Ints6l (integrator complex subunit 6 like) - Rat Genome Database

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Gene: Ints6l (integrator complex subunit 6 like) Rattus norvegicus
Analyze
Symbol: Ints6l
Name: integrator complex subunit 6 like
RGD ID: 1592872
Description: Orthologous to human INTS6L (integrator complex subunit 6 like); INTERACTS WITH 2,3,7,8-tetrachlorodibenzodioxine; fenvalerate; paracetamol.
Type: protein-coding
RefSeq Status: MODEL
Previously known as: cancer/testis antigen family 45 member A5-like; Ddx26b; DEAD/H (Asp-Glu-Ala-Asp/His) box polypeptide 26B; integrator complex subunit 6-like; LOC108349261; similar to integrator complex subunit 6 isoform a
RGD Orthologs
Human
Mouse
Chinchilla
Bonobo
Dog
Squirrel
Pig
Green Monkey
Alliance Genes
More Info more info ...
Latest Assembly: mRatBN7.2 - mRatBN7.2 Assembly
Position:
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCr8X139,295,490 - 139,363,090 (+)NCBIGRCr8
mRatBN7.2X134,258,117 - 134,325,706 (+)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 EnsemblX134,258,125 - 134,309,617 (+)EnsemblmRatBN7.2 Ensembl
Rnor_6.0X158,835,334 - 158,887,055 (+)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 EnsemblX158,835,811 - 158,886,220 (+)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.0X153,465,908 - 153,516,857 (+)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
CeleraX142,312,278 - 142,363,633 (+)NCBICelera
Cytogenetic MapXq36NCBI
JBrowse: View Region in Genome Browser (JBrowse)
Model


Disease Annotations     Click to see Annotation Detail View

Gene Ontology Annotations     Click to see Annotation Detail View

Biological Process

Cellular Component
integrator complex  (IBA,IEA)

References

References - curated
# Reference Title Reference Citation
1. Phylogenetic-based propagation of functional annotations within the Gene Ontology consortium. Gaudet P, etal., Brief Bioinform. 2011 Sep;12(5):449-62. doi: 10.1093/bib/bbr042. Epub 2011 Aug 27.
2. Data Import for Chemical-Gene Interactions RGD automated import pipeline for gene-chemical interactions
Additional References at PubMed
PMID:8889548  


