Arntl2 (aryl hydrocarbon receptor nuclear translocator-like 2) - Rat Genome Database

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Gene: Arntl2 (aryl hydrocarbon receptor nuclear translocator-like 2) Rattus norvegicus
Analyze
Symbol: Arntl2
Name: aryl hydrocarbon receptor nuclear translocator-like 2
RGD ID: 620230
Description: Predicted to have DNA-binding transcription factor activity, RNA polymerase II-specific and E-box binding activity. Predicted to be involved in circadian rhythm; positive regulation of circadian rhythm; and positive regulation of transcription by RNA polymerase II. Predicted to localize to aryl hydrocarbon receptor complex; nucleolus; and nucleoplasm. Human ortholog(s) of this gene implicated in hypertension and type 2 diabetes mellitus. Orthologous to human ARNTL2 (aryl hydrocarbon receptor nuclear translocator like 2); INTERACTS WITH 1,2-dimethylhydrazine; acrylamide; bisphenol A.
Type: protein-coding
RefSeq Status: PROVISIONAL
Also known as: Arnt4; aryl hydrocarbon receptor nuclear translocator-like protein 2; aryl hydrocarbon receptor nuclear translocator-like protein 2-like; Bmal2; brain and muscle Arnt-like protein 2 variant d; hypothetical protein LOC362464; LOC102555341; LOC362464; LOW QUALITY PROTEIN: aryl hydrocarbon receptor nuclear translocator-like protein 2; similar to aryl hydrocarbon receptor nuclear translocator-like 2; transcription factor BMAL2
RGD Orthologs
Human
Mouse
Bonobo
Dog
Squirrel
Pig
Green Monkey
Alliance Genes
More Info more info ...
Latest Assembly: Rnor_6.0 - RGSC Genome Assembly v6.0
Position:
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
mRatBN7.24179,699,432 - 179,747,710 (+)NCBI
Rnor_6.0 Ensembl4181,103,774 - 181,214,994 (+)EnsemblRnor6.0rn6Rnor6.0
Rnor_6.04181,103,774 - 181,158,415 (+)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_5.04245,261,269 - 245,310,728 (+)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.44184,392,097 - 184,419,834 (+)NCBIRGSC3.4rn4RGSC3.4
RGSC_v3.14184,637,241 - 184,664,934 (+)NCBI
Celera4168,201,685 - 168,241,329 (+)NCBICelera
Cytogenetic Map4q44NCBI
JBrowse: View Region in Genome Browser (JBrowse)
Model


Disease Annotations     Click to see Annotation Detail View

References

Additional References at PubMed
PMID:10864977   PMID:12055078   PMID:12738229   PMID:15147242   PMID:19605937   PMID:23056539   PMID:24086613  


