Tdrd5 (tudor domain containing 5) - Rat Genome Database

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Gene: Tdrd5 (tudor domain containing 5) Chinchilla lanigera
Analyze
Symbol: Tdrd5
Name: tudor domain containing 5
RGD ID: 8897861
Description: INVOLVED IN P granule organization (ortholog); siRNA-mediated retrotransposon silencing by heterochromatin formation (ortholog); spermatid development (ortholog); ASSOCIATED WITH 1q24 Deletion Syndrome (ortholog); autosomal recessive chronic granulomatous disease 2 (ortholog); gastrointestinal stromal tumor (ortholog); FOUND IN chromatoid body (ortholog); pi-body (ortholog); synapse (ortholog)
Type: protein-coding
RefSeq Status: MODEL
Previously known as: tudor domain-containing protein 5
RGD Orthologs
Human
Mouse
Rat
Bonobo
Dog
Squirrel
Pig
Green Monkey
Naked Mole-Rat
Alliance Genes
More Info more info ...
Latest Assembly: ChiLan1.0 - Chinchilla ChiLan1.0 Assembly
Position:
Chinchilla AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChiLan1.0 EnsemblNW_00495540618,895,011 - 18,962,333 (+)EnsemblChiLan1.0
ChiLan1.0NW_00495540618,895,010 - 18,961,200 (+)NCBIChiLan1.0ChiLan1.0
JBrowse: View Region in Genome Browser (JBrowse)
Model


Gene Ontology Annotations     Click to see Annotation Detail View

Biological Process

Cellular Component
chromatoid body  (ISO)
pi-body  (ISO)
synapse  (ISO)

References

References - curated
# Reference Title Reference Citation
1. Transitive Annotation Pipeline Automated assignment of GO, PW and RDO ISO annotations across species
Additional References at PubMed
PMID:22301074   PMID:30032202  


