Amdhd1 (amidohydrolase domain containing 1) - Rat Genome Database

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Gene: Amdhd1 (amidohydrolase domain containing 1) Rattus norvegicus
Analyze
Symbol: Amdhd1
Name: amidohydrolase domain containing 1
RGD ID: 1308879
Description: Predicted to enable imidazolonepropionase activity. Predicted to be involved in histidine catabolic process. Predicted to be located in cytoplasm. Orthologous to human AMDHD1 (amidohydrolase domain containing 1); PARTICIPATES IN histidine metabolic pathway; histidinemia pathway; INTERACTS WITH (+)-schisandrin B; 1-naphthyl isothiocyanate; 17beta-estradiol.
Type: protein-coding
RefSeq Status: PROVISIONAL
Previously known as: LOC299735; probable imidazolonepropionase; RGD1308879; similar to hypothetical protein MGC35366
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
GRCr8729,930,966 - 29,946,199 (-)NCBIGRCr8
mRatBN7.2728,043,923 - 28,059,156 (-)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl728,043,716 - 28,059,156 (-)EnsemblmRatBN7.2 Ensembl
UTH_Rnor_SHR_Utx730,034,284 - 30,049,520 (-)NCBIRnor_SHRUTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.0732,196,501 - 32,211,738 (-)NCBIRnor_SHRSPUTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.0731,971,373 - 31,986,628 (-)NCBIRnor_WKYUTH_Rnor_WKY_Bbb_1.0
Rnor_6.0734,362,635 - 34,406,282 (-)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl734,361,633 - 34,406,318 (-)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.0734,427,627 - 34,471,274 (-)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.4730,557,367 - 30,572,599 (-)NCBIRGSC3.4RGSC_v3.4rn4RGSC3.4
RGSC_v3.1730,577,176 - 30,592,879 (-)NCBI
Celera725,143,208 - 25,186,848 (-)NCBICelera
Cytogenetic Map7q13NCBI
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
cytoplasm  (IEA)

Molecular Function

Molecular Pathway Annotations     Click to see Annotation Detail View
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. KEGG Annotation Import Pipeline Pipeline to import KEGG annotations from KEGG into RGD
3. SMPDB Annotation Import Pipeline Pipeline to import SMPDB annotations from SMPDB into RGD
4. GOA pipeline RGD automated data pipeline
5. ClinVar Automated Import and Annotation Pipeline RGD automated import pipeline for ClinVar variants, variant-to-disease annotations and gene-to-disease annotations
6. Data Import for Chemical-Gene Interactions RGD automated import pipeline for gene-chemical interactions

