Tut7 (terminal uridylyl transferase 7) - Rat Genome Database

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Gene: Tut7 (terminal uridylyl transferase 7) Rattus norvegicus
Analyze
Symbol: Tut7
Name: terminal uridylyl transferase 7
RGD ID: 1586015
Description: Predicted to have RNA uridylyltransferase activity and miRNA binding activity. Predicted to be involved in RNA metabolic process; negative regulation of transposition, RNA-mediated; and oocyte maturation. Predicted to localize to cytosol and nucleoplasm. Orthologous to human TUT7 (terminal uridylyl transferase 7); PARTICIPATES IN microRNA pathway; INTERACTS WITH 2,3,7,8-tetrachlorodibenzodioxine; bisphenol A; flutamide.
Type: protein-coding
RefSeq Status: MODEL
Also known as: LOC501515; similar to Zinc finger CCHC domain-containing protein 6; terminal uridylyltransferase 7; Zcchc6; zinc finger CCHC-type containing 6; zinc finger, CCHC domain containing 6
RGD Orthologs
Human
Mouse
Chinchilla
Bonobo
Dog
Squirrel
Pig
Green Monkey
Naked Mole-Rat
Alliance Genes
More Info more info ...
Latest Assembly: Rnor_6.0 - RGSC Genome Assembly v6.0
Position:
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
mRatBN7.2174,849,287 - 4,903,542 (+)NCBI
Rnor_6.0 Ensembl175,225,835 - 5,271,794 (+)EnsemblRnor6.0rn6Rnor6.0
Rnor_6.0175,225,854 - 5,279,674 (+)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_5.0177,451,199 - 7,505,016 (+)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.41710,752,875 - 10,806,477 (+)NCBIRGSC3.4rn4RGSC3.4
Celera174,970,855 - 5,024,770 (+)NCBICelera
Cytogenetic Map17p14NCBI
JBrowse: View Region in Genome Browser (JBrowse)
Model


Gene Ontology Annotations     Click to see Annotation Detail View

Cellular Component
cellular_component  (ND)
cytoplasm  (ISO)
cytosol  (IEA,ISO)
nucleoplasm  (IEA,ISO)

Molecular Function

Molecular Pathway Annotations     Click to see Annotation Detail View
References

Additional References at PubMed
PMID:17353264   PMID:18172165   PMID:22658674   PMID:22681889   PMID:25979828   PMID:28671666   PMID:28792939   PMID:30122351  


