Hal (histidine ammonia lyase) - Rat Genome Database

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Advanced Search (OLGA)
Gene: Hal (histidine ammonia lyase) Rattus norvegicus
Analyze
Symbol: Hal
Name: histidine ammonia lyase
RGD ID: 68363
Description: Enables histidine ammonia-lyase activity. Predicted to be involved in L-histidine catabolic process. Predicted to be located in cytoplasm. Human ortholog(s) of this gene implicated in histidinemia. Orthologous to human HAL (histidine ammonia-lyase); PARTICIPATES IN histidine metabolic pathway; histidinemia pathway; INTERACTS WITH (+)-schisandrin B; (R,R,R)-alpha-tocopherol; (S)-colchicine.
Type: protein-coding
RefSeq Status: PROVISIONAL
Previously known as: histidase; histidine ammonia-lyase
RGD Orthologs
Human
Mouse
Chinchilla
Bonobo
Dog
Squirrel
Pig
Green Monkey
Naked Mole-Rat
Black Rat
Alliance Orthologs
More Info more info ...
Latest Assembly: GRCr8 - GRCr8 Assembly
Position:
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCr8729,894,495 - 29,924,744 (+)NCBIGRCr8GRCr8GRCr8
GRCr8 Ensembl729,893,855 - 29,924,744 (+)EnsemblGRCr8
mRatBN7.2728,007,449 - 28,037,701 (+)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl728,006,972 - 28,037,701 (+)EnsemblmRatBN7.2
UTH_Rnor_SHR_Utx729,997,815 - 30,028,068 (+)NCBIUTH_Rnor_SHR_UtxUTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.0732,160,030 - 32,190,285 (+)NCBIUTH_Rnor_SHRSP_BbbUtx_1.0UTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.0731,934,946 - 31,965,140 (+)NCBIUTH_Rnor_WKY_Bbb_1.0UTH_Rnor_WKY_Bbb_1.0
Rnor_6.0734,326,087 - 34,356,413 (+)NCBIRnor_6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl734,326,087 - 34,356,413 (+)Ensemblrn6Rnor6.0
Rnor_5.0734,391,142 - 34,421,405 (+)NCBIRnor_5.0Rnor_5.0rn5
RGSC_v3.4730,520,913 - 30,551,145 (+)NCBIRGSC_v3.4RGSC_v3.4rn4
Celera725,107,998 - 25,136,986 (+)NCBICelera
RGSC_v3.1730,541,183 - 30,571,416 (+)NCBI
RH 3.4 Map7191.8RGD
Cytogenetic Map7q13NCBI
JBrowse:




Disease Annotations     Click to see Annotation Detail View

Gene-Chemical Interaction Annotations     Click to see Annotation Detail View
(+)-schisandrin B  (EXP)
(1->4)-beta-D-glucan  (ISO)
(R,R,R)-alpha-tocopherol  (EXP)
(S)-colchicine  (EXP)
1-naphthyl isothiocyanate  (EXP)
17alpha-ethynylestradiol  (EXP,ISO)
17beta-estradiol  (EXP,ISO)
2,2',4,4',5,5'-hexachlorobiphenyl  (EXP)
2,3,7,8-tetrachlorodibenzodioxine  (EXP,ISO)
2,3,7,8-Tetrachlorodibenzofuran  (ISO)
2,4-dibromophenyl 2,4,5-tribromophenyl ether  (ISO)
2,4-dinitrotoluene  (EXP)
2-hydroxypropanoic acid  (ISO)
3,3',4,4',5-pentachlorobiphenyl  (EXP,ISO)
3,3',5,5'-tetrabromobisphenol A  (EXP)
3-chloropropane-1,2-diol  (EXP)
4,4'-diaminodiphenylmethane  (EXP,ISO)
4,4'-sulfonyldiphenol  (ISO)
4-hydroxyphenyl retinamide  (ISO)
5-methoxy-2-\{[(4-methoxy-3,5-dimethylpyridin-2-yl)methyl]sulfinyl\}-1H-benzimidazole  (EXP)
6-propyl-2-thiouracil  (EXP)
7,12-dimethyltetraphene  (ISO)
acetamide  (EXP)
aflatoxin B1  (ISO)
alendronic acid  (EXP)
all-trans-retinoic acid  (ISO)
amiodarone  (EXP)
amitriptyline  (EXP)
ammonium chloride  (EXP)
antirheumatic drug  (ISO)
aristolochic acid A  (ISO)
arsane  (ISO)
arsenic atom  (ISO)
arsenous acid  (ISO)
atrazine  (EXP)
benzbromarone  (EXP)
benzo[a]pyrene  (ISO)
beta-naphthoflavone  (EXP,ISO)
bis(2-ethylhexyl) phthalate  (ISO)
bisphenol A  (EXP)
cadmium dichloride  (EXP)
calcitriol  (ISO)
cisplatin  (ISO)
clofibrate  (EXP,ISO)
clofibric acid  (EXP)
clomipramine  (EXP)
cobalt dichloride  (EXP)
corn oil  (EXP)
coumarin  (EXP)
cyclosporin A  (ISO)
cyproconazole  (ISO)
dexamethasone  (EXP)
diarsenic trioxide  (ISO)
Dibutyl phosphate  (ISO)
dioxygen  (ISO)
endosulfan  (EXP)
epoxiconazole  (ISO)
ethanol  (EXP)
etoposide  (ISO)
fenofibrate  (EXP)
fipronil  (EXP)
flutamide  (EXP)
fonofos  (ISO)
fumonisin B1  (ISO)
gentamycin  (EXP)
glafenine  (EXP)
gliotoxin  (EXP)
graphite  (EXP)
hexadecanoic acid  (ISO)
imipramine  (EXP)
indole-3-methanol  (EXP)
indometacin  (EXP)
ketoconazole  (EXP)
L-ethionine  (EXP)
leflunomide  (EXP)
metacetamol  (ISO)
metformin  (EXP)
methapyrilene  (EXP)
methoxsalen  (ISO)
mono(2-ethylhexyl) phthalate  (ISO)
N-nitrosodiethylamine  (EXP,ISO)
N-nitrosodimethylamine  (EXP)
N-nitrosomorpholine  (EXP)
nefazodone  (EXP)
nickel atom  (ISO)
nimesulide  (EXP)
okadaic acid  (ISO)
omeprazole  (EXP)
orphenadrine  (EXP)
paracetamol  (EXP,ISO)
parathion  (ISO)
perfluorononanoic acid  (ISO)
perfluorooctane-1-sulfonic acid  (EXP,ISO)
perfluorooctanoic acid  (EXP,ISO)
phenobarbital  (EXP,ISO)
phorbol 13-acetate 12-myristate  (ISO)
pinosylvin  (ISO)
piperonyl butoxide  (EXP)
pirinixic acid  (EXP,ISO)
pregnenolone 16alpha-carbonitrile  (EXP)
propiconazole  (ISO)
quercetin  (ISO)
quinolin-8-ol  (ISO)
rac-lactic acid  (ISO)
raloxifene  (EXP)
S-nitrosoglutathione  (ISO)
sanguinarine  (ISO)
silicon dioxide  (EXP,ISO)
sodium arsenate  (ISO)
sodium dichromate  (EXP)
sotorasib  (ISO)
terbufos  (ISO)
Tesaglitazar  (EXP)
tetrachloromethane  (EXP,ISO)
thioacetamide  (EXP)
titanium dioxide  (ISO)
trametinib  (ISO)
trans-pinosylvin  (ISO)
trichloroethene  (ISO)
triphenyl phosphate  (EXP,ISO)
triptonide  (ISO)
tris(2-butoxyethyl) phosphate  (ISO)
troglitazone  (EXP,ISO)
urethane  (ISO)
valproic acid  (ISO)
vanadyl sulfate  (ISO)
vinclozolin  (EXP)
zinc atom  (ISO)
zinc(0)  (ISO)

