Atf7 (activating transcription factor 7) - Rat Genome Database
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Gene: Atf7 (activating transcription factor 7) Rattus norvegicus
Analyze
Symbol: Atf7
Name: activating transcription factor 7
RGD ID: 1304940
Description: Predicted to have several functions, including DNA-binding transcription repressor activity, RNA polymerase II-specific; RNA polymerase II cis-regulatory region sequence-specific DNA binding activity; and mitogen-activated protein kinase binding activity. Predicted to be involved in negative regulation of transcription by RNA polymerase II. Predicted to localize to nuclear periphery. Orthologous to human ATF7 (activating transcription factor 7); INTERACTS WITH 2,3,7,8-tetrachlorodibenzodioxine; amphetamine; bisphenol A.
Type: protein-coding
RefSeq Status: PROVISIONAL
Also known as: cyclic AMP-dependent transcription factor ATF-7; LOC315333
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
mRatBN7.27133,660,491 - 133,750,902 (-)NCBI
Rnor_6.0 Ensembl7144,136,325 - 144,223,429 (-)EnsemblRnor6.0rn6Rnor6.0
Rnor_6.07144,131,382 - 144,223,463 (-)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_5.07141,923,377 - 142,016,052 (-)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.47141,283,187 - 141,372,637 (-)NCBIRGSC3.4rn4RGSC3.4
RGSC_v3.17141,351,602 - 141,448,693 (-)NCBI
Celera7130,091,319 - 130,178,104 (-)NCBICelera
Cytogenetic Map7q36NCBI
JBrowse: View Region in Genome Browser (JBrowse)
Model


Disease Annotations     Click to see Annotation Detail View

References

Additional References at PubMed
PMID:8288576   PMID:10376527   PMID:12477932   PMID:17264123   PMID:23382074  


Genomics

Comparative Map Data
Atf7
(Rattus norvegicus - Norway rat)
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
mRatBN7.27133,660,491 - 133,750,902 (-)NCBI
Rnor_6.0 Ensembl7144,136,325 - 144,223,429 (-)EnsemblRnor6.0rn6Rnor6.0
Rnor_6.07144,131,382 - 144,223,463 (-)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_5.07141,923,377 - 142,016,052 (-)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.47141,283,187 - 141,372,637 (-)NCBIRGSC3.4rn4RGSC3.4
RGSC_v3.17141,351,602 - 141,448,693 (-)NCBI
Celera7130,091,319 - 130,178,104 (-)NCBICelera
Cytogenetic Map7q36NCBI
ATF7
(Homo sapiens - human)
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh38.p13 Ensembl1253,507,856 - 53,626,410 (-)EnsemblGRCh38hg38GRCh38
GRCh381253,507,856 - 53,626,382 (-)NCBIGRCh38GRCh38hg38GRCh38
GRCh371253,901,640 - 54,020,166 (-)NCBIGRCh37GRCh37hg19GRCh37
Build 361252,196,026 - 52,306,403 (-)NCBINCBI36hg18NCBI36
Build 341252,196,027 - 52,306,405NCBI
Celera1253,556,201 - 53,670,237 (-)NCBI
Cytogenetic Map12q13.13NCBI
HuRef1250,941,222 - 51,059,806 (-)NCBIHuRef
CHM1_11253,868,696 - 53,987,260 (-)NCBICHM1_1
Atf7
(Mus musculus - house mouse)
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm3915102,434,381 - 102,533,899 (-)NCBIGRCm39mm39
GRCm39 Ensembl15102,434,381 - 102,533,899 (-)Ensembl
GRCm3815102,525,946 - 102,625,464 (-)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl15102,525,946 - 102,625,464 (-)EnsemblGRCm38mm10GRCm38
MGSCv3715102,367,074 - 102,455,852 (-)NCBIGRCm37mm9NCBIm37
MGSCv3615102,364,677 - 102,453,455 (-)NCBImm8
Celera15104,694,388 - 104,783,409 (-)NCBICelera
Cytogenetic Map15F3NCBI
Atf7
(Chinchilla lanigera - long-tailed chinchilla)
Chinchilla AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChiLan1.0 EnsemblNW_004955458803,738 - 898,967 (-)EnsemblChiLan1.0
ChiLan1.0NW_004955458803,738 - 898,847 (-)NCBIChiLan1.0ChiLan1.0
LOC100981854
(Pan paniscus - bonobo/pygmy chimpanzee)
Bonobo AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
PanPan1.11235,914,378 - 36,026,225 (+)NCBIpanpan1.1PanPan1.1panPan2
PanPan1.1 Ensembl1235,914,378 - 36,021,141 (+)Ensemblpanpan1.1panPan2
Mhudiblu_PPA_v01235,128,031 - 35,245,505 (+)NCBIMhudiblu_PPA_v0panPan3
LOC607149
(Canis lupus familiaris - dog)
Dog AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
CanFam3.1 Ensembl271,617,289 - 1,706,637 (+)EnsemblCanFam3.1canFam3CanFam3.1
CanFam3.1271,617,466 - 1,711,356 (+)NCBICanFam3.1CanFam3.1canFam3CanFam3.1
Atf7
(Ictidomys tridecemlineatus - thirteen-lined ground squirrel)
Squirrel AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
SpeTri2.0NW_00493651210,780,826 - 10,884,806 (-)NCBISpeTri2.0SpeTri2.0SpeTri2.0
ATF7
(Sus scrofa - pig)
Pig AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Sscrofa11.1 Ensembl518,728,692 - 18,874,183 (-)EnsemblSscrofa11.1susScr11Sscrofa11.1
Sscrofa11.1518,726,329 - 18,838,670 (-)NCBISscrofa11.1Sscrofa11.1susScr11Sscrofa11.1
Sscrofa10.2519,164,389 - 19,285,213 (-)NCBISscrofa10.2Sscrofa10.2susScr3
LOC103238406
(Chlorocebus sabaeus - African green monkey)
Vervet AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChlSab1.11149,608,653 - 49,728,702 (-)NCBI
ChlSab1.1 Ensembl1149,618,136 - 49,728,289 (-)Ensembl
Atf7
(Heterocephalus glaber - naked mole-rat)
Molerat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HetGla 1.0NW_0046249041,604,083 - 1,705,739 (-)NCBI