Genomics

Comparative Map Data
Tut7
(Rattus norvegicus - Norway rat)
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
mRatBN7.2174,849,287 - 4,903,542 (+)NCBI
Rnor_6.0 Ensembl175,225,835 - 5,271,794 (+)EnsemblRnor6.0rn6Rnor6.0
Rnor_6.0175,225,854 - 5,279,674 (+)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_5.0177,451,199 - 7,505,016 (+)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.41710,752,875 - 10,806,477 (+)NCBIRGSC3.4rn4RGSC3.4
Celera174,970,855 - 5,024,770 (+)NCBICelera
Cytogenetic Map17p14NCBI
TUT7
(Homo sapiens - human)
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh38.p13 Ensembl986,287,733 - 86,354,454 (-)EnsemblGRCh38hg38GRCh38
GRCh38986,287,733 - 86,354,497 (-)NCBIGRCh38GRCh38hg38GRCh38
GRCh37988,902,648 - 88,969,325 (-)NCBIGRCh37GRCh37hg19GRCh37
Build 36988,092,468 - 88,159,189 (-)NCBINCBI36hg18NCBI36
Build 34986,132,203 - 86,198,923NCBI
Celera959,472,766 - 59,539,516 (-)NCBI
Cytogenetic Map9q21.33NCBI
HuRef958,725,479 - 58,792,201 (-)NCBIHuRef
CHM1_1989,049,089 - 89,115,852 (-)NCBICHM1_1
Tut7
(Mus musculus - house mouse)
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm391359,919,690 - 59,971,060 (-)NCBIGRCm39mm39
GRCm39 Ensembl1359,919,375 - 59,970,961 (-)Ensembl
GRCm381359,771,876 - 59,823,169 (-)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl1359,771,561 - 59,823,147 (-)EnsemblGRCm38mm10GRCm38
MGSCv371359,873,240 - 59,924,508 (-)NCBIGRCm37mm9NCBIm37
MGSCv361359,781,502 - 59,832,724 (-)NCBImm8
Celera1360,831,422 - 60,882,680 (-)NCBICelera
Cytogenetic Map13B2NCBI
Tut7
(Chinchilla lanigera - long-tailed chinchilla)
Chinchilla AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChiLan1.0 EnsemblNW_0049554321,268,103 - 1,329,436 (+)EnsemblChiLan1.0
ChiLan1.0NW_0049554321,268,217 - 1,330,385 (+)NCBIChiLan1.0ChiLan1.0
TUT7
(Pan paniscus - bonobo/pygmy chimpanzee)
Bonobo AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
PanPan1.1985,489,974 - 85,554,745 (-)NCBIpanpan1.1PanPan1.1panPan2
PanPan1.1 Ensembl985,486,521 - 85,554,745 (-)Ensemblpanpan1.1panPan2
Mhudiblu_PPA_v0957,433,583 - 57,498,675 (-)NCBIMhudiblu_PPA_v0panPan3
TUT7
(Canis lupus familiaris - dog)
Dog AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
CanFam3.1173,400,648 - 73,464,935 (+)NCBICanFam3.1CanFam3.1canFam3CanFam3.1
CanFam3.1 Ensembl173,401,421 - 73,475,493 (+)EnsemblCanFam3.1canFam3CanFam3.1
Dog10K_Boxer_Tasha174,162,268 - 74,226,563 (+)NCBI
ROS_Cfam_1.0173,707,237 - 73,771,495 (+)NCBI
UMICH_Zoey_3.1173,515,084 - 73,579,269 (+)NCBI
UNSW_CanFamBas_1.0173,281,944 - 73,345,972 (+)NCBI
UU_Cfam_GSD_1.0173,987,748 - 74,051,975 (+)NCBI
Tut7
(Ictidomys tridecemlineatus - thirteen-lined ground squirrel)
Squirrel AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HiC_Itri_2NW_024404947119,984,394 - 120,043,816 (+)NCBI
SpeTri2.0NW_0049366801,693,815 - 1,753,641 (-)NCBISpeTri2.0SpeTri2.0SpeTri2.0
TUT7
(Sus scrofa - pig)
Pig AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Sscrofa11.1 Ensembl1028,995,565 - 29,061,176 (+)EnsemblSscrofa11.1susScr11Sscrofa11.1
Sscrofa11.11028,995,564 - 29,061,179 (+)NCBISscrofa11.1Sscrofa11.1susScr11Sscrofa11.1
Sscrofa10.21033,038,194 - 33,103,962 (+)NCBISscrofa10.2Sscrofa10.2susScr3
TUT7
(Chlorocebus sabaeus - African green monkey)
Vervet AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChlSab1.11296,920,632 - 96,987,114 (-)NCBI
ChlSab1.1 Ensembl1296,920,021 - 96,986,165 (-)Ensembl
Tut7
(Heterocephalus glaber - naked mole-rat)
Molerat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HetGla 1.0NW_00462480911,030,422 - 11,094,754 (+)NCBI

Position Markers
RH127389  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.2174,902,707 - 4,902,887 (+)MAPPER
Rnor_6.0175,279,144 - 5,279,323NCBIRnor6.0
Rnor_5.0177,504,486 - 7,504,665UniSTSRnor5.0
RGSC_v3.41710,806,383 - 10,806,562UniSTSRGSC3.4
Celera175,024,240 - 5,024,419UniSTS
RH 3.4 Map1772.8UniSTS
Cytogenetic Map17p14UniSTS


