TARDBP (TAR DNA binding protein) - Rat Genome Database

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Gene: TARDBP (TAR DNA binding protein) Canis lupus familiaris
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Symbol: TARDBP
Name: TAR DNA binding protein
RGD ID: 12255685
Description: ENCODES a protein that exhibits double-stranded DNA binding (ortholog); RNA binding (ortholog); INVOLVED IN gene expression (ortholog); negative regulation of gene expression (ortholog); positive regulation of insulin secretion (ortholog); ASSOCIATED WITH Alzheimer's disease (ortholog); amyotrophic lateral sclerosis (ortholog); amyotrophic lateral sclerosis type 1 (ortholog); FOUND IN cytoplasm (ortholog); interchromatin granule (ortholog); nuclear speck (ortholog); INTERACTS WITH masitinib
Type: protein-coding
RefSeq Status: MODEL
Also known as: TAR DNA-binding protein 43
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
CanFam3.1284,987,752 - 84,998,136 (-)NCBICanFam3.1CanFam3.1canFam3CanFam3.1
CanFam3.1 Ensembl284,989,952 - 84,998,593 (-)EnsemblCanFam3.1canFam3CanFam3.1
Dog10K_Boxer_Tasha281,515,040 - 81,527,435 (-)NCBI
ROS_Cfam_1.0285,647,107 - 85,659,313 (-)NCBI
UMICH_Zoey_3.1282,395,167 - 82,407,547 (-)NCBI
UNSW_CanFamBas_1.0283,396,611 - 83,408,986 (-)NCBI
UU_Cfam_GSD_1.0284,459,460 - 84,471,855 (-)NCBI
JBrowse: View Region in Genome Browser (JBrowse)
Model


Gene-Chemical Interaction Annotations     Click to see Annotation Detail View
masitinib  (EXP)