Genomics

Comparative Map Data
Amdhd1
(Rattus norvegicus - Norway rat)
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCr8729,930,966 - 29,946,199 (-)NCBIGRCr8
mRatBN7.2728,043,923 - 28,059,156 (-)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl728,043,716 - 28,059,156 (-)EnsemblmRatBN7.2 Ensembl
UTH_Rnor_SHR_Utx730,034,284 - 30,049,520 (-)NCBIRnor_SHRUTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.0732,196,501 - 32,211,738 (-)NCBIRnor_SHRSPUTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.0731,971,373 - 31,986,628 (-)NCBIRnor_WKYUTH_Rnor_WKY_Bbb_1.0
Rnor_6.0734,362,635 - 34,406,282 (-)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl734,361,633 - 34,406,318 (-)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.0734,427,627 - 34,471,274 (-)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.4730,557,367 - 30,572,599 (-)NCBIRGSC3.4RGSC_v3.4rn4RGSC3.4
RGSC_v3.1730,577,176 - 30,592,879 (-)NCBI
Celera725,143,208 - 25,186,848 (-)NCBICelera
Cytogenetic Map7q13NCBI
AMDHD1
(Homo sapiens - human)
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh381295,943,331 - 95,968,720 (+)NCBIGRCh38GRCh38hg38GRCh38
GRCh38.p14 Ensembl1295,943,331 - 95,968,720 (+)EnsemblGRCh38hg38GRCh38
GRCh371296,337,109 - 96,362,498 (+)NCBIGRCh37GRCh37hg19GRCh37
Build 361294,861,202 - 94,886,500 (+)NCBINCBI36Build 36hg18NCBI36
Celera1296,005,967 - 96,028,689 (+)NCBICelera
Cytogenetic Map12q23.1NCBI
HuRef1293,401,507 - 93,424,233 (+)NCBIHuRef
CHM1_11296,302,439 - 96,327,344 (+)NCBICHM1_1
T2T-CHM13v2.01295,919,901 - 95,942,718 (+)NCBIT2T-CHM13v2.0
Amdhd1
(Mus musculus - house mouse)
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm391093,359,200 - 93,375,973 (-)NCBIGRCm39GRCm39mm39
GRCm39 Ensembl1093,359,200 - 93,375,895 (-)EnsemblGRCm39 Ensembl
GRCm381093,523,338 - 93,540,111 (-)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl1093,523,338 - 93,540,033 (-)EnsemblGRCm38mm10GRCm38
MGSCv371092,986,083 - 93,002,778 (-)NCBIGRCm37MGSCv37mm9NCBIm37
MGSCv361092,953,137 - 92,969,832 (-)NCBIMGSCv36mm8
Celera1095,509,267 - 95,526,553 (-)NCBICelera
Cytogenetic Map10C2NCBI
cM Map1048.54NCBI
Amdhd1
(Chinchilla lanigera - long-tailed chinchilla)
Chinchilla AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChiLan1.0 EnsemblNW_00495540532,283,413 - 32,308,230 (+)EnsemblChiLan1.0
ChiLan1.0NW_00495540532,281,726 - 32,308,230 (+)NCBIChiLan1.0ChiLan1.0
AMDHD1
(Pan paniscus - bonobo/pygmy chimpanzee)