QTLs in Region (Rnor_6.0)
The following QTLs overlap with this region.    Full Report CSV TAB Printer Gviewer
RGD IDSymbolNameLODP ValueTraitSub TraitChrStartStopSpecies
9590316Scort21Serum corticosterone level QTL 214.750.001blood corticosterone amount (VT:0005345)plasma corticosterone level (CMO:0001173)17124787908Rat
10401807Kidm52Kidney mass QTL 52kidney mass (VT:0002707)both kidneys wet weight (CMO:0000085)17132230361Rat
70184BpQTLcluster14Blood pressure QTL cluster 143.38arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)17133303755Rat
631207Niddm41Non-insulin dependent diabetes mellitus QTL 41blood glucose amount (VT:0000188)plasma glucose level (CMO:0000042)17138243814Rat
1354658Spl8Serum phospholipid level QTL 83.8blood VLDL phospholipid amount (VT:0010507)blood very low density lipoprotein phospholipid level (CMO:0001571)17163676140Rat
1354662Rf49Renal function QTL 492.9blood creatinine amount (VT:0005328)plasma creatinine level (CMO:0000537)17173413148Rat
1354581Bp247Blood pressure QTL 2474.5arterial blood pressure trait (VT:2000000)pulse pressure (CMO:0000292)17173413148Rat
1641902Colcr7Colorectal carcinoma resistance QTL 73.350.0044intestine integrity trait (VT:0010554)benign colorectal tumor surface area measurement (CMO:0001799)1751977023422380Rat
1300123Bp194Blood pressure QTL 1942.82arterial blood pressure trait (VT:2000000)mean arterial blood pressure (CMO:0000009)1751977036283402Rat
2324619Coatc4Coat color QTL 40.001coat/hair pigmentation trait (VT:0010463)pigmented coat/hair area to total coat/hair area ratio (CMO:0001810)17333697224030841Rat
2324619Coatc4Coat color QTL 40.001coat/hair pigmentation trait (VT:0010463)pigmented dorsal coat/hair area to total dorsal coat/hair area ratio (CMO:0001811)17333697224030841Rat
1354613Kidm14Kidney mass QTL 146.2kidney mass (VT:0002707)left kidney wet weight (CMO:0000083)17333697237790462Rat
1354596Bw32Body weight QTL 324.5body mass (VT:0001259)body weight (CMO:0000012)17333697263676140Rat
1354638Insul1Insulin level QTL 14.8blood insulin amount (VT:0001560)plasma insulin level (CMO:0000342)17333697273413148Rat
1354651Lmblg2Limb length QTL 26tibia length (VT:0004357)tibia length (CMO:0000450)17333697273413148Rat
1354630Cm34Cardiac mass QTL 348.7heart left ventricle mass (VT:0007031)heart left ventricle wet weight (CMO:0000071)17333697273413148Rat
631499Stl1Serum triglyceride level QTL 13.6blood triglyceride amount (VT:0002644)blood triglyceride level (CMO:0000118)17341403928073589Rat
2293648Bmd31Bone mineral density QTL 314.50.0001femur size trait (VT:1000369)femoral neck cortical cross-sectional area (CMO:0001702)17471606727691136Rat
2293664Bmd28Bone mineral density QTL 285.10.0001femur mineral mass (VT:0010011)trabecular volumetric bone mineral density (CMO:0001729)17471606727691136Rat
2303627Vencon8Ventilatory control QTL 80.001respiration trait (VT:0001943)tidal volume (CMO:0000222)17519104750191047Rat
10054088Scort28Serum corticosterone level QTL 282.040.0102blood corticosterone amount (VT:0005345)plasma corticosterone level (CMO:0001173)17519104750191047Rat

miRNA Target Status

Predicted Target Of
Summary Value
Count of predictions:109
Count of miRNA genes:92
Interacting mature miRNAs:98
Transcripts:ENSRNOT00000022373
Prediction methods:Microtar, Miranda, Rnahybrid, Targetscan
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 3 40 57 41 19 41 8 9 74 35 37 11 8
Low 3 2 4
Below cutoff