Genomics

Comparative Map Data
Arntl2
(Rattus norvegicus - Norway rat)
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
mRatBN7.24179,699,432 - 179,747,710 (+)NCBI
Rnor_6.0 Ensembl4181,103,774 - 181,214,994 (+)EnsemblRnor6.0rn6Rnor6.0
Rnor_6.04181,103,774 - 181,158,415 (+)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_5.04245,261,269 - 245,310,728 (+)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.44184,392,097 - 184,419,834 (+)NCBIRGSC3.4rn4RGSC3.4
RGSC_v3.14184,637,241 - 184,664,934 (+)NCBI
Celera4168,201,685 - 168,241,329 (+)NCBICelera
Cytogenetic Map4q44NCBI
ARNTL2
(Homo sapiens - human)
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh38.p13 Ensembl1227,332,854 - 27,425,289 (+)EnsemblGRCh38hg38GRCh38
GRCh381227,332,836 - 27,425,813 (+)NCBIGRCh38GRCh38hg38GRCh38
GRCh371227,485,769 - 27,578,746 (+)NCBIGRCh37GRCh37hg19GRCh37
Build 361227,377,255 - 27,464,733 (+)NCBINCBI36hg18NCBI36
Build 341227,377,254 - 27,464,733NCBI
Celera1232,631,579 - 32,719,063 (+)NCBI
Cytogenetic Map12p11.23NCBI
HuRef1227,254,920 - 27,347,855 (+)NCBIHuRef
CHM1_11227,449,651 - 27,543,757 (+)NCBICHM1_1
Arntl2
(Mus musculus - house mouse)
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm396146,696,230 - 146,735,027 (+)NCBIGRCm39mm39
GRCm39 Ensembl6146,697,553 - 146,735,027 (+)Ensembl
GRCm386146,794,729 - 146,833,529 (+)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl6146,796,055 - 146,833,529 (+)EnsemblGRCm38mm10GRCm38
MGSCv376146,754,052 - 146,781,168 (+)NCBIGRCm37mm9NCBIm37
MGSCv366146,762,700 - 146,789,816 (+)NCBImm8
Celera6149,841,504 - 149,869,849 (+)NCBICelera
Cytogenetic Map6G3NCBI
ARNTL2
(Pan paniscus - bonobo/pygmy chimpanzee)
Bonobo AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
PanPan1.11261,503,973 - 61,561,593 (-)NCBIpanpan1.1PanPan1.1panPan2
PanPan1.1 Ensembl1261,503,973 - 61,596,580 (-)Ensemblpanpan1.1panPan2
Mhudiblu_PPA_v01258,885,410 - 58,977,832 (-)NCBIMhudiblu_PPA_v0panPan3
ARNTL2
(Canis lupus familiaris - dog)
Dog AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
CanFam3.12720,304,404 - 20,420,086 (-)NCBICanFam3.1CanFam3.1canFam3CanFam3.1
CanFam3.1 Ensembl2720,306,705 - 20,420,736 (-)EnsemblCanFam3.1canFam3CanFam3.1
Dog10K_Boxer_Tasha2725,968,425 - 26,091,877 (+)NCBI
ROS_Cfam_1.02720,496,884 - 20,615,111 (-)NCBI
UMICH_Zoey_3.12720,303,185 - 20,419,962 (-)NCBI
UNSW_CanFamBas_1.02720,331,034 - 20,448,791 (-)NCBI
UU_Cfam_GSD_1.02726,131,070 - 26,254,445 (+)NCBI
Arntl2
(Ictidomys tridecemlineatus - thirteen-lined ground squirrel)
Squirrel AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HiC_Itri_2NW_02440494582,255,018 - 82,318,685 (-)NCBI
SpeTri2.0NW_004936548181,793 - 241,050 (-)NCBISpeTri2.0SpeTri2.0SpeTri2.0
ARNTL2
(Sus scrofa - pig)
Pig AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Sscrofa11.1 Ensembl546,290,005 - 46,482,280 (-)EnsemblSscrofa11.1susScr11Sscrofa11.1
Sscrofa11.1546,289,873 - 46,482,369 (-)NCBISscrofa11.1Sscrofa11.1susScr11Sscrofa11.1
Sscrofa10.2549,898,645 - 50,034,234 (-)NCBISscrofa10.2Sscrofa10.2susScr3
ARNTL2
(Chlorocebus sabaeus - African green monkey)
Vervet AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChlSab1.11127,067,523 - 27,141,740 (+)NCBI
ChlSab1.1 Ensembl1127,067,604 - 27,136,466 (+)Ensembl


QTLs in Region (Rnor_6.0)
The following QTLs overlap with this region.    Full Report CSV TAB Printer Gviewer
RGD IDSymbolNameLODP ValueTraitSub TraitChrStartStopSpecies
2316958Gluco58Glucose level QTL 5810blood glucose amount (VT:0000188)blood glucose level (CMO:0000046)47850904182171018Rat
2293659Bmd35Bone mineral density QTL 354.50.0001femur strength trait (VT:0010010)femoral neck ultimate force (CMO:0001703)4136908430182878540Rat
1578674Bmd12Bone mineral density QTL 123.8femur mineral mass (VT:0010011)cortical volumetric bone mineral density (CMO:0001730)4137171018182171018Rat
6478693Anxrr32Anxiety related response QTL 320.00092locomotor behavior trait (VT:0001392)measurement of voluntary locomotion into, out of or within a discrete space in an experimental apparatus (CMO:0000957)4145547014184226339Rat
6478700Anxrr33Anxiety related response QTL 330.00896locomotor behavior trait (VT:0001392)amount of experiment time spent in a discrete space in an experimental apparatus (CMO:0000958)4145547014184226339Rat
6478718Anxrr34Anxiety related response QTL 340.00896locomotor behavior trait (VT:0001392)amount of experiment time spent in a discrete space in an experimental apparatus (CMO:0000958)4145547014184226339Rat
6478748Anxrr42Anxiety related response QTL 420.28008locomotor behavior trait (VT:0001392)amount of experiment time spent in a discrete space in an experimental apparatus (CMO:0000958)4145547014184226339Rat
6478754Anxrr43Anxiety related response QTL 430.14035locomotor behavior trait (VT:0001392)distance moved per unit of time into, out of or within a discrete space in an experimental apparatus (CMO:0001493)4145547014184226339Rat
10401796Kidm48Kidney mass QTL 48kidney mass (VT:0002707)both kidneys wet weight (CMO:0000085)4146497452184226339Rat
6478782Anxrr52Anxiety related response QTL 520.02091locomotor behavior trait (VT:0001392)amount of experiment time spent in a discrete space in an experimental apparatus (CMO:0000958)4155386197184226339Rat
6478785Anxrr53Anxiety related response QTL 530.01397locomotor behavior trait (VT:0001392)amount of experiment time spent in a discrete space in an experimental apparatus (CMO:0000958)4155386197184226339Rat
6478720Alc23Alcohol consumption QTL 230.00509drinking behavior trait (VT:0001422)ethanol drink intake rate to body weight ratio (CMO:0001616)4155386197184226339Rat
6478728Anxrr36Anxiety related response QTL 360.01061locomotor behavior trait (VT:0001392)amount of experiment time spent in a discrete space in an experimental apparatus (CMO:0000958)4155386197184226339Rat
6478733Anxrr37Anxiety related response QTL 370.00095locomotor behavior trait (VT:0001392)amount of experiment time spent in a discrete space in an experimental apparatus (CMO:0000958)4155386197184226339Rat
6478737Anxrr38Anxiety related response QTL 380.00159locomotor behavior trait (VT:0001392)amount of experiment time spent in a discrete space in an experimental apparatus (CMO:0000958)4155386197184226339Rat
6478757Anxrr44Anxiety related response QTL 440.01087locomotor behavior trait (VT:0001392)amount of experiment time spent in a discrete space in an experimental apparatus (CMO:0000958)4155386197184226339Rat
10053718Scort25Serum corticosterone level QTL 252.150.0097blood corticosterone amount (VT:0005345)plasma corticosterone level (CMO:0001173)4156855449184226339Rat
1300109Rf13Renal function QTL 133.91renal blood flow trait (VT:2000006)absolute change in renal blood flow rate (CMO:0001168)4157423126184226339Rat