Bonobo AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
NHGRI_mPanPan1-v210104,016,375 - 104,039,599 (+)NCBINHGRI_mPanPan1-v2
NHGRI_mPanPan112104,012,765 - 104,035,989 (+)NCBINHGRI_mPanPan1
Mhudiblu_PPA_v01293,534,881 - 93,557,762 (+)NCBIMhudiblu_PPA_v0Mhudiblu_PPA_v0panPan3
PanPan1.11296,923,879 - 96,946,507 (+)NCBIpanpan1.1PanPan1.1panPan2
PanPan1.1 Ensembl1296,923,879 - 96,946,507 (+)Ensemblpanpan1.1panPan2
AMDHD1
(Canis lupus familiaris - dog)
Dog AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
CanFam3.11535,741,190 - 35,761,848 (+)NCBICanFam3.1CanFam3.1canFam3CanFam3.1
CanFam3.1 Ensembl1535,692,161 - 35,760,978 (+)EnsemblCanFam3.1canFam3CanFam3.1
Dog10K_Boxer_Tasha1536,132,469 - 36,148,396 (+)NCBIDog10K_Boxer_Tasha
ROS_Cfam_1.01536,411,148 - 36,426,868 (+)NCBIROS_Cfam_1.0
ROS_Cfam_1.0 Ensembl1536,410,952 - 36,427,134 (+)EnsemblROS_Cfam_1.0 Ensembl
UMICH_Zoey_3.11535,684,044 - 35,699,752 (+)NCBIUMICH_Zoey_3.1
UNSW_CanFamBas_1.01535,778,577 - 35,794,280 (+)NCBIUNSW_CanFamBas_1.0
UU_Cfam_GSD_1.01536,041,752 - 36,057,471 (+)NCBIUU_Cfam_GSD_1.0
Amdhd1
(Ictidomys tridecemlineatus - thirteen-lined ground squirrel)
Squirrel AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HiC_Itri_2NW_02440494524,185,003 - 24,201,632 (-)NCBIHiC_Itri_2
SpeTri2.0 EnsemblNW_00493650712,033,797 - 12,050,118 (+)EnsemblSpeTri2.0SpeTri2.0 Ensembl
SpeTri2.0NW_00493650712,033,804 - 12,049,210 (+)NCBISpeTri2.0SpeTri2.0SpeTri2.0
AMDHD1
(Sus scrofa - pig)
Pig AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Sscrofa11.1 Ensembl587,553,022 - 87,569,305 (-)EnsemblSscrofa11.1susScr11Sscrofa11.1
Sscrofa11.1587,551,887 - 87,569,271 (-)NCBISscrofa11.1Sscrofa11.1susScr11Sscrofa11.1
Sscrofa10.2591,755,963 - 91,765,895 (-)NCBISscrofa10.2Sscrofa10.2susScr3
AMDHD1
(Chlorocebus sabaeus - green monkey)
Green Monkey AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChlSab1.11191,319,330 - 91,341,466 (+)NCBIChlSab1.1ChlSab1.1chlSab2
ChlSab1.1 Ensembl1191,319,409 - 91,341,559 (+)EnsemblChlSab1.1ChlSab1.1 EnsemblchlSab2
Vero_WHO_p1.0NW_023666037153,787,157 - 153,810,144 (-)NCBIVero_WHO_p1.0Vero_WHO_p1.0
Amdhd1
(Heterocephalus glaber - naked mole-rat)
Naked Mole-Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HetGla_female_1.0 EnsemblNW_00462475011,352,368 - 11,377,694 (-)EnsemblHetGla_female_1.0HetGla_female_1.0 EnsemblhetGla2
HetGla 1.0NW_00462475011,352,368 - 11,377,329 (-)NCBIHetGla_female_1.0HetGla 1.0hetGla2