Gene Ontology Annotations     Click to see Annotation Detail View

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. Rat ISS GO annotations from GOA human gene data--August 2006 GOA data from the GO Consortium
3. KEGG: Kyoto Encyclopedia of Genes and Genomes KEGG
4. High-density rat radiation hybrid maps containing over 24,000 SSLPs, genes, and ESTs provide a direct link to the rat genome sequence. Kwitek AE, etal., Genome Res. 2004 Apr;14(4):750-7
5. Electronic Transfer of LocusLink and RefSeq Data NCBI rat LocusLink and RefSeq merged data July 26, 2002
6. OMIM Disease Annotation Pipeline OMIM Disease Annotation Pipeline
7. KEGG Annotation Import Pipeline Pipeline to import KEGG annotations from KEGG into RGD
8. SMPDB Annotation Import Pipeline Pipeline to import SMPDB annotations from SMPDB into RGD
9. GOA pipeline RGD automated data pipeline
10. ClinVar Automated Import and Annotation Pipeline RGD automated import pipeline for ClinVar variants, variant-to-disease annotations and gene-to-disease annotations
11. Data Import for Chemical-Gene Interactions RGD automated import pipeline for gene-chemical interactions
12. Isolation of a rat histidase cDNA sequence and expression in Escherichia coli--evidence of extrahepatic/epidermal distribution. Sano H, etal., Eur J Biochem 1997 Nov 15;250(1):212-21.
13. Cloning and expression of rat histidase. Homology to two bacterial histidases and four phenylalanine ammonia-lyases. Taylor RG, etal., J Biol Chem 1990 Oct 25;265(30):18192-9.
14. Tentative Sequence Identification Numbers Tentative Sequence Data IDs. TIGR Gene Index, Rat Data
15. Soy protein, casein, and zein regulate histidase gene expression by modulating serum glucagon. Tovar AR, etal., Am J Physiol Endocrinol Metab 2002 Nov;283(5):E1016-22.
Additional References at PubMed
PMID:7961661   PMID:8486363   PMID:12477932   PMID:15741241   PMID:15806399  


