Ahdc1 (AT hook, DNA binding motif, containing 1) - Rat Genome Database

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Gene: Ahdc1 (AT hook, DNA binding motif, containing 1) Rattus norvegicus
Analyze
Symbol: Ahdc1
Name: AT hook, DNA binding motif, containing 1
RGD ID: 1310031
Description: Human ortholog(s) of this gene implicated in Xia-Gibbs Syndrome. Orthologous to human AHDC1 (AT-hook DNA binding motif containing 1); INTERACTS WITH 1,2-dimethylhydrazine; 2,3,7,8-tetrachlorodibenzodioxine; 2,6-dinitrotoluene.
Type: protein-coding
RefSeq Status: PROVISIONAL
Previously known as: A.T hook DNA-binding motif-containing protein 1; AT-hook DNA-binding motif-containing protein 1; LOC362617; RGD1310031; similar to hypothetical protein MGC29331
RGD Orthologs
Human
Mouse
Chinchilla
Bonobo
Dog
Squirrel
Pig
Green Monkey
Naked Mole-Rat
Alliance Genes
More Info more info ...
Latest Assembly: mRatBN7.2 - mRatBN7.2 Assembly
Position:
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
mRatBN7.25145,228,228 - 145,294,170 (+)NCBImRatBN7.2
mRatBN7.2 Ensembl5145,228,227 - 145,294,145 (+)Ensembl
Rnor_6.05151,209,894 - 151,277,192 (+)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl5151,211,342 - 151,277,165 (+)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.05154,878,231 - 154,944,337 (+)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.45152,034,725 - 152,101,966 (-)NCBIRGSC3.4rn4RGSC3.4
RGSC_v3.15152,045,178 - 152,060,307 (-)NCBI
Celera5143,693,243 - 143,715,931 (+)NCBICelera
Cytogenetic Map5q36NCBI
JBrowse: View Region in Genome Browser (JBrowse)
Model