Position Markers
D7Mit20  
Rat AssemblyChrPosition (strand)SourceJBrowse
Rnor_6.07144,221,626 - 144,221,711NCBIRnor6.0
Rnor_5.07142,014,215 - 142,014,300UniSTSRnor5.0
RGSC_v3.47141,370,833 - 141,370,919RGDRGSC3.4
RGSC_v3.47141,370,834 - 141,370,919UniSTSRGSC3.4
RGSC_v3.17141,447,270 - 141,447,356RGD
Celera7130,176,301 - 130,176,386UniSTS
Cytogenetic Map7q36UniSTS
D7Rat80  
Rat AssemblyChrPosition (strand)SourceJBrowse
Rnor_6.07144,154,650 - 144,154,870NCBIRnor6.0
Rnor_5.07141,946,645 - 141,946,865UniSTSRnor5.0
RGSC_v3.47141,301,527 - 141,301,748RGDRGSC3.4
RGSC_v3.47141,301,528 - 141,301,748UniSTSRGSC3.4
RGSC_v3.17141,377,965 - 141,378,185RGD
Celera7130,109,659 - 130,109,869UniSTS
RH 3.4 Map71060.0UniSTS
RH 3.4 Map71060.0RGD
SHRSP x BN Map788.5699UniSTS
SHRSP x BN Map788.5699RGD
Cytogenetic Map7q36UniSTS
BE096030  
Rat AssemblyChrPosition (strand)SourceJBrowse
Rnor_6.07144,134,403 - 144,134,581NCBIRnor6.0
Rnor_5.07141,926,398 - 141,926,576UniSTSRnor5.0
RGSC_v3.47141,281,280 - 141,281,458UniSTSRGSC3.4
Celera7130,089,413 - 130,089,591UniSTS
RH 3.4 Map71063.0UniSTS
Cytogenetic Map7q36UniSTS
RH143199  
Rat AssemblyChrPosition (strand)SourceJBrowse
Rnor_6.07144,134,412 - 144,134,555NCBIRnor6.0
Rnor_5.07141,926,407 - 141,926,550UniSTSRnor5.0
RGSC_v3.47141,281,289 - 141,281,432UniSTSRGSC3.4
Celera7130,089,422 - 130,089,565UniSTS
RH 3.4 Map71064.0UniSTS
Cytogenetic Map7q36UniSTS
AW530091  
Rat AssemblyChrPosition (strand)SourceJBrowse
Rnor_6.07144,133,379 - 144,133,531NCBIRnor6.0
Rnor_5.07141,925,374 - 141,925,526UniSTSRnor5.0
RGSC_v3.47141,280,255 - 141,280,407UniSTSRGSC3.4
Celera7130,088,389 - 130,088,541UniSTS
RH 3.4 Map71131.02UniSTS
Cytogenetic Map7q36UniSTS
BE104942  
Rat AssemblyChrPosition (strand)SourceJBrowse
Rnor_6.07144,220,678 - 144,220,828NCBIRnor6.0
Rnor_5.07142,013,267 - 142,013,417UniSTSRnor5.0
RGSC_v3.47141,369,886 - 141,370,036UniSTSRGSC3.4
Celera7130,175,353 - 130,175,503UniSTS
RH 3.4 Map71060.0UniSTS
Cytogenetic Map7q36UniSTS