Genomics

Comparative Map Data
Tdrd5
(Chinchilla lanigera - long-tailed chinchilla)
Chinchilla AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChiLan1.0 EnsemblNW_00495540618,895,011 - 18,962,333 (+)EnsemblChiLan1.0
ChiLan1.0NW_00495540618,895,010 - 18,961,200 (+)NCBIChiLan1.0ChiLan1.0
TDRD5
(Homo sapiens - human)
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh381179,591,613 - 179,691,272 (+)NCBIGRCh38GRCh38hg38GRCh38
GRCh38.p14 Ensembl1179,591,613 - 179,691,272 (+)EnsemblGRCh38hg38GRCh38
GRCh371179,560,748 - 179,660,407 (+)NCBIGRCh37GRCh37hg19GRCh37
Build 361177,827,648 - 177,927,021 (+)NCBINCBI36Build 36hg18NCBI36
Build 341176,292,681 - 176,392,055NCBI
Celera1152,668,657 - 152,768,022 (+)NCBICelera
Cytogenetic Map1q25.2NCBI
HuRef1150,787,367 - 150,892,229 (+)NCBIHuRef
CHM1_11180,984,584 - 181,084,212 (+)NCBICHM1_1
T2T-CHM13v2.01178,946,579 - 179,047,028 (+)NCBIT2T-CHM13v2.0
Tdrd5
(Mus musculus - house mouse)
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm391156,082,866 - 156,131,874 (-)NCBIGRCm39GRCm39mm39
GRCm39 Ensembl1156,082,866 - 156,131,234 (-)EnsemblGRCm39 Ensembl
GRCm381156,255,296 - 156,304,304 (-)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl1156,255,296 - 156,303,664 (-)EnsemblGRCm38mm10GRCm38
MGSCv371158,185,426 - 158,233,479 (-)NCBIGRCm37MGSCv37mm9NCBIm37
MGSCv361158,091,972 - 158,140,386 (-)NCBIMGSCv36mm8
Celera1158,643,481 - 158,698,126 (-)NCBICelera
Cytogenetic Map1G3NCBI
cM Map167.71NCBI
Tdrd5
(Rattus norvegicus - Norway rat)
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCr81370,944,441 - 70,992,345 (-)NCBIGRCr8
mRatBN7.21368,394,180 - 68,447,745 (-)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl1368,394,061 - 68,441,319 (-)EnsemblmRatBN7.2 Ensembl
UTH_Rnor_SHR_Utx1370,973,408 - 71,020,409 (-)NCBIRnor_SHRUTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.01372,293,668 - 72,340,815 (-)NCBIRnor_SHRSPUTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.01369,555,150 - 69,602,299 (-)NCBIRnor_WKYUTH_Rnor_WKY_Bbb_1.0
Rnor_6.01373,872,637 - 73,922,640 (-)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl1373,872,621 - 73,921,969 (-)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.01378,797,043 - 78,846,216 (-)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.41371,241,498 - 71,288,876 (-)NCBIRGSC3.4RGSC_v3.4rn4RGSC3.4
RGSC_v3.11371,248,263 - 71,303,062 (-)NCBI
Celera1368,255,530 - 68,302,259 (-)NCBICelera
Cytogenetic Map13q22NCBI
TDRD5
(Pan paniscus - bonobo/pygmy chimpanzee)
Bonobo AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
NHGRI_mPanPan1-v2170,076,801 - 70,168,740 (-)NCBINHGRI_mPanPan1-v2
NHGRI_mPanPan1169,735,088 - 69,827,025 (-)NCBINHGRI_mPanPan1
Mhudiblu_PPA_v01155,080,083 - 155,171,734 (+)NCBIMhudiblu_PPA_v0Mhudiblu_PPA_v0panPan3
PanPan1.11158,761,004 - 158,852,660 (+)NCBIpanpan1.1PanPan1.1panPan2
PanPan1.1 Ensembl1158,761,013 - 158,852,660 (+)Ensemblpanpan1.1panPan2
TDRD5
(Canis lupus familiaris - dog)
Dog AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
CanFam3.1720,259,940 - 20,348,014 (-)NCBICanFam3.1CanFam3.1canFam3CanFam3.1
CanFam3.1 Ensembl720,261,630 - 20,348,650 (-)EnsemblCanFam3.1canFam3CanFam3.1
Dog10K_Boxer_Tasha719,785,974 - 19,872,623 (-)NCBIDog10K_Boxer_Tasha
ROS_Cfam_1.0719,997,378 - 20,084,156 (-)NCBIROS_Cfam_1.0
ROS_Cfam_1.0 Ensembl719,997,296 - 20,078,982 (-)EnsemblROS_Cfam_1.0 Ensembl
UMICH_Zoey_3.1719,906,289 - 19,993,027 (-)NCBIUMICH_Zoey_3.1
UNSW_CanFamBas_1.0720,012,629 - 20,099,376 (-)NCBIUNSW_CanFamBas_1.0
UU_Cfam_GSD_1.0720,148,162 - 20,234,920 (-)NCBIUU_Cfam_GSD_1.0
Tdrd5
(Ictidomys tridecemlineatus - thirteen-lined ground squirrel)
Squirrel AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HiC_Itri_2NW_02440934491,571,577 - 91,640,760 (-)NCBIHiC_Itri_2
SpeTri2.0 EnsemblNW_0049364819,418,641 - 9,485,386 (-)EnsemblSpeTri2.0SpeTri2.0 Ensembl
SpeTri2.0NW_0049364819,418,512 - 9,485,388 (-)NCBISpeTri2.0SpeTri2.0SpeTri2.0
TDRD5
(Sus scrofa - pig)
Pig AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Sscrofa11.1 Ensembl9121,211,960 - 121,333,220 (+)EnsemblSscrofa11.1susScr11Sscrofa11.1
Sscrofa11.19121,245,080 - 121,337,339 (+)NCBISscrofa11.1Sscrofa11.1susScr11Sscrofa11.1
Sscrofa10.29133,061,343 - 133,143,161 (+)NCBISscrofa10.2Sscrofa10.2susScr3
TDRD5
(Chlorocebus sabaeus - green monkey)
Green Monkey AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChlSab1.12549,676,952 - 49,771,381 (-)NCBIChlSab1.1ChlSab1.1chlSab2
ChlSab1.1 Ensembl2549,677,283 - 49,769,442 (-)EnsemblChlSab1.1ChlSab1.1 EnsemblchlSab2
Vero_WHO_p1.0NW_02366605551,101,482 - 51,195,941 (-)NCBIVero_WHO_p1.0Vero_WHO_p1.0
Tdrd5
(Heterocephalus glaber - naked mole-rat)
Naked Mole-Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HetGla 1.0NW_0046247712,711,791 - 2,818,031 (-)NCBIHetGla_female_1.0HetGla 1.0hetGla2