Gene Ontology Annotations     Click to see Annotation Detail View

Molecular Function

References

Additional References at PubMed
PMID:15632090  


Genomics

Comparative Map Data
Ahdc1
(Rattus norvegicus - Norway rat)
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
mRatBN7.25145,228,228 - 145,294,170 (+)NCBImRatBN7.2
mRatBN7.2 Ensembl5145,228,227 - 145,294,145 (+)Ensembl
Rnor_6.05151,209,894 - 151,277,192 (+)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl5151,211,342 - 151,277,165 (+)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.05154,878,231 - 154,944,337 (+)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.45152,034,725 - 152,101,966 (-)NCBIRGSC3.4rn4RGSC3.4
RGSC_v3.15152,045,178 - 152,060,307 (-)NCBI
Celera5143,693,243 - 143,715,931 (+)NCBICelera
Cytogenetic Map5q36NCBI
AHDC1
(Homo sapiens - human)
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh38127,534,245 - 27,604,227 (-)NCBIGRCh38GRCh38hg38GRCh38
GRCh38.p13 Ensembl127,534,035 - 27,604,431 (-)EnsemblGRCh38hg38GRCh38
GRCh37127,860,756 - 27,930,655 (-)NCBIGRCh37GRCh37hg19GRCh37
Build 36127,733,343 - 27,802,730 (-)NCBINCBI36hg18NCBI36
Celera126,256,416 - 26,325,804 (-)NCBI
Cytogenetic Map1p36.11-p35.3NCBI
HuRef126,116,832 - 26,186,603 (-)NCBIHuRef
CHM1_1127,976,151 - 28,045,538 (-)NCBICHM1_1
Ahdc1
(Mus musculus - house mouse)
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm394132,738,576 - 132,805,421 (+)NCBIGRCm39mm39
GRCm39 Ensembl4132,738,571 - 132,805,421 (+)Ensembl
GRCm384133,011,265 - 133,078,110 (+)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl4133,011,260 - 133,078,110 (+)EnsemblGRCm38mm10GRCm38
MGSCv374132,567,421 - 132,634,025 (+)NCBIGRCm37mm9NCBIm37
MGSCv364132,283,582 - 132,349,318 (+)NCBImm8
Celera4131,174,218 - 131,241,080 (+)NCBICelera
Cytogenetic Map4D2.3NCBI
Ahdc1
(Chinchilla lanigera - long-tailed chinchilla)
Chinchilla AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChiLan1.0 EnsemblNW_0049554526,767,266 - 6,832,868 (-)EnsemblChiLan1.0
ChiLan1.0NW_0049554526,767,250 - 6,832,989 (-)NCBIChiLan1.0ChiLan1.0
AHDC1
(Pan paniscus - bonobo/pygmy chimpanzee)
Bonobo AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
PanPan1.1127,840,765 - 27,910,728 (-)NCBIpanpan1.1PanPan1.1panPan2
Mhudiblu_PPA_v0126,794,800 - 26,864,669 (-)NCBIMhudiblu_PPA_v0panPan3
AHDC1
(Canis lupus familiaris - dog)
Dog AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
CanFam3.1272,711,626 - 72,762,802 (+)NCBICanFam3.1CanFam3.1canFam3CanFam3.1
CanFam3.1 Ensembl272,747,701 - 72,752,605 (+)EnsemblCanFam3.1canFam3CanFam3.1
Dog10K_Boxer_Tasha269,303,131 - 69,340,344 (+)NCBI
ROS_Cfam_1.0273,287,205 - 73,324,243 (+)NCBI
UMICH_Zoey_3.1270,113,571 - 70,150,760 (+)NCBI
UNSW_CanFamBas_1.0271,124,865 - 71,162,066 (+)NCBI
UU_Cfam_GSD_1.0272,132,417 - 72,158,579 (+)NCBI
Ahdc1
(Ictidomys tridecemlineatus - thirteen-lined ground squirrel)
Squirrel AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HiC_Itri_2NW_02440505845,999,853 - 46,052,111 (-)NCBI
SpeTri2.0NW_00493647411,824,692 - 11,846,355 (-)NCBISpeTri2.0SpeTri2.0SpeTri2.0
AHDC1
(Sus scrofa - pig)
Pig AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Sscrofa11.1684,735,253 - 84,774,554 (-)NCBISscrofa11.1Sscrofa11.1susScr11Sscrofa11.1
Sscrofa10.2678,330,133 - 78,339,972 (+)NCBISscrofa10.2Sscrofa10.2susScr3
AHDC1
(Chlorocebus sabaeus - green monkey)
Green Monkey AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChlSab1.120105,187,943 - 105,257,767 (+)NCBIChlSab1.1chlSab2
ChlSab1.1 Ensembl20105,239,747 - 105,244,558 (+)EnsemblChlSab1.1chlSab2
Vero_WHO_p1.0NW_02366603311,206,686 - 11,277,149 (-)NCBIVero_WHO_p1.0
Ahdc1
(Heterocephalus glaber - naked mole-rat)
Naked Mole-rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HetGla 1.0NW_00462476411,416,674 - 11,482,622 (-)NCBIHetGla_female_1.0hetGla2

Position Markers
BE120316  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.25145,257,969 - 145,258,152 (+)MAPPERmRatBN7.2
Rnor_6.05151,241,004 - 151,241,186NCBIRnor6.0
Rnor_5.05154,908,149 - 154,908,331UniSTSRnor5.0
RGSC_v3.45152,070,757 - 152,070,939UniSTSRGSC3.4
Celera5143,679,742 - 143,679,924UniSTS
RH 3.4 Map5987.5UniSTS
Cytogenetic Map5q36UniSTS