Genomics

Comparative Map Data
Ints6l
(Rattus norvegicus - Norway rat)
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCr8X139,295,490 - 139,363,090 (+)NCBIGRCr8
mRatBN7.2X134,258,117 - 134,325,706 (+)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 EnsemblX134,258,125 - 134,309,617 (+)EnsemblmRatBN7.2 Ensembl
Rnor_6.0X158,835,334 - 158,887,055 (+)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 EnsemblX158,835,811 - 158,886,220 (+)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.0X153,465,908 - 153,516,857 (+)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
CeleraX142,312,278 - 142,363,633 (+)NCBICelera
Cytogenetic MapXq36NCBI
INTS6L
(Homo sapiens - human)
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh38X135,520,660 - 135,582,510 (+)NCBIGRCh38GRCh38hg38GRCh38
GRCh38.p14 EnsemblX135,520,659 - 135,582,510 (+)EnsemblGRCh38hg38GRCh38
GRCh37X134,654,585 - 134,716,435 (+)NCBIGRCh37GRCh37hg19GRCh37
Build 36X134,482,250 - 134,544,100 (+)NCBINCBI36Build 36hg18NCBI36
Build 34X134,380,103 - 134,441,954NCBI
CeleraX135,038,518 - 135,100,404 (+)NCBICelera
Cytogenetic MapXq26.3NCBI
HuRefX124,012,731 - 124,074,848 (+)NCBIHuRef
CHM1_1X134,565,561 - 134,627,471 (+)NCBICHM1_1
T2T-CHM13v2.0X133,846,416 - 133,908,261 (+)NCBIT2T-CHM13v2.0
Ints6l
(Mus musculus - house mouse)
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm39X55,500,180 - 55,553,201 (+)NCBIGRCm39GRCm39mm39
GRCm39 EnsemblX55,500,217 - 55,553,203 (+)EnsemblGRCm39 Ensembl
GRCm38X56,454,825 - 56,507,843 (+)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 EnsemblX56,454,857 - 56,507,843 (+)EnsemblGRCm38mm10GRCm38
MGSCv37X53,708,016 - 53,761,020 (+)NCBIGRCm37MGSCv37mm9NCBIm37
MGSCv36X52,801,661 - 52,854,623 (+)NCBIMGSCv36mm8
CeleraX42,936,847 - 42,989,846 (+)NCBICelera
Cytogenetic MapXA5NCBI
cM MapX30.06NCBI
Ints6l
(Chinchilla lanigera - long-tailed chinchilla)
Chinchilla AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChiLan1.0 EnsemblNW_0049554899,191,440 - 9,224,738 (-)EnsemblChiLan1.0
ChiLan1.0NW_0049554899,192,428 - 9,224,445 (-)NCBIChiLan1.0ChiLan1.0
INTS6L
(Pan paniscus - bonobo/pygmy chimpanzee)
Bonobo AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
NHGRI_mPanPan1-v2X134,957,922 - 135,019,783 (+)NCBINHGRI_mPanPan1-v2
NHGRI_mPanPan1X134,961,562 - 135,023,376 (+)NCBINHGRI_mPanPan1
Mhudiblu_PPA_v0X124,668,300 - 124,730,118 (+)NCBIMhudiblu_PPA_v0Mhudiblu_PPA_v0panPan3
PanPan1.1X135,007,141 - 135,068,622 (+)NCBIpanpan1.1PanPan1.1panPan2
PanPan1.1 EnsemblX135,007,041 - 135,068,622 (+)Ensemblpanpan1.1panPan2
INTS6L
(Canis lupus familiaris - dog)
Dog AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
CanFam3.1X105,996,058 - 106,052,347 (+)NCBICanFam3.1CanFam3.1canFam3CanFam3.1
CanFam3.1 EnsemblX105,995,434 - 106,080,535 (+)EnsemblCanFam3.1canFam3CanFam3.1
Dog10K_Boxer_TashaX91,828,623 - 91,914,594 (+)NCBIDog10K_Boxer_Tasha
ROS_Cfam_1.0X107,963,651 - 108,049,825 (+)NCBIROS_Cfam_1.0
ROS_Cfam_1.0 EnsemblX107,963,612 - 108,046,014 (+)EnsemblROS_Cfam_1.0 Ensembl
UMICH_Zoey_3.1X105,278,823 - 105,364,953 (+)NCBIUMICH_Zoey_3.1
UNSW_CanFamBas_1.0X107,235,721 - 107,321,866 (+)NCBIUNSW_CanFamBas_1.0
UU_Cfam_GSD_1.0X106,707,411 - 106,793,578 (+)NCBIUU_Cfam_GSD_1.0
Ints6l
(Ictidomys tridecemlineatus - thirteen-lined ground squirrel)
Squirrel AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HiC_Itri_2X104,227,768 - 104,292,307 (+)NCBIHiC_Itri_2
SpeTri2.0 EnsemblNW_00493651311,322,410 - 11,386,850 (-)EnsemblSpeTri2.0SpeTri2.0 Ensembl
SpeTri2.0NW_00493651311,322,311 - 11,388,952 (-)NCBISpeTri2.0SpeTri2.0SpeTri2.0
INTS6L
(Sus scrofa - pig)
Pig AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Sscrofa11.1 EnsemblX111,011,865 - 111,072,935 (+)EnsemblSscrofa11.1susScr11Sscrofa11.1
Sscrofa11.1X111,011,860 - 111,072,939 (+)NCBISscrofa11.1Sscrofa11.1susScr11Sscrofa11.1
Sscrofa10.2X126,934,388 - 126,995,057 (+)NCBISscrofa10.2Sscrofa10.2susScr3
INTS6L
(Chlorocebus sabaeus - green monkey)
Green Monkey AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChlSab1.1X110,736,373 - 110,798,537 (+)NCBIChlSab1.1ChlSab1.1chlSab2
ChlSab1.1 EnsemblX110,736,435 - 110,798,763 (+)EnsemblChlSab1.1ChlSab1.1 EnsemblchlSab2
Vero_WHO_p1.0NW_02366606548,350,576 - 48,412,679 (+)NCBIVero_WHO_p1.0Vero_WHO_p1.0

Variants

.
Variants in Ints6l
248 total Variants
miRNA Target Status

Predicted Target Of
Summary Value
Count of predictions:43
Count of miRNA genes:40
Interacting mature miRNAs:43
Transcripts:ENSRNOT00000071888
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.