Genomics

Comparative Map Data
Hal
(Rattus norvegicus - Norway rat)
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCr8729,894,495 - 29,924,744 (+)NCBIGRCr8GRCr8GRCr8
GRCr8 Ensembl729,893,855 - 29,924,744 (+)EnsemblGRCr8
mRatBN7.2728,007,449 - 28,037,701 (+)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl728,006,972 - 28,037,701 (+)EnsemblmRatBN7.2
UTH_Rnor_SHR_Utx729,997,815 - 30,028,068 (+)NCBIUTH_Rnor_SHR_UtxUTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.0732,160,030 - 32,190,285 (+)NCBIUTH_Rnor_SHRSP_BbbUtx_1.0UTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.0731,934,946 - 31,965,140 (+)NCBIUTH_Rnor_WKY_Bbb_1.0UTH_Rnor_WKY_Bbb_1.0
Rnor_6.0734,326,087 - 34,356,413 (+)NCBIRnor_6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl734,326,087 - 34,356,413 (+)Ensemblrn6Rnor6.0
Rnor_5.0734,391,142 - 34,421,405 (+)NCBIRnor_5.0Rnor_5.0rn5
RGSC_v3.4730,520,913 - 30,551,145 (+)NCBIRGSC_v3.4RGSC_v3.4rn4
Celera725,107,998 - 25,136,986 (+)NCBICelera
RGSC_v3.1730,541,183 - 30,571,416 (+)NCBI
RH 3.4 Map7191.8RGD
Cytogenetic Map7q13NCBI
HAL
(Homo sapiens - human)
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh381295,972,662 - 95,996,344 (-)NCBIGRCh38GRCh38hg38GRCh38
GRCh38.p14 Ensembl1295,972,662 - 95,996,365 (-)Ensemblhg38GRCh38
GRCh371296,366,440 - 96,390,122 (-)NCBIGRCh37GRCh37hg19GRCh37
Build 361294,891,273 - 94,914,202 (-)NCBIBuild 36Build 36hg18NCBI36
Build 341294,869,609 - 94,892,539NCBI
Celera1296,033,432 - 96,056,362 (-)NCBICelera
Cytogenetic Map12q23.1NCBI
HuRef1293,428,306 - 93,452,016 (-)NCBIHuRef
CHM1_11296,331,432 - 96,355,134 (-)NCBICHM1_1
T2T-CHM13v2.01295,946,669 - 95,970,341 (-)NCBIT2T-CHM13v2.0
Hal
(Mus musculus - house mouse)
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm391093,324,630 - 93,352,623 (+)NCBIGRCm39GRCm39mm39
GRCm39 Ensembl1093,324,630 - 93,355,166 (+)EnsemblGRCm39 EnsemblGRCm39
GRCm381093,488,768 - 93,516,761 (+)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl1093,488,768 - 93,519,304 (+)Ensemblmm10GRCm38
MGSCv371092,951,513 - 92,979,488 (+)NCBIMGSCv37MGSCv37mm9NCBIm37
MGSCv361093,707,053 - 93,735,128 (+)NCBIMGSCv36mm8
MGSCv361092,918,567 - 92,946,542 (+)NCBIMGSCv36mm8
Celera1095,474,543 - 95,502,727 (+)NCBICelera
Cytogenetic Map10C2NCBI
cM Map1048.49NCBI
Hal
(Chinchilla lanigera - long-tailed chinchilla)
Chinchilla AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChiLan1.0 EnsemblNW_00495540532,316,326 - 32,341,485 (-)Ensembl
ChiLan1.0NW_00495540532,317,345 - 32,341,409 (-)NCBIChiLan1.0ChiLan1.0
HAL
(Pan paniscus - bonobo/pygmy chimpanzee)
Bonobo AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
NHGRI_mPanPan1-v210104,043,373 - 104,067,070 (-)NCBINHGRI_mPanPan1-v2
NHGRI_mPanPan112104,039,763 - 104,063,460 (-)NCBINHGRI_mPanPan1
Mhudiblu_PPA_v01293,561,401 - 93,585,215 (-)NCBIMhudiblu_PPA_v0Mhudiblu_PPA_v0panPan3
PanPan1.11296,950,020 - 96,973,662 (-)NCBIPanPan1.1PanPan1.1panPan2
PanPan1.1 Ensembl1296,950,020 - 96,973,662 (-)EnsemblpanPan2panpan1.1
HAL
(Canis lupus familiaris - dog)
Dog AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
CanFam3.11535,767,314 - 35,791,086 (-)NCBICanFam3.1CanFam3.1canFam3CanFam3.1
CanFam3.1 Ensembl1535,759,672 - 35,791,003 (-)EnsemblcanFam3CanFam3.1
Dog10K_Boxer_Tasha1536,153,957 - 36,177,503 (-)NCBIDog10K_Boxer_TashaDog10K_Boxer_Tasha
ROS_Cfam_1.01536,432,429 - 36,455,977 (-)NCBIROS_Cfam_1.0ROS_Cfam_1.0
ROS_Cfam_1.0 Ensembl1536,433,070 - 36,455,953 (-)EnsemblROS_Cfam_1.0 Ensembl
UMICH_Zoey_3.11535,705,313 - 35,728,861 (-)NCBIUMICH_Zoey_3.1
UNSW_CanFamBas_1.01535,799,841 - 35,823,389 (-)NCBIUNSW_CanFamBas_1.0
UU_Cfam_GSD_1.01536,063,032 - 36,086,577 (-)NCBIUU_Cfam_GSD_1.0UU_Cfam_GSD_1.0
Hal
(Ictidomys tridecemlineatus - thirteen-lined ground squirrel)
Squirrel AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HiC_Itri_2NW_02440494524,156,940 - 24,178,046 (+)NCBIHiC_Itri_2
SpeTri2.0 EnsemblNW_00493650712,058,698 - 12,078,214 (-)EnsemblSpeTri2.0 Ensembl
SpeTri2.0NW_00493650712,058,583 - 12,078,159 (-)NCBISpeTri2.0SpeTri2.0SpeTri2.0
HAL
(Sus scrofa - pig)
Pig AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Sscrofa11.1 Ensembl587,522,542 - 87,547,455 (+)EnsemblsusScr11Sscrofa11.1
Sscrofa11.1587,522,483 - 87,547,489 (+)NCBISscrofa11.1Sscrofa11.1susScr11Sscrofa11.1
Sscrofa10.2591,725,402 - 91,751,694 (+)NCBISscrofa10.2Sscrofa10.2susScr3
HAL
(Chlorocebus sabaeus - green monkey)
Green Monkey AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChlSab1.11191,343,715 - 91,367,384 (-)NCBIChlSab1.1ChlSab1.1chlSab2
Vero_WHO_p1.0NW_023666037153,758,865 - 153,784,917 (+)NCBIVero_WHO_p1.0Vero_WHO_p1.0
Hal
(Heterocephalus glaber - naked mole-rat)
Naked Mole-Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HetGla_female_1.0 EnsemblNW_00462475011,318,511 - 11,343,459 (+)EnsemblHetGla_female_1.0 EnsemblhetGla2HetGla_female_1.0 Ensembl
HetGla 1.0NW_00462475011,318,572 - 11,344,326 (+)NCBIHetGla 1.0HetGla 1.0hetGla2
Hal
(Rattus rattus - black rat)
Black Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Rrattus_CSIRO_v11172,539,406 - 172,570,014 (+)NCBIRrattus_CSIRO_v1