QTLs in Region (mRatBN7.2)
The following QTLs overlap with this region.    Full Report CSV TAB Printer Gviewer
RGD IDSymbolNameLODP ValueTraitSub TraitChrStartStopSpecies
2302369Scl60Serum cholesterol level QTL 603.13blood cholesterol amount (VT:0000180)serum total cholesterol level (CMO:0000363)5143608201161165651Rat
631263Cm24Cardiac mass QTL 243.5heart mass (VT:0007028)heart left ventricle weight to body weight ratio (CMO:0000530)5143799107158428037Rat
61444Strs2Sensitivity to stroke QTL 24.7cerebrum integrity trait (VT:0010549)post-insult time to onset of cerebrovascular lesion (CMO:0002343)5135929696166875058Rat
70156Niddm30Non-insulin dependent diabetes mellitus QTL 303.98blood glucose amount (VT:0000188)blood glucose level area under curve (AUC) (CMO:0000350)5129132447151006154Rat
724525Bp147Blood pressure QTL 1474.30.0001arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)5126424772166875058Rat
1331721Bp210Blood pressure QTL 2103.413arterial blood pressure trait (VT:2000000)blood pressure time series experimental set point of the baroreceptor response (CMO:0002593)5143069996166846814Rat
1298089Scl14Serum cholesterol level QTL 145.80.0004blood cholesterol amount (VT:0000180)plasma total cholesterol level (CMO:0000585)5108845856153845856Rat
631562Apr2Acute phase response QTL 23.7blood murinoglobulin 1 amount (VT:0010597)plasma murinoglobulin 1 level (CMO:0001931)5135927956166875058Rat
1331796Thshl2Thyroid stimulating hormone level QTL 22.3blood thyroid-stimulating hormone amount (VT:0005119)serum thyroid stimulating hormone level (CMO:0001248)597059760147465714Rat
738018Anxrr4Anxiety related response QTL 45.1exploratory behavior trait (VT:0010471)percentage of entries into a discrete space in an experimental apparatus (CMO:0000961)5130130159166875058Rat
631505Bp103Blood pressure QTL 1033.2arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)5132717196165560427Rat
1302790Scl20Serum cholesterol level QTL 206.40.0001blood cholesterol amount (VT:0000180)plasma total cholesterol level (CMO:0000585)582394392166664054Rat
1641920Colcs1Colorectal carcinoma susceptibility QTL 12.990.0055intestine integrity trait (VT:0010554)benign colorectal tumor surface area measurement (CMO:0001799)5121846814166846814Rat
1598819Bp292Blood pressure QTL 2924.3arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)5127798274166875058Rat
1598847Cm62Cardiac mass QTL 623.4heart mass (VT:0007028)heart weight to body weight ratio (CMO:0000074)5108845856153845856Rat
1598861Cm64Cardiac mass QTL 642.9heart mass (VT:0007028)heart weight to body weight ratio (CMO:0000074)5127798274166875058Rat
2293642Bss37Bone structure and strength QTL 374.640.0001femur strength trait (VT:0010010)femur ultimate force (CMO:0001675)5120740824151018848Rat
634349Bp139Blood pressure QTL 1390.001arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)5128924607166875058Rat
1576314Eutr1Estrogen induced uterine response QTL 1uterus integrity trait (VT:0010575)pyometritis severity score (CMO:0002009)52138965166875058Rat
1578766Tcas11Tongue tumor susceptibility QTL 114.12tongue integrity trait (VT:0010553)number of squamous cell tumors of the tongue with diameter greater than 3 mm (CMO:0001950)546711509161317411Rat
1578673Bmd13Bone mineral density QTL 134.9femur mineral mass (VT:0010011)trabecular volumetric bone mineral density (CMO:0001729)5103689353148689353Rat
