Hormad2 (HORMA domain containing 2) - Rat Genome Database

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Gene: Hormad2 (HORMA domain containing 2) Rattus norvegicus
Analyze
Symbol: Hormad2
Name: HORMA domain containing 2
RGD ID: 1565447
Description: Predicted to be involved in meiotic cell cycle and meiotic sister chromatid cohesion. Predicted to be located in synaptonemal complex. Orthologous to human HORMAD2 (HORMA domain containing 2); INTERACTS WITH acetamide; atrazine; bisphenol A.
Type: protein-coding
RefSeq Status: VALIDATED
Previously known as: HORMA domain-containing protein 2; similar to HORMA domain containing 2
RGD Orthologs
Human
Mouse
Chinchilla
Bonobo
Dog
Squirrel
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
GRCr81483,438,555 - 83,524,015 (-)NCBIGRCr8GRCr8GRCr8
GRCr8 Ensembl1483,438,563 - 83,523,450 (-)EnsemblGRCr8
mRatBN7.21479,215,013 - 79,300,447 (-)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl1479,214,998 - 79,299,910 (-)EnsemblmRatBN7.2
UTH_Rnor_SHR_Utx1483,655,342 - 83,738,165 (-)NCBIUTH_Rnor_SHR_UtxUTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.01484,895,403 - 84,978,232 (-)NCBIUTH_Rnor_SHRSP_BbbUtx_1.0UTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.01481,341,495 - 81,426,076 (-)NCBIUTH_Rnor_WKY_Bbb_1.0UTH_Rnor_WKY_Bbb_1.0
Rnor_6.01484,576,856 - 84,662,237 (-)NCBIRnor_6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl1484,576,825 - 84,662,222 (-)Ensemblrn6Rnor6.0
Rnor_5.01485,258,458 - 85,343,171 (-)NCBIRnor_5.0Rnor_5.0rn5
RGSC_v3.41484,971,123 - 85,056,271 (-)NCBIRGSC_v3.4RGSC_v3.4rn4
Celera1478,124,840 - 78,209,277 (-)NCBICelera
Cytogenetic Map14q21NCBI
JBrowse:




Gene-Chemical Interaction Annotations     Click to see Annotation Detail View
Gene Ontology Annotations     Click to see Annotation Detail View

Biological Process

Cellular Component
chromosome  (IEA,ISO)
nucleoplasm  (IEA,ISO)
nucleus  (IEA,ISO)
synaptonemal complex  (IBA,IEA,ISO)

Molecular Function

References

References - curated
# Reference Title Reference Citation
1. Data Import for Chemical-Gene Interactions RGD automated import pipeline for gene-chemical interactions
2. Generation and initial analysis of more than 15,000 full-length human and mouse cDNA sequences. Strausberg RL, etal., Proc Natl Acad Sci U S A. 2002 Dec 24;99(26):16899-903. Epub 2002 Dec 11.
Additional References at PubMed
PMID:19851446   PMID:22549958   PMID:22854038   PMID:23039116  