References

Genomics

Comparative Map Data
TARDBP
(Canis lupus familiaris - dog)
Dog AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
CanFam3.1284,987,752 - 84,998,136 (-)NCBICanFam3.1CanFam3.1canFam3CanFam3.1
CanFam3.1 Ensembl284,989,952 - 84,998,593 (-)EnsemblCanFam3.1canFam3CanFam3.1
Dog10K_Boxer_Tasha281,515,040 - 81,527,435 (-)NCBI
ROS_Cfam_1.0285,647,107 - 85,659,313 (-)NCBI
UMICH_Zoey_3.1282,395,167 - 82,407,547 (-)NCBI
UNSW_CanFamBas_1.0283,396,611 - 83,408,986 (-)NCBI
UU_Cfam_GSD_1.0284,459,460 - 84,471,855 (-)NCBI
TARDBP
(Homo sapiens - human)
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh38.p13 Ensembl111,012,344 - 11,030,528 (+)EnsemblGRCh38hg38GRCh38
GRCh38111,012,654 - 11,030,528 (+)NCBIGRCh38GRCh38hg38GRCh38
GRCh37111,072,711 - 11,085,549 (+)NCBIGRCh37GRCh37hg19GRCh37
Build 36110,995,266 - 11,008,136 (+)NCBINCBI36hg18NCBI36
Build 34111,006,944 - 11,019,814NCBI
Celera110,184,976 - 10,197,861 (+)NCBI
Cytogenetic Map1p36.22NCBI
HuRef110,224,341 - 10,237,229 (+)NCBIHuRef
CHM1_1111,060,321 - 11,073,209 (+)NCBICHM1_1
Tardbp
(Mus musculus - house mouse)
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm394148,696,839 - 148,711,672 (-)NCBIGRCm39mm39
GRCm39 Ensembl4148,696,839 - 148,711,476 (-)Ensembl
GRCm384148,612,382 - 148,627,084 (-)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl4148,612,382 - 148,627,019 (-)EnsemblGRCm38mm10GRCm38
MGSCv374147,986,491 - 148,001,105 (-)NCBIGRCm37mm9NCBIm37
MGSCv364147,454,416 - 147,470,796 (-)NCBImm8
Celera4150,873,662 - 150,888,313 (-)NCBICelera
Cytogenetic Map4E2NCBI
Tardbp
(Rattus norvegicus - Norway rat)
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
mRatBN7.25159,050,518 - 159,062,218 (-)NCBImRatBN7.2
mRatBN7.2 Ensembl5159,051,799 - 159,062,055 (-)Ensembl
Rnor_6.05165,432,089 - 165,442,232 (-)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl5165,432,095 - 165,442,048 (-)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.05169,088,684 - 169,099,216 (-)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.45165,698,665 - 165,709,531 (-)NCBIRGSC3.4rn4RGSC3.4
RGSC_v3.15165,708,851 - 165,719,708 (-)NCBI
Celera5157,327,910 - 157,337,955 (-)NCBICelera
Cytogenetic Map5q36NCBI
Tardbp
(Chinchilla lanigera - long-tailed chinchilla)
Chinchilla AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChiLan1.0 EnsemblNW_0049554862,656,121 - 2,674,807 (-)EnsemblChiLan1.0
ChiLan1.0NW_0049554862,656,121 - 2,674,808 (-)NCBIChiLan1.0ChiLan1.0
TARDBP
(Pan paniscus - bonobo/pygmy chimpanzee)
Bonobo AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
PanPan1.1110,996,006 - 11,008,732 (+)NCBIpanpan1.1PanPan1.1panPan2
PanPan1.1 Ensembl110,996,006 - 11,008,732 (+)Ensemblpanpan1.1panPan2
Mhudiblu_PPA_v019,775,084 - 9,786,710 (+)NCBIMhudiblu_PPA_v0panPan3
LOC101975729
(Ictidomys tridecemlineatus - thirteen-lined ground squirrel)
Squirrel AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HiC_Itri_2NW_02440505834,266,198 - 34,278,928 (+)NCBI
SpeTri2.0NW_00493647490,813 - 103,713 (+)NCBISpeTri2.0SpeTri2.0SpeTri2.0
TARDBP
(Sus scrofa - pig)
Pig AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Sscrofa11.1 Ensembl671,213,852 - 71,227,704 (+)EnsemblSscrofa11.1susScr11Sscrofa11.1
Sscrofa11.1671,213,584 - 71,227,707 (+)NCBISscrofa11.1Sscrofa11.1susScr11Sscrofa11.1
Sscrofa10.2665,135,826 - 65,147,430 (+)NCBISscrofa10.2Sscrofa10.2susScr3
LOC103225619
(Chlorocebus sabaeus - green monkey)
Green Monkey AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChlSab1.120120,753,764 - 120,765,259 (-)NCBIChlSab1.1chlSab2
Vero_WHO_p1.0NW_02366605424,661,891 - 24,675,297 (-)NCBIVero_WHO_p1.0
Tardbp
(Heterocephalus glaber - naked mole-rat)
Naked Mole-rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HetGla 1.0NW_0046248181,759,496 - 1,789,806 (-)NCBIHetGla_female_1.0hetGla2


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 5 5 22 6 6 6 6 6 12 8 10 6
Low
Below cutoff

Sequence

Nucleotide Sequences
RefSeq Transcripts XM_005618006 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_038464784 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_038471124 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_038471125 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_038532039 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_038532040 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_038596302 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_038596303 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_038660375 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_038660376 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XR_005319047 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XR_005319048 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XR_005322600 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XR_005322601 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XR_005356200 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XR_005356201 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XR_005390770 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XR_005390771 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XR_005423770 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XR_005423771 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XR_005423772 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XR_291728 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
GenBank Nucleotide AAEX04000002 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  JAAHUQ010000035 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  JAAQRD010000045 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  JAAUVH010000373 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  REHQ01000002 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles

Reference Sequences
RefSeq Acc Id: ENSCAFT00000026536   ⟹   ENSCAFP00000024643
RefSeq Status:
Type: CODING
Position:
Dog AssemblyChrPosition (strand)Source
CanFam3.1 Ensembl284,991,467 - 84,998,593 (-)Ensembl
RefSeq Acc Id: ENSCAFT00000090154   ⟹   ENSCAFP00000055066
RefSeq Status:
Type: CODING
Position:
Dog AssemblyChrPosition (strand)Source
CanFam3.1 Ensembl284,989,952 - 84,998,593 (-)Ensembl
RefSeq Acc Id: XM_005618006   ⟹   XP_005618063
RefSeq Status:
Type: CODING
Position:
Dog AssemblyChrPosition (strand)Source
CanFam3.1284,987,770 - 84,998,136 (-)NCBI
Dog10K_Boxer_Tasha281,519,375 - 81,527,435 (-)NCBI
Sequence:
RefSeq Acc Id: XM_038464784   ⟹   XP_038320712
RefSeq Status:
Type: CODING
Position:
Dog AssemblyChrPosition (strand)Source
Dog10K_Boxer_Tasha281,519,375 - 81,527,435 (-)NCBI
RefSeq Acc Id: XM_038471124   ⟹   XP_038327052
RefSeq Status:
Type: CODING
Position:
Dog AssemblyChrPosition (strand)Source
UMICH_Zoey_3.1282,399,501 - 82,407,547 (-)NCBI
RefSeq Acc Id: XM_038471125   ⟹   XP_038327053
RefSeq Status:
Type: CODING
Position:
Dog AssemblyChrPosition (strand)Source
UMICH_Zoey_3.1282,399,501 - 82,407,547 (-)NCBI
RefSeq Acc Id: XM_038532039   ⟹   XP_038387967
RefSeq Status:
Type: CODING
Position:
Dog AssemblyChrPosition (strand)Source
UU_Cfam_GSD_1.0284,463,800 - 84,471,855 (-)NCBI
RefSeq Acc Id: XM_038532040   ⟹   XP_038387968
RefSeq Status:
Type: CODING
Position:
Dog AssemblyChrPosition (strand)Source
UU_Cfam_GSD_1.0284,463,800 - 84,471,855 (-)NCBI
RefSeq Acc Id: XM_038596302   ⟹   XP_038452230
RefSeq Status:
Type: CODING
Position:
Dog AssemblyChrPosition (strand)Source
UNSW_CanFamBas_1.0283,400,948 - 83,408,986 (-)NCBI
RefSeq Acc Id: XM_038596303   ⟹   XP_038452231
RefSeq Status:
Type: CODING
Position:
Dog AssemblyChrPosition (strand)Source
UNSW_CanFamBas_1.0283,400,948 - 83,408,986 (-)NCBI
RefSeq Acc Id: XM_038660375   ⟹   XP_038516303
RefSeq Status:
Type: CODING
Position:
Dog AssemblyChrPosition (strand)Source
ROS_Cfam_1.0285,651,443 - 85,659,313 (-)NCBI
RefSeq Acc Id: XM_038660376   ⟹   XP_038516304
RefSeq Status:
Type: CODING
Position:
Dog AssemblyChrPosition (strand)Source
ROS_Cfam_1.0285,651,443 - 85,659,313 (-)NCBI
RefSeq Acc Id: XR_005319047
RefSeq Status:
Type: NON-CODING
Position:
Dog AssemblyChrPosition (strand)Source
Dog10K_Boxer_Tasha281,515,040 - 81,527,435 (-)NCBI
RefSeq Acc Id: XR_005319048
RefSeq Status:
Type: NON-CODING
Position:
Dog AssemblyChrPosition (strand)Source
Dog10K_Boxer_Tasha281,515,099 - 81,527,435 (-)NCBI
RefSeq Acc Id: XR_005322600
RefSeq Status:
Type: NON-CODING
Position:
Dog AssemblyChrPosition (strand)Source
UMICH_Zoey_3.1282,395,167 - 82,407,547 (-)NCBI
RefSeq Acc Id: XR_005322601
RefSeq Status:
Type: NON-CODING
Position:
Dog AssemblyChrPosition (strand)Source
UMICH_Zoey_3.1282,395,218 - 82,407,547 (-)NCBI
RefSeq Acc Id: XR_005356200
RefSeq Status:
Type: NON-CODING
Position:
Dog AssemblyChrPosition (strand)Source
UU_Cfam_GSD_1.0284,459,460 - 84,471,855 (-)NCBI
RefSeq Acc Id: XR_005356201
RefSeq Status:
Type: NON-CODING
Position:
Dog AssemblyChrPosition (strand)Source
UU_Cfam_GSD_1.0284,459,519 - 84,471,855 (-)NCBI
RefSeq Acc Id: XR_005390770
RefSeq Status:
Type: NON-CODING
Position:
Dog AssemblyChrPosition (strand)Source
UNSW_CanFamBas_1.0283,396,611 - 83,408,986 (-)NCBI
RefSeq Acc Id: XR_005390771
RefSeq Status:
Type: NON-CODING
Position:
Dog AssemblyChrPosition (strand)Source
UNSW_CanFamBas_1.0283,396,670 - 83,408,986 (-)NCBI
RefSeq Acc Id: XR_005423770
RefSeq Status:
Type: NON-CODING
Position:
Dog AssemblyChrPosition (strand)Source
ROS_Cfam_1.0285,647,126 - 85,659,313 (-)NCBI
RefSeq Acc Id: XR_005423771
RefSeq Status:
Type: NON-CODING
Position:
Dog AssemblyChrPosition (strand)Source
ROS_Cfam_1.0285,647,107 - 85,659,313 (-)NCBI
RefSeq Acc Id: XR_005423772
RefSeq Status:
Type: NON-CODING
Position:
Dog AssemblyChrPosition (strand)Source
ROS_Cfam_1.0285,647,166 - 85,659,313 (-)NCBI
RefSeq Acc Id: XR_291728
RefSeq Status:
Type: NON-CODING
Position:
Dog AssemblyChrPosition (strand)Source
CanFam3.1284,987,752 - 84,998,136 (-)NCBI
Sequence:
Reference Sequences
RefSeq Acc Id: XP_005618063   ⟸   XM_005618006
- Peptide Label: isoform X1
- UniProtKB: E2QS43 (UniProtKB/TrEMBL)
- Sequence:
RefSeq Acc Id: ENSCAFP00000055066   ⟸   ENSCAFT00000090154
RefSeq Acc Id: ENSCAFP00000024643   ⟸   ENSCAFT00000026536
RefSeq Acc Id: XP_038327053   ⟸   XM_038471125
- Peptide Label: isoform X2
RefSeq Acc Id: XP_038327052   ⟸   XM_038471124
- Peptide Label: isoform X1
RefSeq Acc Id: XP_038452231   ⟸   XM_038596303
- Peptide Label: isoform X2
RefSeq Acc Id: XP_038452230   ⟸   XM_038596302
- Peptide Label: isoform X1
RefSeq Acc Id: XP_038516304   ⟸   XM_038660376
- Peptide Label: isoform X2
RefSeq Acc Id: XP_038516303   ⟸   XM_038660375
- Peptide Label: isoform X1
RefSeq Acc Id: XP_038320712   ⟸   XM_038464784
- Peptide Label: isoform X2
RefSeq Acc Id: XP_038387968   ⟸   XM_038532040
- Peptide Label: isoform X2
RefSeq Acc Id: XP_038387967   ⟸   XM_038532039
- Peptide Label: isoform X1

Promoters
RGD ID:13682658
Promoter ID:EPDNEW_C726
Type:multiple initiation site
Name:TARDBP_1
Description:TAR DNA binding protein
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
CanFam3.1284,998,114 - 84,998,174EPDNEW

Additional Information

Database Acc Id Source(s)
Ensembl Genes ENSCAFG00000016759 Ensembl
NCBI Gene TARDBP ENTREZGENE
UniProt E2QS43 ENTREZGENE
VGNC ID VGNC:47109 ENTREZGENE