Sequence

Nucleotide Sequences
RefSeq Transcripts XM_006222320 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_006222321 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_006222322 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_006253531 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_006253532 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_006253533 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_008771464 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_008771465 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_008771466 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_008773922 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_008773923 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_008773924 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_017587675 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_017600680 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_039096239 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_039096240 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_039096241 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_039096242 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_039096243 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XR_005495448 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
GenBank Nucleotide CH474032 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  JACYVU010000284 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles

Reference Sequences
RefSeq Acc Id: ENSRNOT00000022373   ⟹   ENSRNOP00000022373
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
Rnor_6.0 Ensembl175,225,835 - 5,271,794 (+)Ensembl
RefSeq Acc Id: XM_006222320   ⟹   XP_006222382
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
Celera174,971,067 - 5,016,669 (+)NCBI
Sequence:
RefSeq Acc Id: XM_006222321   ⟹   XP_006222383
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
Celera174,970,870 - 5,016,669 (+)NCBI
Sequence:
RefSeq Acc Id: XM_006222322   ⟹   XP_006222384
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
Celera174,970,855 - 5,016,669 (+)NCBI
Sequence:
RefSeq Acc Id: XM_006253531   ⟹   XP_006253593
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2174,849,417 - 4,895,137 (+)NCBI
Rnor_6.0175,226,066 - 5,271,573 (+)NCBI
Rnor_5.0177,451,199 - 7,505,016 (+)NCBI
Sequence:
RefSeq Acc Id: XM_006253532   ⟹   XP_006253594
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2174,849,395 - 4,895,137 (+)NCBI
Rnor_6.0175,225,869 - 5,271,573 (+)NCBI
Rnor_5.0177,451,199 - 7,505,016 (+)NCBI
Sequence:
RefSeq Acc Id: XM_006253533   ⟹   XP_006253595
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2174,849,287 - 4,895,137 (+)NCBI
Rnor_6.0175,225,854 - 5,271,573 (+)NCBI
Rnor_5.0177,451,199 - 7,505,016 (+)NCBI
Sequence:
RefSeq Acc Id: XM_008771464   ⟹   XP_008769686
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2174,849,395 - 4,903,542 (+)NCBI
Rnor_6.0175,225,869 - 5,279,674 (+)NCBI
Sequence:
RefSeq Acc Id: XM_008771465   ⟹   XP_008769687
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2174,849,395 - 4,903,542 (+)NCBI
Rnor_6.0175,225,870 - 5,279,674 (+)NCBI
Sequence:
RefSeq Acc Id: XM_008771466   ⟹   XP_008769688
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2174,849,395 - 4,903,542 (+)NCBI
Rnor_6.0175,225,870 - 5,279,674 (+)NCBI
Sequence:
RefSeq Acc Id: XM_008773922   ⟹   XP_008772144
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
Celera174,970,870 - 5,024,770 (+)NCBI
Sequence:
RefSeq Acc Id: XM_008773923   ⟹   XP_008772145