Genomics

Comparative Map Data
Hormad2
(Rattus norvegicus - Norway rat)
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCr81483,438,555 - 83,524,015 (-)NCBIGRCr8GRCr8GRCr8
GRCr8 Ensembl1483,438,563 - 83,523,450 (-)EnsemblGRCr8
mRatBN7.21479,215,013 - 79,300,447 (-)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl1479,214,998 - 79,299,910 (-)EnsemblmRatBN7.2
UTH_Rnor_SHR_Utx1483,655,342 - 83,738,165 (-)NCBIUTH_Rnor_SHR_UtxUTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.01484,895,403 - 84,978,232 (-)NCBIUTH_Rnor_SHRSP_BbbUtx_1.0UTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.01481,341,495 - 81,426,076 (-)NCBIUTH_Rnor_WKY_Bbb_1.0UTH_Rnor_WKY_Bbb_1.0
Rnor_6.01484,576,856 - 84,662,237 (-)NCBIRnor_6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl1484,576,825 - 84,662,222 (-)Ensemblrn6Rnor6.0
Rnor_5.01485,258,458 - 85,343,171 (-)NCBIRnor_5.0Rnor_5.0rn5
RGSC_v3.41484,971,123 - 85,056,271 (-)NCBIRGSC_v3.4RGSC_v3.4rn4
Celera1478,124,840 - 78,209,277 (-)NCBICelera
Cytogenetic Map14q21NCBI
HORMAD2
(Homo sapiens - human)
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh382230,077,732 - 30,207,456 (+)NCBIGRCh38GRCh38hg38GRCh38
GRCh38.p14 Ensembl2230,080,464 - 30,177,075 (+)Ensemblhg38GRCh38
GRCh372230,476,453 - 30,573,064 (+)NCBIGRCh37GRCh37hg19GRCh37
Build 362228,806,453 - 28,903,062 (+)NCBIBuild 36Build 36hg18NCBI36
Build 342228,801,006 - 28,897,614NCBI
Celera2214,276,181 - 14,372,762 (+)NCBICelera
Cytogenetic Map22q12.2NCBI
HuRef2213,438,500 - 13,534,890 (+)NCBIHuRef
CHM1_12230,435,626 - 30,532,240 (+)NCBICHM1_1
T2T-CHM13v2.02230,541,076 - 30,670,783 (+)NCBIT2T-CHM13v2.0
Hormad2
(Mus musculus - house mouse)
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm39114,295,801 - 4,391,215 (-)NCBIGRCm39GRCm39mm39
GRCm39 Ensembl114,295,814 - 4,391,105 (-)EnsemblGRCm39 EnsemblGRCm39
GRCm38114,345,801 - 4,441,198 (-)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl114,345,814 - 4,441,105 (-)Ensemblmm10GRCm38
MGSCv37114,246,386 - 4,341,085 (-)NCBIMGSCv37MGSCv37mm9NCBIm37
MGSCv36114,246,565 - 4,327,807 (-)NCBIMGSCv36mm8
Celera114,845,466 - 4,940,597 (-)NCBICelera
Cytogenetic Map11A1NCBI
cM Map112.94NCBI
Hormad2
(Chinchilla lanigera - long-tailed chinchilla)
Chinchilla AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChiLan1.0 EnsemblNW_0049554554,317,319 - 4,424,645 (+)Ensembl
ChiLan1.0NW_0049554554,309,397 - 4,462,932 (+)NCBIChiLan1.0ChiLan1.0
HORMAD2
(Pan paniscus - bonobo/pygmy chimpanzee)
Bonobo AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
NHGRI_mPanPan1-v22340,043,741 - 40,159,015 (+)NCBINHGRI_mPanPan1-v2
NHGRI_mPanPan12242,742,837 - 42,857,631 (+)NCBINHGRI_mPanPan1
Mhudiblu_PPA_v02211,113,654 - 11,213,291 (+)NCBIMhudiblu_PPA_v0Mhudiblu_PPA_v0panPan3
PanPan1.12228,919,699 - 29,015,951 (+)NCBIPanPan1.1PanPan1.1panPan2
PanPan1.1 Ensembl2228,920,640 - 29,015,949 (+)EnsemblpanPan2panpan1.1
HORMAD2
(Canis lupus familiaris - dog)
Dog AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
CanFam3.12623,254,313 - 23,342,644 (+)NCBICanFam3.1CanFam3.1canFam3CanFam3.1
CanFam3.1 Ensembl2623,254,415 - 23,339,947 (+)EnsemblcanFam3CanFam3.1
Dog10K_Boxer_Tasha2623,125,597 - 23,213,985 (+)NCBIDog10K_Boxer_TashaDog10K_Boxer_Tasha
ROS_Cfam_1.02623,629,535 - 23,724,667 (+)NCBIROS_Cfam_1.0ROS_Cfam_1.0
ROS_Cfam_1.0 Ensembl2623,629,691 - 23,721,954 (+)EnsemblROS_Cfam_1.0 Ensembl
UMICH_Zoey_3.12623,339,572 - 23,428,354 (+)NCBIUMICH_Zoey_3.1
UNSW_CanFamBas_1.02623,602,484 - 23,691,252 (+)NCBIUNSW_CanFamBas_1.0
UU_Cfam_GSD_1.02623,661,114 - 23,749,671 (+)NCBIUU_Cfam_GSD_1.0UU_Cfam_GSD_1.0
Hormad2
(Ictidomys tridecemlineatus - thirteen-lined ground squirrel)
Squirrel AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HiC_Itri_2NW_024405118116,187,617 - 116,257,617 (+)NCBIHiC_Itri_2
SpeTri2.0 EnsemblNW_004936904477,398 - 546,574 (-)EnsemblSpeTri2.0 Ensembl
SpeTri2.0NW_004936904477,398 - 546,574 (-)NCBISpeTri2.0SpeTri2.0SpeTri2.0
HORMAD2
(Chlorocebus sabaeus - green monkey)
Green Monkey AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChlSab1.11912,965,088 - 13,057,576 (+)NCBIChlSab1.1ChlSab1.1chlSab2
ChlSab1.1 Ensembl1912,977,944 - 13,007,296 (+)EnsemblChlSab1.1 EnsemblchlSab2Vervet-AGM
Vero_WHO_p1.0NW_023666045113,089,685 - 113,180,451 (-)NCBIVero_WHO_p1.0Vero_WHO_p1.0
Hormad2
(Heterocephalus glaber - naked mole-rat)
Naked Mole-Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HetGla_female_1.0 EnsemblNW_0046247476,388,710 - 6,494,967 (+)EnsemblHetGla_female_1.0 EnsemblhetGla2HetGla_female_1.0 Ensembl
HetGla 1.0NW_0046247476,388,679 - 6,493,583 (+)NCBIHetGla 1.0HetGla 1.0hetGla2
Hormad2
(Rattus rattus - black rat)
Black Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Rrattus_CSIRO_v11173,326,327 - 73,411,887 (-)NCBIRrattus_CSIRO_v1