miRNA Target Status

Predicted Target Of
Summary Value
Count of predictions:32
Count of miRNA genes:29
Interacting mature miRNAs:32
Transcripts:ENSRNOT00000055473
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.


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
Low 3 1 16 10 1 10 50 1 10 8
Below cutoff 42 22 16 11 16 8 11 24 14 25 3 8

Sequence

Nucleotide Sequences
RefSeq Transcripts NM_133391 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_039107944 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_039107945 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_039107946 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_039107947 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_039107948 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_039107949 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_039107950 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_039107951 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
GenBank Nucleotide AAHX01033785 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  AAHX01033786 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  AAHX01033787 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  AAHX01033788 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  AAHX01033789 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  AF327071 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  AY014837 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  AY014838 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  CH473964 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  JACYVU010000151 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  JQ361086 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles

Reference Sequences
RefSeq Acc Id: ENSRNOT00000055473   ⟹   ENSRNOP00000052338
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
Rnor_6.0 Ensembl4181,103,774 - 181,158,200 (+)Ensembl
RefSeq Acc Id: ENSRNOT00000077619   ⟹   ENSRNOP00000070632
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
Rnor_6.0 Ensembl4181,103,774 - 181,214,994 (+)Ensembl
RefSeq Acc Id: ENSRNOT00000084207   ⟹   ENSRNOP00000071979
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
Rnor_6.0 Ensembl4181,103,774 - 181,158,200 (+)Ensembl
RefSeq Acc Id: NM_133391   ⟹   NP_596882
RefSeq Status: PROVISIONAL
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.24179,706,921 - 179,746,949 (+)NCBI
Rnor_6.04181,103,774 - 181,158,415 (+)NCBI
Rnor_5.04245,261,269 - 245,310,728 (+)NCBI
Celera4168,201,685 - 168,241,329 (+)NCBI
Sequence:
RefSeq Acc Id: XM_039107944   ⟹   XP_038963872
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.24179,699,432 - 179,747,710 (+)NCBI
RefSeq Acc Id: XM_039107945   ⟹   XP_038963873
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.24179,699,437 - 179,747,710 (+)NCBI
RefSeq Acc Id: XM_039107946   ⟹   XP_038963874
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.24179,699,432 - 179,747,710 (+)NCBI
RefSeq Acc Id: XM_039107947   ⟹   XP_038963875
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.24179,699,437 - 179,747,710 (+)NCBI
RefSeq Acc Id: XM_039107948   ⟹   XP_038963876
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.24179,712,250 - 179,747,710 (+)NCBI
RefSeq Acc Id: XM_039107949   ⟹   XP_038963877
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.24179,724,156 - 179,747,710 (+)NCBI
RefSeq Acc Id: XM_039107950   ⟹   XP_038963878
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.24179,724,165 - 179,747,710 (+)NCBI
RefSeq Acc Id: XM_039107951   ⟹   XP_038963879
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.24179,712,253 - 179,747,710 (+)NCBI
Reference Sequences
RefSeq Acc Id: NP_596882   ⟸   NM_133391
- Sequence:
RefSeq Acc Id: ENSRNOP00000052338   ⟸   ENSRNOT00000055473
RefSeq Acc Id: ENSRNOP00000070632   ⟸   ENSRNOT00000077619
RefSeq Acc Id: ENSRNOP00000071979   ⟸   ENSRNOT00000084207
RefSeq Acc Id: XP_038963872   ⟸   XM_039107944
- Peptide Label: isoform X1
RefSeq Acc Id: XP_038963874   ⟸   XM_039107946
- Peptide Label: isoform X3
RefSeq Acc Id: XP_038963873   ⟸   XM_039107945
- Peptide Label: isoform X2
RefSeq Acc Id: XP_038963875   ⟸   XM_039107947
- Peptide Label: isoform X4
RefSeq Acc Id: XP_038963876   ⟸   XM_039107948
- Peptide Label: isoform X5
RefSeq Acc Id: XP_038963879   ⟸   XM_039107951
- Peptide Label: isoform X7
RefSeq Acc Id: XP_038963877   ⟸   XM_039107949
- Peptide Label: isoform X5
RefSeq Acc Id: XP_038963878   ⟸   XM_039107950
- Peptide Label: isoform X6
Protein Domains
bHLH   PAS