QTLs in Region (Rnor_6.0)
The following QTLs overlap with this region.    Full Report CSV TAB Printer Gviewer
RGD IDSymbolNameLODP ValueTraitSub TraitChrStartStopSpecies
1300179Kidm5Kidney mass QTL 53.51kidney mass (VT:0002707)left kidney wet weight (CMO:0000083)751251919145729302Rat
70173Niddm19Non-insulin dependent diabetes mellitus QTL 194.330.00005blood glucose amount (VT:0000188)blood glucose level area under curve (AUC) (CMO:0000350)771448715145729302Rat
1358914Bp266Blood pressure QTL 266arterial blood pressure trait (VT:2000000)mean arterial blood pressure (CMO:0000009)791832949145158140Rat
1358891Bp265Blood pressure QTL 2652.21arterial blood pressure trait (VT:2000000)mean arterial blood pressure (CMO:0000009)791832949145158140Rat
2299163Iddm34Insulin dependent diabetes mellitus QTL 342.71blood glucose amount (VT:0000188)age at onset/diagnosis of type 1 diabetes mellitus (CMO:0001140)7100028953145729302Rat
1549899Stresp8Stress response QTL 84.370.0008stress-related behavior trait (VT:0010451)defensive burying duration (CMO:0001961)7100192194145192194Rat
731176Glom5Glomerulus QTL 52.50.0035kidney glomerulus morphology trait (VT:0005325)count of superficial glomeruli not directly contacting the kidney surface (CMO:0001002)7106564316145729302Rat
731174Uae23Urinary albumin excretion QTL 232.40.0042urine albumin amount (VT:0002871)urine albumin excretion rate (CMO:0000757)7114825174145729302Rat
2306821Bp335Blood pressure QTL 3350.001arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)7115922628145729302Rat
631663Bw6Body weight QTL 63.4body mass (VT:0001259)body weight (CMO:0000012)7120746024145692398Rat
1300112Bp183Blood pressure QTL 1833.51arterial blood pressure trait (VT:2000000)blood pressure time series experimental set point of the baroreceptor response (CMO:0002593)7121654760145729302Rat
1354582Stl11Serum triglyceride level QTL 113.42blood triglyceride amount (VT:0002644)serum triglyceride level (CMO:0000360)7129412003145729302Rat

miRNA Target Status

Predicted Target Of
Summary Value
Count of predictions:342
Count of miRNA genes:200
Interacting mature miRNAs:223
Transcripts:ENSRNOT00000020527
Prediction methods:Microtar, 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 3 33 8 8 6 8 2 59 25 38 11
Low 10 49 33 13 33 8 9 15 10 3 8
Below cutoff