Variants

.
Variants in Hal
310 total Variants
miRNA Target Status (No longer updated)

Predicted Target Of
Summary Value
Count of predictions:83
Count of miRNA genes:75
Interacting mature miRNAs:80
Transcripts:ENSRNOT00000006971
Prediction methods:Microtar, 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 (GRCr8)
The following QTLs overlap with this region.    Full Report CSV TAB Printer Gviewer
RGD IDSymbolNameLODP ValueTraitSub TraitChrStartStopSpecies
1354644Spl4Serum phospholipid level QTL 44.9blood phospholipid amount (VT:0006084)blood phospholipid level (CMO:0001169)72154197751639954Rat
7411569Bw137Body weight QTL 1370.001body mass (VT:0001259)body weight gain (CMO:0000420)72380760668807606Rat
9590102Sffal5Serum free fatty acids level QTL 58.620.001blood free fatty acid amount (VT:0001553)plasma free fatty acids level (CMO:0000546)7721609752216097Rat
1578652Bmd15Bone mineral density QTL 155.2femur mineral mass (VT:0010011)trabecular volumetric bone mineral density (CMO:0001729)71051708662346019Rat
631503Bp102Blood pressure QTL 1021.9arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)7170952746709527Rat
1549840Bss5Bone structure and strength QTL 59.8femur strength trait (VT:0010010)femur midshaft polar moment of inertia (CMO:0001669)72663805771638057Rat
1300127Srn1Serum renin concentration QTL 13.87blood renin amount (VT:0003349)plasma renin activity level (CMO:0000116)72417947886817926Rat
2298547Neuinf5Neuroinflammation QTL 53.7nervous system integrity trait (VT:0010566)spinal cord Cd74 protein level (CMO:0002131)71011291660150541Rat
10059592Kidm45Kidney mass QTL 453.950.025kidney mass (VT:0002707)both kidneys wet weight to body weight ratio (CMO:0000340)7946087754460877Rat
1354637Scl30Serum cholesterol level QTL 303.7blood cholesterol amount (VT:0000180)blood total cholesterol level (CMO:0000051)72154197751639954Rat
724560Plsm3Polydactyly-luxate syndrome (PLS) morphotypes QTL 30.0003tibia length (VT:0004357)tibia length (CMO:0000450)7134650782Rat
1354639Spl5Serum phospholipid level QTL 53.9blood LDL phospholipid amount (VT:0010505)blood low density lipoprotein phospholipid level (CMO:0001568)72154197735707405Rat
7411566Bw136Body weight QTL 13610.40.001body mass (VT:0001259)body weight gain (CMO:0000420)7132612984Rat
61410Bw19Body weight QTL 196.20.001body mass (VT:0001259)body weight (CMO:0000012)7166965846669658Rat
1643004Pain2Pain QTL 21mechanical nociception trait (VT:0002734)self mutilation severity score (CMO:0002145)71011291699900612Rat
2290372Gluco33Glucose level QTL 332.71blood glucose amount (VT:0000188)blood glucose level area under curve (AUC) (CMO:0000350)7131777942Rat
1300149Cm6Cardiac mass QTL 64.09heart mass (VT:0007028)heart left ventricle weight to body weight ratio (CMO:0000530)71104117804Rat
634336Anxrr17Anxiety related response QTL 173.66locomotor behavior trait (VT:0001392)number of entries into a discrete space in an experimental apparatus (CMO:0000960)71509236116977875Rat
9590142Scort5Serum corticosterone level QTL 524.40.001blood corticosterone amount (VT:0005345)plasma corticosterone level (CMO:0001173)7132612984Rat
1582260Bw72Body weight QTL 723.20.0043body mass (VT:0001259)body weight (CMO:0000012)7139960528Rat
1582261Bw69Body weight QTL 693.20.0048body mass (VT:0001259)body weight (CMO:0000012)7139960528Rat
1582262Bw75Body weight QTL 7530.0038body mass (VT:0001259)body weight (CMO:0000012)7139960528Rat
70190Mcs6Mammary carcinoma susceptibility QTL 62.29mammary gland integrity trait (VT:0010552)mammary tumor number (CMO:0000343)72862457565788017Rat
1300132Bp182Blood pressure QTL 1823.49arterial blood pressure trait (VT:2000000)blood pressure time series experimental set point of the baroreceptor response (CMO:0002593)72154197786817926Rat
1300138Hrtrt9Heart rate QTL 94.72heart pumping trait (VT:2000009)heart rate (CMO:0000002)71049882055498820Rat
61369Mcs2Mammary carcinoma susceptibility QTL 23.38mammary gland integrity trait (VT:0010552)mammary tumor number (CMO:0000343)72092049437412865Rat
738033Anxrr6Anxiety related response QTL 64.1exploratory behavior trait (VT:0010471)percentage of entries into a discrete space in an experimental apparatus (CMO:0000961)71746044762460447Rat
70207Niddm31Non-insulin dependent diabetes mellitus QTL 313.9blood glucose amount (VT:0000188)plasma glucose level (CMO:0000042)72005723265057232Rat
61439Cia8Collagen induced arthritis QTL 85.1joint integrity trait (VT:0010548)joint inflammation composite score (CMO:0000919)72718291472182914Rat