QTLs in Region (mRatBN7.2)
The following QTLs overlap with this region.    Full Report CSV TAB Printer Gviewer
RGD IDSymbolNameLODP ValueTraitSub TraitChrStartStopSpecies
1598837Memor13Memory QTL 133.2exploratory behavior trait (VT:0010471)difference between time of physical contact/close proximity of test subject and social stimulus during sample phase and test phase (CMO:0002678)X41052407146860749Rat
1598872Memor14Memory QTL 144.5exploratory behavior trait (VT:0010471)difference between time of physical contact/close proximity of test subject and social stimulus during sample phase and test phase (CMO:0002678)X93956491138956491Rat
738025Stresp3Stress response QTL 34.610.0066stress-related behavior trait (VT:0010451)defensive burying - approachX100567703150256146Rat
1598809Memor15Memory QTL 154.4exploratory behavior trait (VT:0010471)difference between time of physical contact/close proximity of test subject and social stimulus during sample phase and test phase (CMO:0002678)X103312877148312877Rat
1598856Memor1Memory QTL 11.9exploratory behavior trait (VT:0010471)total horizontal distance resulting from voluntary locomotion in an experimental apparatus (CMO:0001443)X103312877148312877Rat
738029Stresp2Stress response QTL 23.40.0004stress-related behavior trait (VT:0010451)defensive burying - approachX112934952138400867Rat
10059603Bw174Body weight QTL 1743.40.025body mass (VT:0001259)body weight (CMO:0000012)X113937816152453651Rat
634346Insul4Insulin level QTL 40blood insulin amount (VT:0001560)serum insulin level (CMO:0000358)X126975089152453651Rat

Markers in Region
RH137224  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.2X134,297,373 - 134,297,563 (+)MAPPERmRatBN7.2
Rnor_6.0X158,874,782 - 158,874,971NCBIRnor6.0
Rnor_5.0X153,505,195 - 153,505,384UniSTSRnor5.0
CeleraX142,351,392 - 142,351,581UniSTS
RH 3.4 MapX950.02UniSTS
RH134384  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.2X134,309,179 - 134,309,394 (+)MAPPERmRatBN7.2
Rnor_6.0X158,886,616 - 158,886,830NCBIRnor6.0
Rnor_5.0X153,516,418 - 153,516,632UniSTSRnor5.0
CeleraX142,363,194 - 142,363,408UniSTS
RH 3.4 MapX986.41UniSTS


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 26 32 16 19 16 1 1 74 24 34 11 1
Low 17 25 25 25 7 10 11 7 7
Below cutoff

Sequence


Reference Sequences
RefSeq Acc Id: ENSRNOT00000071888   ⟹   ENSRNOP00000067157
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2 EnsemblX134,258,125 - 134,309,617 (+)Ensembl
Rnor_6.0 EnsemblX158,835,811 - 158,873,833 (+)Ensembl
RefSeq Acc Id: ENSRNOT00000080110   ⟹   ENSRNOP00000071477
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2 EnsemblX134,258,125 - 134,309,617 (+)Ensembl
Rnor_6.0 EnsemblX158,835,811 - 158,886,220 (+)Ensembl
RefSeq Acc Id: ENSRNOT00000099212   ⟹   ENSRNOP00000085913
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2 EnsemblX134,258,125 - 134,309,617 (+)Ensembl
RefSeq Acc Id: XM_039100549   ⟹   XP_038956477
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr8X139,295,491 - 139,347,003 (+)NCBI
mRatBN7.2X134,258,117 - 134,309,619 (+)NCBI
RefSeq Acc Id: XM_039100551   ⟹   XP_038956479
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr8X139,295,490 - 139,347,003 (+)NCBI
mRatBN7.2X134,258,117 - 134,309,619 (+)NCBI
RefSeq Acc Id: XM_039100552   ⟹   XP_038956480
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr8X139,298,072 - 139,347,003 (+)NCBI
mRatBN7.2X134,260,681 - 134,309,619 (+)NCBI
RefSeq Acc Id: XM_039100554   ⟹   XP_038956482
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr8X139,327,718 - 139,347,003 (+)NCBI
mRatBN7.2X134,290,361 - 134,309,619 (+)NCBI
RefSeq Acc Id: XM_063280545   ⟹   XP_063136615
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr8X139,319,665 - 139,347,003 (+)NCBI
RefSeq Acc Id: XR_005498516
Type: NON-CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr8X139,319,606 - 139,363,090 (+)NCBI
mRatBN7.2X134,265,634 - 134,325,706 (+)NCBI
RefSeq Acc Id: XR_005498518
Type: NON-CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr8X139,319,606 - 139,363,090 (+)NCBI
mRatBN7.2X134,265,634 - 134,325,706 (+)NCBI
Reference Protein Sequences
RefSeq Acc Id: ENSRNOP00000071477   ⟸   ENSRNOT00000080110
RefSeq Acc Id: ENSRNOP00000067157   ⟸   ENSRNOT00000071888
RefSeq Acc Id: XP_038956477   ⟸   XM_039100549
- Peptide Label: isoform X1
- UniProtKB: M0RC48 (UniProtKB/TrEMBL),   A0A8I6A4P6 (UniProtKB/TrEMBL)
RefSeq Acc Id: XP_038956479   ⟸   XM_039100551
- Peptide Label: isoform X2
- UniProtKB: A0A0G2K0J8 (UniProtKB/TrEMBL),   A0A8I6A4P6 (UniProtKB/TrEMBL)
RefSeq Acc Id: XP_038956480   ⟸   XM_039100552
- Peptide Label: isoform X3
- UniProtKB: A0A8I6A4P6 (UniProtKB/TrEMBL)
RefSeq Acc Id: XP_038956482   ⟸   XM_039100554
- Peptide Label: isoform X5
RefSeq Acc Id: ENSRNOP00000085913   ⟸   ENSRNOT00000099212
RefSeq Acc Id: XP_063136615   ⟸   XM_063280545
- Peptide Label: isoform X4
Protein Domains
INTS6/SAGE1/DDX26B/CT45 C-terminal   VWFA