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
Celera174,970,871 - 5,024,770 (+)NCBI
Sequence:
RefSeq Acc Id: XM_008773924   ⟹   XP_008772146
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
Celera174,970,870 - 5,024,770 (+)NCBI
Sequence:
RefSeq Acc Id: XM_017587675   ⟹   XP_017443164
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
Celera174,970,870 - 5,016,791 (+)NCBI
Sequence:
RefSeq Acc Id: XM_017600680   ⟹   XP_017456169
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
Rnor_6.0175,225,869 - 5,271,695 (+)NCBI
Sequence:
RefSeq Acc Id: XM_039096239   ⟹   XP_038952167
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2174,849,892 - 4,895,137 (+)NCBI
RefSeq Acc Id: XM_039096240   ⟹   XP_038952168
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2174,849,395 - 4,895,137 (+)NCBI
RefSeq Acc Id: XM_039096241   ⟹   XP_038952169
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2174,849,395 - 4,895,137 (+)NCBI
RefSeq Acc Id: XM_039096242   ⟹   XP_038952170
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2174,849,395 - 4,903,542 (+)NCBI
RefSeq Acc Id: XM_039096243   ⟹   XP_038952171
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2174,849,395 - 4,891,996 (+)NCBI
RefSeq Acc Id: XR_005495448
RefSeq Status:
Type: NON-CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2174,849,395 - 4,887,424 (+)NCBI
Reference Sequences
RefSeq Acc Id: XP_006222384   ⟸   XM_006222322
- Peptide Label: isoform X1
- Sequence:
RefSeq Acc Id: XP_006222383   ⟸   XM_006222321
- Peptide Label: isoform X1
- Sequence:
RefSeq Acc Id: XP_006222382   ⟸   XM_006222320
- Peptide Label: isoform X1
- Sequence:
RefSeq Acc Id: XP_006253595   ⟸   XM_006253533
- Peptide Label: isoform X1
- Sequence:
RefSeq Acc Id: XP_006253594   ⟸   XM_006253532
- Peptide Label: isoform X1
- Sequence:
RefSeq Acc Id: XP_006253593   ⟸   XM_006253531
- Peptide Label: isoform X1
- Sequence:
RefSeq Acc Id: XP_008772144   ⟸   XM_008773922
- Peptide Label: isoform X2
- Sequence:
RefSeq Acc Id: XP_008772146   ⟸   XM_008773924
- Peptide Label: isoform X4
- Sequence:
RefSeq Acc Id: XP_008772145   ⟸   XM_008773923
- Peptide Label: isoform X3
- Sequence:
RefSeq Acc Id: XP_008769686   ⟸   XM_008771464
- Peptide Label: isoform X2
- Sequence:
RefSeq Acc Id: XP_008769688   ⟸   XM_008771466
- Peptide Label: isoform X7
- UniProtKB: D3ZKR9 (UniProtKB/TrEMBL)
- Sequence:
RefSeq Acc Id: XP_008769687   ⟸   XM_008771465
- Peptide Label: isoform X5
- Sequence:
RefSeq Acc Id: XP_017443164   ⟸   XM_017587675
- Peptide Label: isoform X4
- Sequence:
RefSeq Acc Id: XP_017456169   ⟸   XM_017600680
- Peptide Label: isoform X4
- Sequence:
RefSeq Acc Id: ENSRNOP00000022373   ⟸   ENSRNOT00000022373
RefSeq Acc Id: XP_038952170   ⟸   XM_039096242
- Peptide Label: isoform X6
RefSeq Acc Id: XP_038952168   ⟸   XM_039096240
- Peptide Label: isoform X3
RefSeq Acc Id: XP_038952169   ⟸   XM_039096241
- Peptide Label: isoform X4
RefSeq Acc Id: XP_038952171   ⟸   XM_039096243
- Peptide Label: isoform X8
RefSeq Acc Id: XP_038952167   ⟸   XM_039096239
- Peptide Label: isoform X1
Protein Domains
CCHC-type

Transcriptome

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

Promoters
RGD ID:13700274
Promoter ID:EPDNEW_R10795
Type:initiation region
Name:Zcchc6_1
Description:zinc finger CCHC-type containing 6
SO ACC ID:SO:0000170
Source:EPDNEW (Eukaryotic Promoter Database, http://epd.vital-it.ch/)
Experiment Methods:Single-end sequencing.
Position:
Rat AssemblyChrPosition (strand)Source
Rnor_6.0175,225,925 - 5,225,985EPDNEW