Variants

.
Variants in Amdhd1
90 total Variants
miRNA Target Status

Predicted Target Of
Summary Value
Count of predictions:35
Count of miRNA genes:28
Interacting mature miRNAs:32
Transcripts:ENSRNOT00000007331
Prediction methods:Miranda, Rnahybrid, Targetscan
Result types:miRGate_prediction

The detailed report is available here: Full Report CSV TAB Printer

miRNA Target Status data imported from miRGate (http://mirgate.bioinfo.cnio.es/).
For more information about miRGate, see PMID:25858286 or access the full paper here.


QTLs in Region (mRatBN7.2)
The following QTLs overlap with this region.    Full Report CSV TAB Printer Gviewer
RGD IDSymbolNameLODP ValueTraitSub TraitChrStartStopSpecies
7411566Bw136Body weight QTL 13610.40.001body mass (VT:0001259)body weight gain (CMO:0000420)7131962314Rat
9590142Scort5Serum corticosterone level QTL 524.40.001blood corticosterone amount (VT:0005345)plasma corticosterone level (CMO:0001173)7131962314Rat
724560Plsm3Polydactyly-luxate syndrome (PLS) morphotypes QTL 30.0003tibia length (VT:0004357)tibia length (CMO:0000450)7134000259Rat
2317047Wbc4White blood cell count QTL 40.01leukocyte quantity (VT:0000217)white blood cell count (CMO:0000027)7135342956Rat
61410Bw19Body weight QTL 196.20.001body mass (VT:0001259)body weight (CMO:0000012)7144782185Rat
631503Bp102Blood pressure QTL 1021.9arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)7144822433Rat
634336Anxrr17Anxiety related response QTL 173.66locomotor behavior trait (VT:0001392)number of entries into a discrete space in an experimental apparatus (CMO:0000960)7924703115097879Rat
10755438Coatc9Coat color QTL 90coat/hair pigmentation trait (VT:0010463)pigmented ventral coat/hair area to total ventral coat/hair area ratio (CMO:0001812)7352928048529280Rat
9590102Sffal5Serum free fatty acids level QTL 58.620.001blood free fatty acid amount (VT:0001553)plasma free fatty acids level (CMO:0000546)7532901950329019Rat
10755440Coatc10Coat color QTL 100coat/hair pigmentation trait (VT:0010463)pigmented ventral coat/hair area to total ventral coat/hair area ratio (CMO:0001812)7749649952496499Rat
10059592Kidm45Kidney mass QTL 453.950.025kidney mass (VT:0002707)both kidneys wet weight to body weight ratio (CMO:0000340)7757398552573985Rat
2298547Neuinf5Neuroinflammation QTL 53.7nervous system integrity trait (VT:0010566)spinal cord Cd74 protein level (CMO:0002131)7946224658265113Rat
1643004Pain2Pain QTL 21mechanical nociception trait (VT:0002734)self mutilation severity score (CMO:0002145)7946224698011544Rat
1578652Bmd15Bone mineral density QTL 155.2femur mineral mass (VT:0010011)trabecular volumetric bone mineral density (CMO:0001729)7986646760460686Rat
738033Anxrr6Anxiety related response QTL 64.1exploratory behavior trait (VT:0010471)percentage of entries into a discrete space in an experimental apparatus (CMO:0000961)71557388960573889Rat
1582260Bw72Body weight QTL 723.20.0043body mass (VT:0001259)body weight (CMO:0000012)71579556538073970Rat
1582261Bw69Body weight QTL 693.20.0048body mass (VT:0001259)body weight (CMO:0000012)71579556538073970Rat
1582262Bw75Body weight QTL 7530.0038body mass (VT:0001259)body weight (CMO:0000012)71579556538073970Rat
2317059Aia15Adjuvant induced arthritis QTL 152.46joint integrity trait (VT:0010548)right rear ankle joint diameter (CMO:0002150)71700459862004598Rat
10755451Coatc11Coat color QTL 110coat/hair pigmentation trait (VT:0010463)pigmented ventral coat/hair area to total ventral coat/hair area ratio (CMO:0001812)71794435762944357Rat
61369Mcs2Mammary carcinoma susceptibility QTL 23.38mammary gland integrity trait (VT:0010552)mammary tumor number (CMO:0000343)71903280735526300Rat
1354637Scl30Serum cholesterol level QTL 303.7blood cholesterol amount (VT:0000180)blood total cholesterol level (CMO:0000051)71965431749753746Rat
1354644Spl4Serum phospholipid level QTL 44.9blood phospholipid amount (VT:0006084)blood phospholipid level (CMO:0001169)71965431749753746Rat
1354639Spl5Serum phospholipid level QTL 53.9blood LDL phospholipid amount (VT:0010505)blood low density lipoprotein phospholipid level (CMO:0001568)71965431752888450Rat
1300132Bp182Blood pressure QTL 1823.49arterial blood pressure trait (VT:2000000)blood pressure time series experimental set point of the baroreceptor response (CMO:0002593)71965431784928080Rat
2290372Gluco33Glucose level QTL 332.71blood glucose amount (VT:0000188)blood glucose level area under curve (AUC) (CMO:0000350)72055570529891047Rat
7411569Bw137Body weight QTL 1370.001body mass (VT:0001259)body weight gain (CMO:0000420)72192119566921195Rat
1641885Alcrsp9Alcohol response QTL 9alcohol metabolism trait (VT:0015089)blood ethanol level (CMO:0000535)72409960669099606Rat
1549840Bss5Bone structure and strength QTL 59.8femur strength trait (VT:0010010)femur midshaft polar moment of inertia (CMO:0001669)72475184169751841Rat
70190Mcs6Mammary carcinoma susceptibility QTL 62.29mammary gland integrity trait (VT:0010552)mammary tumor number (CMO:0000343)72673740163902784Rat


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

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 36 36 36
Low 11 5 6 5 7
Below cutoff 7 4 6 2 2 24 16 28 10 2