Sequence


Reference Sequences
RefSeq Acc Id: ENSRNOT00000020527   ⟹   ENSRNOP00000020527
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
Rnor_6.0 Ensembl7144,136,325 - 144,223,429 (-)Ensembl
RefSeq Acc Id: NM_001108115   ⟹   NP_001101585
RefSeq Status: PROVISIONAL
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.27133,663,756 - 133,750,852 (-)NCBI
Rnor_6.07144,136,310 - 144,223,429 (-)NCBI
Rnor_5.07141,923,377 - 142,016,052 (-)NCBI
RGSC_v3.47141,283,187 - 141,372,637 (-)RGD
Celera7130,091,319 - 130,178,104 (-)RGD
Sequence:
RefSeq Acc Id: XM_006242396   ⟹   XP_006242458
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.27133,664,291 - 133,750,902 (-)NCBI
Rnor_6.07144,131,382 - 144,223,463 (-)NCBI
Rnor_5.07141,923,377 - 142,016,052 (-)NCBI
Sequence:
RefSeq Acc Id: XM_008765747   ⟹   XP_008763969
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.27133,660,491 - 133,750,870 (-)NCBI
Rnor_6.07144,131,382 - 144,223,463 (-)NCBI
Sequence:
Protein Sequences
Protein RefSeqs NP_001101585 (Get FASTA)   NCBI Sequence Viewer  
  XP_006242458 (Get FASTA)   NCBI Sequence Viewer  
  XP_008763969 (Get FASTA)   NCBI Sequence Viewer  
GenBank Protein AAI58606 (Get FASTA)   NCBI Sequence Viewer  
  EDL86819 (Get FASTA)   NCBI Sequence Viewer  
  EDL86820 (Get FASTA)   NCBI Sequence Viewer  
Reference Sequences
RefSeq Acc Id: NP_001101585   ⟸   NM_001108115
- UniProtKB: G3V7X9 (UniProtKB/TrEMBL)
- Sequence:
RefSeq Acc Id: XP_006242458   ⟸   XM_006242396
- Peptide Label: isoform X1
- UniProtKB: B0BMY0 (UniProtKB/TrEMBL)
- Sequence:
RefSeq Acc Id: XP_008763969   ⟸   XM_008765747
- Peptide Label: isoform X1
- UniProtKB: B0BMY0 (UniProtKB/TrEMBL)
- Sequence:
RefSeq Acc Id: ENSRNOP00000020527   ⟸   ENSRNOT00000020527
Protein Domains
bZIP   C2H2-type

Transcriptome

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

Promoters
RGD ID:13695705
Promoter ID:EPDNEW_R6230
Type:multiple initiation site
Name:Atf7_1
Description:activating transcription factor 7
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_6.07144,223,461 - 144,223,521EPDNEW

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)
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
MNS/Gib (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
MR/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
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:1304940 AgrOrtholog
Ensembl Genes ENSRNOG00000015269 Ensembl, ENTREZGENE, UniProtKB/TrEMBL
Ensembl Protein ENSRNOP00000020527 ENTREZGENE, UniProtKB/TrEMBL
Ensembl Transcript ENSRNOT00000020527 ENTREZGENE, UniProtKB/TrEMBL
IMAGE_CLONE IMAGE:7135404 IMAGE-MGC_LOAD
InterPro bZIP UniProtKB/TrEMBL
  TF_cAMP-dep UniProtKB/TrEMBL
  Znf_C2H2/integrase_DNA-bd UniProtKB/TrEMBL
  Znf_C2H2_sf UniProtKB/TrEMBL
KEGG Report rno:315333 UniProtKB/TrEMBL
MGC_CLONE MGC:187467 IMAGE-MGC_LOAD
NCBI Gene 315333 ENTREZGENE
Pfam bZIP_1 UniProtKB/TrEMBL
PhenoGen Atf7 PhenoGen
PIRSF ATF2_CRE-BP1 UniProtKB/TrEMBL
PROSITE BZIP UniProtKB/TrEMBL
  BZIP_BASIC UniProtKB/TrEMBL
  ZINC_FINGER_C2H2_1 UniProtKB/TrEMBL
  ZINC_FINGER_C2H2_2 UniProtKB/TrEMBL
SMART BRLZ UniProtKB/TrEMBL
  ZnF_C2H2 UniProtKB/TrEMBL
Superfamily-SCOP SSF57667 UniProtKB/TrEMBL
UniProt B0BMY0 ENTREZGENE, UniProtKB/TrEMBL
  G3V7X9 ENTREZGENE, UniProtKB/TrEMBL


Nomenclature History
Date Current Symbol Current Name Previous Symbol Previous Name Description Reference Status
2008-04-30 Atf7  activating transcription factor 7   Atf7_predicted  activating transcription factor 7 (predicted)  'predicted' is removed 2292626 APPROVED
2005-01-12 Atf7_predicted  activating transcription factor 7 (predicted)      Symbol and Name status set to approved 70820 APPROVED