Markers in Region
RH142423  
Rat AssemblyChrPosition (strand)SourceJBrowse
GRCr8729,908,988 - 29,909,256 (+)Marker Load Pipeline
mRatBN7.2728,021,944 - 28,022,212 (+)MAPPERmRatBN7.2
Rnor_6.0734,340,581 - 34,340,848NCBIRnor6.0
Rnor_5.0734,405,636 - 34,405,903UniSTSRnor5.0
RGSC_v3.4730,535,407 - 30,535,674UniSTSRGSC3.4
Celera725,122,491 - 25,122,758UniSTS
RH 3.4 Map7191.8UniSTS
Cytogenetic Map7q13UniSTS


Expression

RNA-SEQ Expression

alimentary part of gastrointestinal system
appendage
circulatory system
ectoderm
endocrine system
endoderm
exocrine system
hemolymphoid system
hepatobiliary system
integumental system
mesenchyme
mesoderm
musculoskeletal system
nervous system
renal system
reproductive system
respiratory system
4 6 5 55 80 81 59 28 59 6 139 47 1 40 25 60 22

Sequence


Ensembl Acc Id: ENSRNOT00000006971   ⟹   ENSRNOP00000006971
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr8 Ensembl729,893,855 - 29,924,744 (+)Ensembl
mRatBN7.2 Ensembl728,006,972 - 28,037,701 (+)Ensembl
Rnor_6.0 Ensembl734,326,087 - 34,356,413 (+)Ensembl
RefSeq Acc Id: NM_017159   ⟹   NP_058855
RefSeq Status: PROVISIONAL
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr8729,894,495 - 29,924,744 (+)NCBI
mRatBN7.2728,007,449 - 28,037,701 (+)NCBI
Rnor_6.0734,326,087 - 34,356,413 (+)NCBI
Rnor_5.0734,391,142 - 34,421,405 (+)NCBI
RGSC_v3.4730,520,913 - 30,551,145 (+)RGD
Celera725,107,998 - 25,136,986 (+)RGD
Sequence:
RefSeq Acc Id: NP_058855   ⟸   NM_017159
- UniProtKB: Q5EBB8 (UniProtKB/Swiss-Prot),   P21213 (UniProtKB/Swiss-Prot),   A6IFY6 (UniProtKB/TrEMBL)
- Sequence:
Ensembl Acc Id: ENSRNOP00000006971   ⟸   ENSRNOT00000006971
Protein Domains
Par3/HAL N-terminal