Sequence


RefSeq Acc Id: ENSRNOT00000007331   ⟹   ENSRNOP00000007331
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2 Ensembl728,043,716 - 28,059,156 (-)Ensembl
Rnor_6.0 Ensembl734,361,633 - 34,406,318 (-)Ensembl
RefSeq Acc Id: NM_001191781   ⟹   NP_001178710
RefSeq Status: PROVISIONAL
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr8729,930,966 - 29,946,199 (-)NCBI
mRatBN7.2728,043,923 - 28,059,156 (-)NCBI
Rnor_6.0734,362,635 - 34,406,282 (-)NCBI
Rnor_5.0734,427,627 - 34,471,274 (-)NCBI
Celera725,143,208 - 25,186,848 (-)NCBI
Sequence:
Protein Sequences
Protein RefSeqs NP_001178710 (Get FASTA)   NCBI Sequence Viewer  
GenBank Protein EDM16910 (Get FASTA)   NCBI Sequence Viewer  
Ensembl Protein ENSRNOP00000007331
  ENSRNOP00000007331.6
RefSeq Acc Id: NP_001178710   ⟸   NM_001191781
- UniProtKB: D4AAV1 (UniProtKB/TrEMBL)
- Sequence:
RefSeq Acc Id: ENSRNOP00000007331   ⟸   ENSRNOT00000007331
Protein Domains
Amidohydrolase-related

Protein Structures
Name Modeler Protein Id AA Range Protein Structure
AF-D4AAV1-F1-model_v2 AlphaFold D4AAV1 1-425 view protein structure

Transcriptome

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

Promoters
RGD ID:13695147
Promoter ID:EPDNEW_R5672
Type:multiple initiation site
Name:Amdhd1_1
Description:amidohydrolase domain containing 1
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_6.0734,406,297 - 34,406,357EPDNEW

Additional Information

Database Acc Id Source(s)
AGR Gene RGD:1308879 AgrOrtholog
BioCyc Gene G2FUF-34388 BioCyc
BioCyc Pathway HISHP-PWY [L-histidine degradation VI] BioCyc
  PWY-5030 [L-histidine degradation III] BioCyc
BioCyc Pathway Image HISHP-PWY BioCyc
  PWY-5030 BioCyc
Ensembl Genes ENSRNOG00000005266 Ensembl, ENTREZGENE, UniProtKB/TrEMBL
Ensembl Transcript ENSRNOT00000007331 ENTREZGENE
  ENSRNOT00000007331.8 UniProtKB/TrEMBL
Gene3D-CATH 2.30.40.10 UniProtKB/TrEMBL
  Metal-dependent hydrolases UniProtKB/TrEMBL
InterPro Amidohydro-rel UniProtKB/TrEMBL
  HutI UniProtKB/TrEMBL
  Metal-dep_hydrolase_composite UniProtKB/TrEMBL
  Metal_Hydrolase UniProtKB/TrEMBL
NCBI Gene 299735 ENTREZGENE
PANTHER IMIDAZOLONEPROPIONASE-RELATED UniProtKB/TrEMBL
  PTHR42752 UniProtKB/TrEMBL
Pfam Amidohydro_1 UniProtKB/TrEMBL
PhenoGen Amdhd1 PhenoGen
RatGTEx ENSRNOG00000005266 RatGTEx
Superfamily-SCOP Metalo_hydrolase UniProtKB/TrEMBL
  SSF51556 UniProtKB/TrEMBL
UniProt D4AAV1 ENTREZGENE, UniProtKB/TrEMBL


Nomenclature History
Date Current Symbol Current Name Previous Symbol Previous Name Description Reference Status
2008-04-30 Amdhd1  amidohydrolase domain containing 1   Amdhd1_predicted  amidohydrolase domain containing 1 (predicted)  'predicted' is removed 2292626 APPROVED
2006-03-30 Amdhd1_predicted  amidohydrolase domain containing 1 (predicted)  RGD1308879_predicted  similar to hypothetical protein MGC35366 (predicted)  Symbol and Name updated 1299863 APPROVED
2005-01-20 RGD1308879_predicted  similar to hypothetical protein MGC35366 (predicted)  LOC299735_predicted    Symbol and Name status set to approved 1331353 APPROVED
2005-01-12 LOC299735_predicted  similar to hypothetical protein MGC35366 (predicted)      Symbol and Name status set to provisional 70820 PROVISIONAL