Transcriptome

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


Additional Information

Database Acc Id Source(s)
AGR Gene RGD:1592872 AgrOrtholog
BioCyc Gene G2FUF-922 BioCyc
Ensembl Genes ENSRNOG00000046662 Ensembl, ENTREZGENE, UniProtKB/TrEMBL
Ensembl Transcript ENSRNOT00000071888.3 UniProtKB/TrEMBL
  ENSRNOT00000080110.2 UniProtKB/TrEMBL
  ENSRNOT00000099212.1 UniProtKB/TrEMBL
Gene3D-CATH 3.40.50.410 UniProtKB/TrEMBL
InterPro INT_SG_DDX_CT_C UniProtKB/TrEMBL
  VWF_A UniProtKB/TrEMBL
  vWFA_dom_sf UniProtKB/TrEMBL
NCBI Gene 681665 ENTREZGENE
PANTHER DEAD/H BOX POLYPEPTIDE 26/DICE1-RELATED UniProtKB/TrEMBL
  INTEGRATOR COMPLEX SUBUNIT 6-LIKE UniProtKB/TrEMBL
Pfam INT_SG_DDX_CT_C UniProtKB/TrEMBL
  VWA_2 UniProtKB/TrEMBL
PhenoGen Ints6l PhenoGen
PROSITE VWFA UniProtKB/TrEMBL
RatGTEx ENSRNOG00000046662 RatGTEx
Superfamily-SCOP SSF53300 UniProtKB/TrEMBL
UniProt A0A0G2K0J8 ENTREZGENE, UniProtKB/TrEMBL
  A0A8I6A4P6 ENTREZGENE, UniProtKB/TrEMBL
  A6KSN3_RAT UniProtKB/TrEMBL
  M0RC48 ENTREZGENE, UniProtKB/TrEMBL


Nomenclature History
Date Current Symbol Current Name Previous Symbol Previous Name Description Reference Status
2021-03-09 Ints6l  integrator complex subunit 6 like  LOC108349261  cancer/testis antigen family 45 member A5-like  Data merged from RGD:11384971 737654 PROVISIONAL
2016-08-02 LOC108349261  cancer/testis antigen family 45 member A5-like      Symbol and Name status set to provisional 70820 PROVISIONAL
2016-01-13 Ints6l  integrator complex subunit 6 like  Ddx26b  DEAD/H (Asp-Glu-Ala-Asp/His) box polypeptide 26B  Nomenclature updated to reflect human and mouse nomenclature 1299863 APPROVED
2006-11-20 LOC681665  similar to integrator complex subunit 6 isoform a      Symbol and Name status set to provisional 70820 PROVISIONAL