Protein Structures
Name Modeler Protein Id AA Range Protein Structure
AF-P21213-F1-model_v2 AlphaFold P21213 1-657 view protein structure

Transcriptome

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

Promoters
RGD ID:13695146
Promoter ID:EPDNEW_R5671
Type:multiple initiation site
Name:Hal_1
Description:histidine ammonia lyase
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_6.0734,326,031 - 34,326,091EPDNEW

Additional Information

Database Acc Id Source(s)
AGR Gene RGD:68363 AgrOrtholog
BioCyc Gene G2FUF-34389 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 ENSRNOG00000004502 Ensembl, ENTREZGENE, UniProtKB/Swiss-Prot
Ensembl Transcript ENSRNOT00000006971 ENTREZGENE
  ENSRNOT00000006971.7 UniProtKB/Swiss-Prot
Gene3D-CATH 1.10.275.10 UniProtKB/Swiss-Prot
  Fumarase/aspartase (Central domain) UniProtKB/Swiss-Prot
  Phosphatidylinositol 3-kinase Catalytic Subunit, Chain A, domain 1 UniProtKB/Swiss-Prot
IMAGE_CLONE IMAGE:7325816 IMAGE-MGC_LOAD
InterPro Aromatic_Lyase UniProtKB/Swiss-Prot
  Fumarase/histidase_N UniProtKB/Swiss-Prot
  HutH UniProtKB/Swiss-Prot
  L-Aspartase-like UniProtKB/Swiss-Prot
  Par3/HAL_N UniProtKB/Swiss-Prot
  Phe/His_NH3-lyase_AS UniProtKB/Swiss-Prot
KEGG Report rno:29301 UniProtKB/Swiss-Prot
MGC_CLONE MGC:108720 IMAGE-MGC_LOAD
NCBI Gene 29301 ENTREZGENE
PANTHER PTHR10362 UniProtKB/Swiss-Prot
Pfam Lyase_aromatic UniProtKB/Swiss-Prot
  Par3_HAL_N_term UniProtKB/Swiss-Prot
PhenoGen Hal PhenoGen
PROSITE PAL_HISTIDASE UniProtKB/Swiss-Prot
RatGTEx ENSRNOG00000004502 RatGTEx
Superfamily-SCOP SSF48557 UniProtKB/Swiss-Prot
TIGR TC233953
UniProt A6IFY6 ENTREZGENE, UniProtKB/TrEMBL
  A6IFY7_RAT UniProtKB/TrEMBL
  HUTH_RAT UniProtKB/Swiss-Prot, ENTREZGENE
  Q5EBB8 ENTREZGENE
UniProt Secondary Q5EBB8 UniProtKB/Swiss-Prot


Nomenclature History
Date Current Symbol Current Name Previous Symbol Previous Name Description Reference Status
2002-06-10 Hal  histidine ammonia lyase       Name updated 70584 APPROVED

RGD Curation Notes
Note Type Note Reference
gene_cellular_localization localized to the cytosol 632935
gene_expression expressed in liver, skin, renal cortex tubular epithelium, fundic mucosal glands of stomach, gastric intramuscular (Auerbach's) plexus, and adrenal cortex 632935
gene_expression expressed in liver and skin 628345
gene_function catalyzes the oxidative deamination of histidine to form urocanic acid 628345
gene_process catabolizes and thereby eliminates excess histidine in liver 628345
gene_regulation enzyme activity is increased by casein, soy or zein diets and is correlated with serum concentrations of glucagon 628345
gene_regulation mRNA in the liver is regulated by the dietary protein content 628345