1300119Bp180Blood pressure QTL 1803.82arterial blood pressure trait (VT:2000000)blood pressure time series experimental set point of the baroreceptor response (CMO:0002593)5144358090157869054Rat
1354598Srn6Serum renin concentration QTL 63.8blood renin amount (VT:0003349)plasma renin activity level (CMO:0000116)569540295151018848Rat
2317056Wbc3White blood cell count QTL 32.510.01leukocyte quantity (VT:0000217)white blood cell count (CMO:0000027)5105999803150999803Rat
1549838Bss4Bone structure and strength QTL 49.2femur strength trait (VT:0010010)femur midshaft polar moment of inertia (CMO:0001669)5106906205151906205Rat
1549845Scl44Serum cholesterol level QTL 446blood cholesterol amount (VT:0000180)serum total cholesterol level (CMO:0000363)540128307148607290Rat
1358187Emca1Estrogen-induced mammary cancer QTL 14.4mammary gland integrity trait (VT:0010552)post-insult time to mammary tumor formation (CMO:0000345)599216724148607142Rat
2313096Bmd78Bone mineral density QTL 783.10.0001tibia mineral mass (VT:1000283)total volumetric bone mineral density (CMO:0001728)5144377876161317411Rat
61393Bp7Blood pressure QTL 74.50.0001arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)560293434161481680Rat
8657050Bw146Body weight QTL 14619.840.001body mass (VT:0001259)body weight gain (CMO:0000420)5108938288153938288Rat
8694441Bw169Body weight QTL 16917.610.001retroperitoneal fat pad mass (VT:0010430)retroperitoneal fat pad weight to body weight ratio (CMO:0000635)5111416838156416838Rat
7794791Mcs33Mammary carcinoma susceptibility QTL 331.93mammary gland integrity trait (VT:0010552)mammary tumor incidence/prevalence measurement (CMO:0000946)5131345754166875058Rat
8552908Pigfal4Plasma insulin-like growth factor 1 level QTL 46.6blood insulin-like growth factor amount (VT:0010479)plasma insulin-like growth factor 1 level (CMO:0001299)5128506074166875058Rat
8694198Abfw3Abdominal fat weight QTL 316.130.001visceral adipose mass (VT:0010063)abdominal fat pad weight to body weight ratio (CMO:0000095)5111416838156416838Rat
8694389Bw160Body weight QTL 1606.170.001body lean mass (VT:0010483)lean tissue morphological measurement (CMO:0002184)5111416838156416838Rat
8552960Pigfal15Plasma insulin-like growth factor 1 level QTL 15blood insulin-like growth factor amount (VT:0010479)plasma insulin-like growth factor 1 level (CMO:0001299)5111416838156416838Rat
8694169Bw148Body weight QTL 14850.001body mass (VT:0001259)body weight gain (CMO:0000420)5128506074166875058Rat
7207488Bss110Bone structure and strength QTL 18.4femur strength trait (VT:0010010)femur stiffness (CMO:0001674)5106906205151906205Rat
7207491Bss112Bone structure and strength QTL 1127femur morphology trait (VT:0000559)femur midshaft cortical cross-sectional area (CMO:0001663)5106906205151906205Rat
7207481Bss106Bone structure and strength QTL 1067.9femur strength trait (VT:0010010)femur ultimate force (CMO:0001675)5106906205151906205Rat
7207486Bss109Bone structure and strength QTL 109femur strength trait (VT:0010010)femur total energy absorbed before break (CMO:0001677)5106906205151906205Rat
10053720Scort26Serum corticosterone level QTL 262.060.0147blood corticosterone amount (VT:0005345)plasma corticosterone level (CMO:0001173)5124965598166875058Rat