Transcriptome

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


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)
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
Buf/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
COP/CrCrl (MCW & UW)
Visual CSV TAB Printer
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)
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
F344/NRrrc (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
FHH/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)
FHH/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
FHL/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)
FHL/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
GH/OmrMcwi (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)
GK/Ox (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
LE/Stm (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
LEW/Crl (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
LEW/NCrlBR (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
LH/MavRrrc (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
LL/MavRrrc (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
LN/MavRrrc (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
M520/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
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

Additional Information

Database Acc Id Source(s)
AGR Gene RGD:620230 AgrOrtholog
Ensembl Genes ENSRNOG00000001830 Ensembl, ENTREZGENE, UniProtKB/TrEMBL
Ensembl Protein ENSRNOP00000052338 UniProtKB/TrEMBL
  ENSRNOP00000070632 UniProtKB/TrEMBL
  ENSRNOP00000071979 ENTREZGENE, UniProtKB/TrEMBL
Ensembl Transcript ENSRNOT00000055473 UniProtKB/TrEMBL
  ENSRNOT00000077619 UniProtKB/TrEMBL
  ENSRNOT00000084207 ENTREZGENE, UniProtKB/TrEMBL
Gene3D-CATH 4.10.280.10 UniProtKB/TrEMBL
InterPro HLH_DNA-bd_sf UniProtKB/TrEMBL
  HLH_DNA_bd UniProtKB/TrEMBL
  Nuc_translocat UniProtKB/TrEMBL
  PAS UniProtKB/TrEMBL
  PAS-like_dom_sf UniProtKB/TrEMBL
  PAS_fold UniProtKB/TrEMBL
NCBI Gene 362464 ENTREZGENE
Pfam HLH UniProtKB/TrEMBL
  PAS UniProtKB/TrEMBL
PhenoGen Arntl2 PhenoGen
PRINTS NCTRNSLOCATR UniProtKB/TrEMBL
PROSITE HLH UniProtKB/TrEMBL
  PAS UniProtKB/TrEMBL
SMART HLH UniProtKB/TrEMBL
  PAS UniProtKB/TrEMBL
Superfamily-SCOP HLH_basic UniProtKB/TrEMBL
  SSF55785 UniProtKB/TrEMBL
TIGRFAMs Sensory_box UniProtKB/TrEMBL
UniProt A0A0G2JYF4_RAT UniProtKB/TrEMBL
  A0A0G2K1T7_RAT UniProtKB/TrEMBL
  D4ADP3_RAT UniProtKB/TrEMBL


Nomenclature History
Date Current Symbol Current Name Previous Symbol Previous Name Description Reference Status
2021-03-09 Arntl2  aryl hydrocarbon receptor nuclear translocator-like 2  LOC102555341  aryl hydrocarbon receptor nuclear translocator-like protein 2-like  Data Merged 737654 PROVISIONAL
2013-12-18 LOC102555341  aryl hydrocarbon receptor nuclear translocator-like protein 2-like      Symbol and Name status set to provisional 70820 PROVISIONAL
2010-06-02 Arntl2  aryl hydrocarbon receptor nuclear translocator-like 2  LOC362464  similar to aryl hydrocarbon receptor nuclear translocator-like 2  Data Merged 737654 APPROVED
2006-11-19 LOC362464  similar to aryl hydrocarbon receptor nuclear translocator-like 2      Symbol and Name status set to provisional 70820 PROVISIONAL
2004-09-10 Arntl2  aryl hydrocarbon receptor nuclear translocator-like 2    transcription factor BMAL2  Name updated 1299863 APPROVED
2002-08-07 Arntl2  transcription factor BMAL2      Symbol and Name status set to provisional 70820 PROVISIONAL

RGD Curation Notes
Note Type Note Reference
gene_product a basic Helix-Loop-Helix-Per-Arnt-Sim (bHLH-PAS) transcription factor 632267