Strain Variation

Strain Sequence Variants (Rnor 6.0)
ACI/EurMcwi (MCW)
Visual CSV TAB Printer
Sequenced By: Medical College of Wisconsin (Dr. Howard Jacob)
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA v0.7.7 and GATK v3.2-2
Breeder: Medical College of Wisconsin
Description: Provided by the Medical College of Wisconsin (Dr. Howard Jacob)
ACI/EurMcwi (RGD)
Visual CSV TAB Printer
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
ACI/N (MCW)
Visual CSV TAB Printer
Sequenced By: Royal Netherland Academy of Arts and Sciences (Dr. Edwin Cuppen)
Max Delbruck Center for Molecular Medicine (Dr. Norbert Huebner)
Platform: SOLiD 4 and 5500
Secondary Analysis: liftOver (Batch Coordinate Conversion)--genome.ucsc.edu
Breeder: National Institutes of Health
Description: Founder strain for the heterogeneous stock (HS) rat population; SNPs from the RGSC 3.4 assembly were "lifted over" from RGSC 3.4 to Rnor 5.0 and from Rnor 5.0 to Rnor 6.0; Provided by Medical College of Wisconsin
BBDP/Wor (RGD)
Visual CSV TAB Printer
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
BN/SsN (MCW)
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Sequenced By: Royal Netherland Academy of Arts and Sciences (Dr. Edwin Cuppen)
Max Delbruck Center for Molecular Medicine (Dr. Norbert Huebner)
Platform: SOLiD 4 and 5500
Secondary Analysis: liftOver (Batch Coordinate Conversion)--genome.ucsc.edu
Breeder: National Institutes of Health
Description: Founder strain for the heterogeneous stock (HS) rat population; SNPs from the RGSC 3.4 assembly were "lifted over" from RGSC 3.4 to Rnor 5.0 and from Rnor 5.0 to Rnor 6.0; Provided by Medical College of Wisconsin
Buf/N (MCW)
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Sequenced By: Royal Netherland Academy of Arts and Sciences (Dr. Edwin Cuppen)
Max Delbruck Center for Molecular Medicine (Dr. Norbert Huebner)
Platform: SOLiD 4 and 5500
Secondary Analysis: liftOver (Batch Coordinate Conversion)--genome.ucsc.edu
Breeder: National Institutes of Health
Description: Founder strain for the heterogeneous stock (HS) rat population; SNPs from the RGSC 3.4 assembly were "lifted over" from RGSC 3.4 to Rnor 5.0 and from Rnor 5.0 to Rnor 6.0; Provided by Medical College of Wisconsin
COP/CrCrl (MCW & UW)
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Sequenced By: Medical College of Wisconsin (Dr. Howard Jacob)
University of Wisconsin (Dr. James Shull)
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA v0.7.7 and GATK v3.2-2
Breeder: Charles River Laboratories
Description: Provided by the Medical College of Wisconsin (Dr. Howard Jacob) and UW Madison (Dr. James Shull)
F344/NCrl (RGD)
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Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
F344/NRrrc (MCW)
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Sequenced By: Royal Netherland Academy of Arts and Sciences (Dr. Edwin Cuppen)
Max Delbruck Center for Molecular Medicine (Dr. Norbert Huebner)
Platform: SOLiD 4 and 5500
Secondary Analysis: liftOver (Batch Coordinate Conversion)--genome.ucsc.edu
Breeder: National Institutes of Health
Description: Founder strain for the heterogeneous stock (HS) rat population; SNPs from the RGSC 3.4 assembly were "lifted over" from RGSC 3.4 to Rnor 5.0 and from Rnor 5.0 to Rnor 6.0; Provided by Medical College of Wisconsin
FHH/EurMcwi (MCW)
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Sequenced By: Medical College of Wisconsin (Dr. Howard Jacob)
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA v0.7.7 and GATK v3.2-2
Breeder: Medical College of Wisconsin
Description: Provided by the Medical College of Wisconsin (Dr. Howard Jacob)
FHH/EurMcwi (RGD)
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Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
FHL/EurMcwi (MCW)
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Sequenced By: Medical College of Wisconsin (Dr. Howard Jacob)
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA v0.7.7 and GATK v3.2-2
Breeder: Medical College of Wisconsin
Description: Provided by the Medical College of Wisconsin (Dr. Howard Jacob)
FHL/EurMcwi (RGD)
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Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
GH/OmrMcwi (MCW)
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Sequenced By: Medical College of Wisconsin (Dr. Howard Jacob)
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA v0.7.7 and GATK v3.2-2
Breeder: Medical College of Wisconsin
Description: Provided by the Medical College of Wisconsin (Dr. Howard Jacob)
GK/Ox (RGD)
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Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
LE/Stm (RGD)
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Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
LEW/Crl (RGD)
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Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
LEW/NCrlBR (RGD)
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Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
LH/MavRrrc (RGD)
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Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
LL/MavRrrc (RGD)
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Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