miRNA Target Status

Predicted Target Of
Summary Value
Count of predictions:221
Count of miRNA genes:153
Interacting mature miRNAs:169
Transcripts:ENSRNOT00000067939
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 34 9 4 8 4 1 1 66 24 41 8 1
Low 3 9 48 37 11 37 7 10 8 11 3 7
Below cutoff

Sequence

Nucleotide Sequences
RefSeq Transcripts NM_001134956 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_008764151 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_008764152 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_008764153 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_008764154 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_017593517 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_017593518 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_017593519 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_017593520 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_039110393 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_039110394 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_039110395 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_039110396 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_039110397 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_039110398 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_039110399 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_039110400 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
GenBank Nucleotide CH473968 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  JACYVU010000162 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles

Reference Sequences
RefSeq Acc Id: ENSRNOT00000067939   ⟹   ENSRNOP00000059351
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2 Ensembl5145,228,227 - 145,294,145 (+)Ensembl
Rnor_6.0 Ensembl5151,211,342 - 151,277,165 (+)Ensembl
RefSeq Acc Id: ENSRNOT00000096702   ⟹   ENSRNOP00000091641
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2 Ensembl5145,256,165 - 145,284,214 (+)Ensembl
RefSeq Acc Id: ENSRNOT00000097308   ⟹   ENSRNOP00000084516
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2 Ensembl5145,256,165 - 145,294,145 (+)Ensembl
RefSeq Acc Id: ENSRNOT00000100034   ⟹   ENSRNOP00000096957
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2 Ensembl5145,228,259 - 145,294,145 (+)Ensembl
RefSeq Acc Id: ENSRNOT00000111674   ⟹   ENSRNOP00000092875
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2 Ensembl5145,228,227 - 145,294,145 (+)Ensembl
RefSeq Acc Id: NM_001134956   ⟹   NP_001128428
RefSeq Status: PROVISIONAL
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.25145,228,925 - 145,294,170 (+)NCBI
Rnor_6.05151,211,342 - 151,277,189 (+)NCBI
Rnor_5.05154,878,231 - 154,944,337 (+)NCBI
RGSC_v3.45152,034,725 - 152,101,966 (-)RGD
Celera5143,693,243 - 143,715,931 (+)RGD
Sequence:
RefSeq Acc Id: XM_008764151   ⟹   XP_008762373
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.25145,228,388 - 145,294,050 (+)NCBI
Rnor_6.05151,210,927 - 151,277,192 (+)NCBI
Sequence:
RefSeq Acc Id: XM_008764152   ⟹   XP_008762374
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.25145,228,388 - 145,294,050 (+)NCBI
Rnor_6.05151,210,927 - 151,277,192 (+)NCBI
Sequence:
RefSeq Acc Id: XM_017593517   ⟹   XP_017449006
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.25145,228,388 - 145,294,050 (+)NCBI
Rnor_6.05151,210,927 - 151,277,192 (+)NCBI
Sequence:
RefSeq Acc Id: XM_039110393   ⟹   XP_038966321
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.25145,228,228 - 145,294,050 (+)NCBI
RefSeq Acc Id: XM_039110394   ⟹   XP_038966322
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.25145,228,529 - 145,284,091 (+)NCBI
RefSeq Acc Id: XM_039110395   ⟹   XP_038966323
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.25145,228,387 - 145,294,050 (+)NCBI
RefSeq Acc Id: XM_039110396   ⟹   XP_038966324
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.25145,256,459 - 145,293,947 (+)NCBI
RefSeq Acc Id: XM_039110397   ⟹   XP_038966325
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.25145,228,388 - 145,294,050 (+)NCBI
RefSeq Acc Id: XM_039110398   ⟹   XP_038966326
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.25145,228,230 - 145,294,050 (+)NCBI
RefSeq Acc Id: XM_039110399   ⟹   XP_038966327
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.25145,228,388 - 145,294,050 (+)NCBI
RefSeq Acc Id: XM_039110400   ⟹   XP_038966328
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.25145,228,388 - 145,294,050 (+)NCBI
Reference Sequences
RefSeq Acc Id: NP_001128428   ⟸   NM_001134956
- UniProtKB: D4A5R3 (UniProtKB/TrEMBL)
- Sequence:
RefSeq Acc Id: XP_008762373   ⟸   XM_008764151
- Peptide Label: isoform X1
- UniProtKB: D4A5R3 (UniProtKB/TrEMBL)
- Sequence:
RefSeq Acc Id: XP_008762374   ⟸   XM_008764152
- Peptide Label: isoform X1
- UniProtKB: D4A5R3 (UniProtKB/TrEMBL)
- Sequence:
RefSeq Acc Id: XP_017449006   ⟸   XM_017593517
- Peptide Label: isoform X1
- UniProtKB: D4A5R3 (UniProtKB/TrEMBL)
- Sequence:
RefSeq Acc Id: ENSRNOP00000059351   ⟸   ENSRNOT00000067939
RefSeq Acc Id: XP_038966321   ⟸   XM_039110393
- Peptide Label: isoform X1
RefSeq Acc Id: XP_038966326   ⟸   XM_039110398
- Peptide Label: isoform X1
RefSeq Acc Id: XP_038966323   ⟸   XM_039110395
- Peptide Label: isoform X1
RefSeq Acc Id: XP_038966325   ⟸   XM_039110397
- Peptide Label: isoform X1
RefSeq Acc Id: XP_038966328   ⟸   XM_039110400
- Peptide Label: isoform X1
RefSeq Acc Id: XP_038966327   ⟸   XM_039110399
- Peptide Label: isoform X1
RefSeq Acc Id: XP_038966322   ⟸   XM_039110394
- Peptide Label: isoform X1
RefSeq Acc Id: XP_038966324   ⟸   XM_039110396
- Peptide Label: isoform X1
RefSeq Acc Id: ENSRNOP00000084516   ⟸   ENSRNOT00000097308
RefSeq Acc Id: ENSRNOP00000092875   ⟸   ENSRNOT00000111674
RefSeq Acc Id: ENSRNOP00000091641   ⟸   ENSRNOT00000096702
RefSeq Acc Id: ENSRNOP00000096957   ⟸   ENSRNOT00000100034
Protein Domains
DUF4683

Protein Structures
Name Modeler Protein Id AA Range Protein Structure
AF-D4A5R3-F1-model_v2 AlphaFold D4A5R3 1-1592 view protein structure

