3.1canFam3CanFam3.1
Dog10K_Boxer_Tasha632,609,055 - 32,637,581 (+)NCBIDog10K_Boxer_Tasha
ROS_Cfam_1.0631,407,890 - 31,436,572 (+)NCBIROS_Cfam_1.0
ROS_Cfam_1.0 Ensembl631,407,820 - 31,438,525 (+)EnsemblROS_Cfam_1.0 Ensembl
UMICH_Zoey_3.1631,221,767 - 31,250,391 (+)NCBIUMICH_Zoey_3.1
UNSW_CanFamBas_1.0631,095,973 - 31,124,591 (+)NCBIUNSW_CanFamBas_1.0
UU_Cfam_GSD_1.0631,519,895 - 31,548,477 (+)NCBIUU_Cfam_GSD_1.0
Litaf
(Ictidomys tridecemlineatus - thirteen-lined ground squirrel)
Squirrel AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HiC_Itri_2NW_024409344111,563,943 - 111,567,545 (-)NCBIHiC_Itri_2
SpeTri2.0 EnsemblNW_0049365309,409,692 - 9,421,974 (-)EnsemblSpeTri2.0SpeTri2.0 Ensembl
SpeTri2.0NW_0049365309,409,378 - 9,421,974 (-)NCBISpeTri2.0SpeTri2.0SpeTri2.0
LITAF
(Sus scrofa - pig)
Pig AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Sscrofa11.1 Ensembl331,482,353 - 31,579,082 (+)EnsemblSscrofa11.1susScr11Sscrofa11.1
Sscrofa11.1331,482,605 - 31,576,211 (+)NCBISscrofa11.1Sscrofa11.1susScr11Sscrofa11.1
Sscrofa10.2332,319,463 - 32,363,158 (-)NCBISscrofa10.2Sscrofa10.2susScr3
LITAF
(Chlorocebus sabaeus - green monkey)
Green Monkey AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChlSab1.1511,023,158 - 11,099,133 (-)NCBIChlSab1.1ChlSab1.1chlSab2
ChlSab1.1 Ensembl511,021,717 - 11,059,149 (-)EnsemblChlSab1.1ChlSab1.1 EnsemblchlSab2
Vero_WHO_p1.0NW_02366606819,054,852 - 19,135,028 (+)NCBIVero_WHO_p1.0Vero_WHO_p1.0
Litaf
(Heterocephalus glaber - naked mole-rat)
Naked Mole-Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HetGla_female_1.0 EnsemblNW_0046247826,720,497 - 6,747,317 (+)EnsemblHetGla_female_1.0HetGla_female_1.0 EnsemblhetGla2
HetGla 1.0NW_0046247826,715,584 - 6,748,873 (+)NCBIHetGla_female_1.0HetGla 1.0hetGla2


Expression

RNA-SEQ Expression


Sequence


Ensembl Acc Id: ENSCLAT00000020757   ⟹   ENSCLAP00000020559
Type: CODING
Position:
Chinchilla AssemblyChrPosition (strand)Source
ChiLan1.0 EnsemblNW_0049554427,077,823 - 7,083,437 (+)Ensembl
RefSeq Acc Id: XM_005391161   ⟹   XP_005391218
Type: CODING
Position:
Chinchilla AssemblyChrPosition (strand)Source
ChiLan1.0NW_0049554427,054,418 - 7,084,973 (+)NCBI
Sequence:
RefSeq Acc Id: XM_013517903   ⟹   XP_013373357
Type: CODING
Position:
Chinchilla AssemblyChrPosition (strand)Source
ChiLan1.0NW_0049554427,054,420 - 7,084,973 (+)NCBI
Sequence:
Protein Sequences
Protein RefSeqs XP_005391218 (Get FASTA)   NCBI Sequence Viewer  
  XP_013373357 (Get FASTA)   NCBI Sequence Viewer  
Ensembl Protein ENSCLAP00000020559
  ENSCLAP00000020559.1
RefSeq Acc Id: XP_005391218   ⟸   XM_005391161
- Peptide Label: isoform X1
- Sequence:
RefSeq Acc Id: XP_013373357   ⟸   XM_013517903
- Peptide Label: isoform X2
- Sequence:
Ensembl Acc Id: ENSCLAP00000020559   ⟸   ENSCLAT00000020757
Protein Domains
LITAF


Additional Information

Database Acc Id Source(s)
Ensembl Genes ENSCLAG00000014080 Ensembl, ENTREZGENE, UniProtKB/TrEMBL
Ensembl Transcript ENSCLAT00000020757 ENTREZGENE
  ENSCLAT00000020757.1 UniProtKB/TrEMBL
InterPro LITAF UniProtKB/TrEMBL
  LITAF_fam UniProtKB/TrEMBL
NCBI Gene Litaf ENTREZGENE
PANTHER LIPOPOLYSACCHARIDE-INDUCED TUMOR NECROSIS FACTOR-ALPHA FACTOR UniProtKB/TrEMBL
  PTHR23292 UniProtKB/TrEMBL
Pfam zf-LITAF-like UniProtKB/TrEMBL
PROSITE LITAF UniProtKB/TrEMBL
SMART LITAF UniProtKB/TrEMBL
UniProt A0A8C2VTW2_CHILA UniProtKB/TrEMBL


Nomenclature History
Date Current Symbol Current Name Previous Symbol Previous Name Description Reference Status
2016-08-03 Litaf  lipopolysaccharide induced TNF factor    lipopolysaccharide-induced TNF factor  Symbol and/or name change 5135510 APPROVED