Expression


Sequence


RefSeq Acc Id: ENSCLAT00000019042   ⟹   ENSCLAP00000018857
Type: CODING
Position:
Chinchilla AssemblyChrPosition (strand)Source
ChiLan1.0 EnsemblNW_00495540618,895,011 - 18,962,333 (+)Ensembl
RefSeq Acc Id: XM_013521209   ⟹   XP_013376663
Type: CODING
Position:
Chinchilla AssemblyChrPosition (strand)Source
ChiLan1.0NW_00495540618,895,010 - 18,961,200 (+)NCBI
Sequence:
RefSeq Acc Id: XM_013521211   ⟹   XP_013376665
Type: CODING
Position:
Chinchilla AssemblyChrPosition (strand)Source
ChiLan1.0NW_00495540618,895,010 - 18,961,200 (+)NCBI
Sequence:
RefSeq Acc Id: XM_013521214   ⟹   XP_013376668
Type: CODING
Position:
Chinchilla AssemblyChrPosition (strand)Source
ChiLan1.0NW_00495540618,895,010 - 18,957,768 (+)NCBI
Sequence:
RefSeq Acc Id: XM_013521219   ⟹   XP_013376673
Type: CODING
Position:
Chinchilla AssemblyChrPosition (strand)Source
ChiLan1.0NW_00495540618,895,010 - 18,961,200 (+)NCBI
Sequence:
RefSeq Acc Id: XM_013521222   ⟹   XP_013376676
Type: CODING
Position:
Chinchilla AssemblyChrPosition (strand)Source
ChiLan1.0NW_00495540618,895,010 - 18,961,200 (+)NCBI
Sequence:
RefSeq Acc Id: XR_001236523
Type: NON-CODING
Position:
Chinchilla AssemblyChrPosition (strand)Source
ChiLan1.0NW_00495540618,895,010 - 18,953,298 (+)NCBI
Sequence:
RefSeq Acc Id: XP_013376663   ⟸   XM_013521209
- Peptide Label: isoform X1
- UniProtKB: A0A8C2YRY0 (UniProtKB/TrEMBL)
- Sequence:
RefSeq Acc Id: XP_013376665   ⟸   XM_013521211
- Peptide Label: isoform X2
- Sequence:
RefSeq Acc Id: XP_013376673   ⟸   XM_013521219
- Peptide Label: isoform X4
- Sequence:
RefSeq Acc Id: XP_013376676   ⟸   XM_013521222
- Peptide Label: isoform X5
- Sequence:
RefSeq Acc Id: XP_013376668   ⟸   XM_013521214
- Peptide Label: isoform X3
- Sequence:
RefSeq Acc Id: ENSCLAP00000018857   ⟸   ENSCLAT00000019042
Protein Domains
HTH OST-type   Tudor


Additional Information

Database Acc Id Source(s)
Ensembl Genes ENSCLAG00000012916 Ensembl, ENTREZGENE, UniProtKB/TrEMBL
Ensembl Transcript ENSCLAT00000019042 ENTREZGENE
  ENSCLAT00000019042.1 UniProtKB/TrEMBL
Gene3D-CATH 2.30.30.140 UniProtKB/TrEMBL
  2.40.50.90 UniProtKB/TrEMBL
  3.30.420.610 UniProtKB/TrEMBL
InterPro LOTUS-like UniProtKB/TrEMBL
  OST-HTH/LOTUS_dom UniProtKB/TrEMBL
  SNase_OB-fold_sf UniProtKB/TrEMBL
  TDRD5_LOTUS_2 UniProtKB/TrEMBL
  Tudor UniProtKB/TrEMBL
NCBI Gene Tdrd5 ENTREZGENE
PANTHER TUDOR DOMAIN CONTAINING PROTEIN UniProtKB/TrEMBL
  TUDOR DOMAIN-CONTAINING PROTEIN 5 UniProtKB/TrEMBL
Pfam OST-HTH UniProtKB/TrEMBL
  TUDOR UniProtKB/TrEMBL
PROSITE HTH_OST UniProtKB/TrEMBL
  TUDOR UniProtKB/TrEMBL
SMART TUDOR UniProtKB/TrEMBL
Superfamily-SCOP Tudor/PWWP/MBT UniProtKB/TrEMBL
UniProt A0A8C2YRY0 ENTREZGENE, UniProtKB/TrEMBL