LN/MavRrrc (RGD)
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Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
M520/N (MCW)
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Sequenced By: Royal Netherland Academy of Arts and Sciences (Dr. Edwin Cuppen)
Max Delbruck Center for Molecular Medicine (Dr. Norbert Huebner)
Platform: SOLiD 4 and 5500
Secondary Analysis: liftOver (Batch Coordinate Conversion)--genome.ucsc.edu
Breeder: National Institutes of Health
Description: Founder strain for the heterogeneous stock (HS) rat population; SNPs from the RGSC 3.4 assembly were "lifted over" from RGSC 3.4 to Rnor 5.0 and from Rnor 5.0 to Rnor 6.0; Provided by Medical College of Wisconsin
MHS/Gib (RGD)
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Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
MNS/Gib (RGD)
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Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
MR/N (MCW)
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Sequenced By: Royal Netherland Academy of Arts and Sciences (Dr. Edwin Cuppen)
Max Delbruck Center for Molecular Medicine (Dr. Norbert Huebner)
Platform: SOLiD 4 and 5500
Secondary Analysis: liftOver (Batch Coordinate Conversion)--genome.ucsc.edu
Breeder: National Institutes of Health
Description: Founder strain for the heterogeneous stock (HS) rat population; SNPs from the RGSC 3.4 assembly were "lifted over" from RGSC 3.4 to Rnor 5.0 and from Rnor 5.0 to Rnor 6.0; Provided by Medical College of Wisconsin
SBH/Ygl (MCW)
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Sequenced By: Medical College of Wisconsin (Dr. Howard Jacob)
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA v0.7.7 and GATK v3.2-2
Breeder: Medical College of Wisconsin
Description: SBH/Ygl sequenced by MCW
SBH/Ygl (RGD)
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Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
SBN/Ygl (MCW)
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Sequenced By: Medical College of Wisconsin (Dr. Howard Jacob)
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA v0.7.7 and GATK v3.2-2
Breeder: Medical College of Wisconsin
Description: SBN/Ygl sequenced by MCW
SBN/Ygl (RGD)
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Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
SHR/NHsd (RGD)
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Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
SHRSP/Gcrc (RGD)
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Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
SR/JrHsd (MCW)
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Sequenced By: Medical College of Wisconsin (Dr. Howard Jacob)
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA v0.7.7 and GATK v3.2-2
Breeder: Harlan Laboratories
Description: Provided by the Medical College of Wisconsin (Dr. Howard Jacob)
SR/JrHsd (RGD)
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Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
SS/Jr (RGD)
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Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
SS/JrHsdMcwi (MCW)
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Sequenced By: Medical College of Wisconsin (Dr. Howard Jacob)
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA v0.7.7 and GATK v3.2-2
Breeder: Medical College of Wisconsin
Description: Provided by the Medical College of Wisconsin (Dr. Howard Jacob)
SS/JrHsdMcwi (RGD)
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Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
WAG/Rij (RGD)
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Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
WKY/Gcrc (RGD)
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Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
WKY/N (MCW)
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Sequenced By: Royal Netherland Academy of Arts and Sciences (Dr. Edwin Cuppen)
Max Delbruck Center for Molecular Medicine (Dr. Norbert Huebner)
Platform: SOLiD 4 and 5500
Secondary Analysis: liftOver (Batch Coordinate Conversion)--genome.ucsc.edu
Breeder: National Institutes of Health
Description: Founder strain for the heterogeneous stock (HS) rat population; SNPs from the RGSC 3.4 assembly were "lifted over" from RGSC 3.4 to Rnor 5.0 and from Rnor 5.0 to Rnor 6.0; Provided by Medical College of Wisconsin
WKY/NCrl (RGD)
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Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
WKY/NHsd (RGD)
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Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
WN/N (MCW)
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Sequenced By: Royal Netherland Academy of Arts and Sciences (Dr. Edwin Cuppen)
Max Delbruck Center for Molecular Medicine (Dr. Norbert Huebner)
Platform: SOLiD 4 and 5500
Secondary Analysis: liftOver (Batch Coordinate Conversion)--genome.ucsc.edu
Breeder: National Institutes of Health
Description: Founder strain for the heterogeneous stock (HS) rat population; SNPs from the RGSC 3.4 assembly were "lifted over" from RGSC 3.4 to Rnor 5.0 and from Rnor 5.0 to Rnor 6.0; Provided by Medical College of Wisconsin
Damaging Variants