Transcriptome

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


Strain Variation

Strain Sequence Variants (MRatBN7.2)
ACI/EurMcwi (2019)
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Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
ACI/N (2020)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: NIH
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
BN-Lx/CubMcwi (2019)
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Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
BN/NHsdMcwi (2019)
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Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
BN/NHsdMcwi (2020)
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Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
BN/SsN (2020)
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Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: NIH
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
BUF/N (2020)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: NIH
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
BXH2/CubMcwi (2020)
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Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
BXH3/CubMcwi (2020)
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Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
DA/OlaHsd (2019)
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Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Envigo
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
F344/DuCrl (2019)
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Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Charles River
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
F344/N (2020)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: NIH
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
F344/NCrl (2019)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Charles River
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
F344/Stm (2019)
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Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Japan
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
FHH/EurMcwi (2019)
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Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
FXLE16/Stm (2020)
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Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Japan
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
FXLE18/Stm (2020)
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Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Japan
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
GK/FarMcwi (2019)
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Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
HXB10/IpcvMcwi (2019)
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Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
HXB2/IpcvMcwi (2019)
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Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
HXB20/IpcvMcwi (2020)
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Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
HXB31/IpcvMcwi (2019)
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Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
HXB4/IpcvMcwi (2020)
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Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
LE/Stm (2019)
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Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
LEW/Crl (2019)
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Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Charles River
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
LEXF10A/StmMcwi (2020)
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Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
LEXF11/Stm (2020)
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Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Japan
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
LEXF1A/Stm (2019)
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Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Japan
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
LEXF1C/Stm (2019)
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Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Japan
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
LEXF2B/Stm (2019)
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Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Japan
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
LEXF3/Stm (2020)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Japan
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
LEXF4/Stm (2020)
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Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Japan
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
LH/MavRrrcAek (2020)
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Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Kwitek
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
LL/MavRrrcAek (2020)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Kwitek
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
LN/MavRrrcAek (2020)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Kwitek
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
M520/N (2020)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: NIH
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
M520/NRrrcMcwi (2019)
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Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
MR/N (2020)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: NIH
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
MWF/Hsd (2019)
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Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
PVG/Seac (2019)
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Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Japan
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
SHR/OlalpcvMcwi (2019)
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Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
SHRSP/A3NCrl (2019)
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Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Charles River
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
SR/JrHsd (2020)
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Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Envigo
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
SS/JrHsdMcwi (2019)
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Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
WAG/RijCrl (2020)
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Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Charles River
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
WKY/N (2020)
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Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: NIH
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
WKY/NCrl (2019)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Charles River
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
WN/N (2020)
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Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: NIH
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
Damaging Variants


Assembly: RGSC_v3.4

Chromosome Start Pos End Pos Reference Nucleotide Variant Nucleotide Variant Type Strain
5 152045972 152045973 G T snv SS/JrHsdMcwi (MCW)
5 152045973 152045974 G C snv SS/JrHsdMcwi (MCW)


Additional Information

Database Acc Id Source(s)
AGR Gene RGD:1310031 AgrOrtholog
BioCyc Gene G2FUF-39647 BioCyc
Ensembl Genes ENSRNOG00000042855 Ensembl, ENTREZGENE, UniProtKB/TrEMBL
Ensembl Protein ENSRNOP00000059351 ENTREZGENE, UniProtKB/TrEMBL
  ENSRNOP00000084516 ENTREZGENE
  ENSRNOP00000092875 ENTREZGENE
  ENSRNOP00000096957 ENTREZGENE
Ensembl Transcript ENSRNOT00000067939 ENTREZGENE, UniProtKB/TrEMBL
  ENSRNOT00000097308 ENTREZGENE
  ENSRNOT00000100034 ENTREZGENE
  ENSRNOT00000111674 ENTREZGENE
InterPro AHDC1 UniProtKB/TrEMBL
  DUF4683 UniProtKB/TrEMBL
KEGG Report rno:362617 UniProtKB/TrEMBL
NCBI Gene 362617 ENTREZGENE
PANTHER PTHR15617 UniProtKB/TrEMBL
Pfam DUF4683 UniProtKB/TrEMBL
PhenoGen Ahdc1 PhenoGen
UniProt D4A5R3 ENTREZGENE, UniProtKB/TrEMBL


Nomenclature History
Date Current Symbol Current Name Previous Symbol Previous Name Description Reference Status
2008-04-30 Ahdc1  AT hook, DNA binding motif, containing 1   Ahdc1_predicted  AT hook, DNA binding motif, containing 1 (predicted)  'predicted' is removed 2292626 APPROVED
2006-03-30 Ahdc1_predicted  AT hook, DNA binding motif, containing 1 (predicted)  RGD1310031_predicted  similar to hypothetical protein MGC29331 (predicted)  Symbol and Name updated 1299863 APPROVED
2005-01-20 RGD1310031_predicted  similar to hypothetical protein MGC29331 (predicted)  LOC362617_predicted    Symbol and Name status set to approved 1331353 APPROVED
2005-01-12 LOC362617_predicted  similar to hypothetical protein MGC29331 (predicted)      Symbol and Name status set to provisional 70820 PROVISIONAL