Assembly: Rnor_6.0

Chromosome Start Pos End Pos Reference Nucleotide Variant Nucleotide Variant Type Strain
17 5251935 5251936 C A snv SHRSP/Gcrc (RGD), LE/Stm (RGD)


Additional Information

Database Acc Id Source(s)
AGR Gene RGD:1586015 AgrOrtholog
Ensembl Genes ENSRNOG00000016629 Ensembl, ENTREZGENE, UniProtKB/TrEMBL
Ensembl Protein ENSRNOP00000022373 UniProtKB/TrEMBL
Ensembl Transcript ENSRNOT00000022373 UniProtKB/TrEMBL
Gene3D-CATH 3.30.460.10 UniProtKB/TrEMBL
InterPro NT_sf UniProtKB/TrEMBL
  PAP_assoc UniProtKB/TrEMBL
  Znf_CCHC UniProtKB/TrEMBL
  Znf_CCHC_sf UniProtKB/TrEMBL
NCBI Gene 501515 ENTREZGENE
Pfam PAP_assoc UniProtKB/TrEMBL
  zf-CCHC UniProtKB/TrEMBL
PhenoGen Tut7 PhenoGen
PROSITE ZF_CCHC UniProtKB/TrEMBL
SMART ZnF_C2HC UniProtKB/TrEMBL
Superfamily-SCOP SSF57756 UniProtKB/TrEMBL
  SSF81301 UniProtKB/TrEMBL
UniProt D3ZKR9 ENTREZGENE, UniProtKB/TrEMBL


Nomenclature History
Date Current Symbol Current Name Previous Symbol Previous Name Description Reference Status
2018-04-27 Tut7  terminal uridylyl transferase 7  Zcchc6  zinc finger CCHC-type containing 6  Nomenclature updated to reflect human and mouse nomenclature 1299863 APPROVED
2016-02-17 Zcchc6  zinc finger CCHC-type containing 6  Zcchc6  zinc finger, CCHC domain containing 6  Nomenclature updated to reflect human and mouse nomenclature 1299863 APPROVED
2010-04-21 Zcchc6  zinc finger, CCHC domain containing 6  LOC501515  similar to Zinc finger CCHC domain-containing protein 6  Nomenclature updated to reflect human and mouse nomenclature 1299863 APPROVED
2006-11-19 LOC501515  similar to Zinc finger CCHC domain-containing protein 6      Symbol and Name status set to provisional 70820 PROVISIONAL