Variants

.
Variants in Hormad2
763 total Variants
miRNA Target Status (No longer updated)

Predicted Target Of
Summary Value
Count of predictions:119
Count of miRNA genes:90
Interacting mature miRNAs:103
Transcripts:ENSRNOT00000057529
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 (GRCr8)
The following QTLs overlap with this region.    Full Report CSV TAB Printer Gviewer
RGD IDSymbolNameLODP ValueTraitSub TraitChrStartStopSpecies
1582236Gluco22Glucose level QTL 223.30.0164blood glucose amount (VT:0000188)blood glucose level (CMO:0000046)147764007196755654Rat
9590294Uminl4Urine mineral level QTL 45.660.001urine mineral amount (VT:0015086)urine electrolyte level (CMO:0000593)1459848686104848686Rat
2300197Scl59Serum cholesterol level QTL 59blood cholesterol amount (VT:0000180)serum total cholesterol level (CMO:0000363)1477914838104348525Rat
70214Niddm28Non-insulin dependent diabetes mellitus QTL 284.06blood glucose amount (VT:0000188)blood glucose level area under curve (AUC) (CMO:0000350)143900944484009444Rat
70153Bp59Blood pressure QTL 593.2arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)147297021087582095Rat
70187Pancm5Pancreatic morphology QTL 516.7pancreas mass (VT:0010144)pancreas weight to body weight ratio (CMO:0000630)143067446985041098Rat
631523Pia13Pristane induced arthritis QTL 133.3joint integrity trait (VT:0010548)joint inflammation composite score (CMO:0000919)1433424686102238540Rat
1582259Gluco23Glucose level QTL 233.10.0008blood glucose amount (VT:0000188)blood glucose level area under curve (AUC) (CMO:0000350)1474255551109089856Rat
1582197Gluco27Glucose level QTL 273.40.0006blood glucose amount (VT:0000188)blood glucose level area under curve (AUC) (CMO:0000350)147764007196755654Rat
634328Hc5Hypercalciuria QTL 52.3urine calcium amount (VT:0002985)urine calcium excretion rate (CMO:0000763)1462398852107398852Rat
1582250Gluco26Glucose level QTL 263.30.0009blood glucose amount (VT:0000188)blood glucose level (CMO:0000046)1477640071100078267Rat
2317879Alcrsp27Alcohol response QTL 273.30.63response to alcohol trait (VT:0010489)duration of loss of righting reflex (CMO:0002289)1460854936105854936Rat
1641900Alcrsp11Alcohol response QTL 11alcohol metabolism trait (VT:0015089)blood ethanol level (CMO:0000535)1474255551109089856Rat
631839Niddm37Non-insulin dependent diabetes mellitus QTL 373.37blood glucose amount (VT:0000188)blood glucose level (CMO:0000046)1411334716100078267Rat
1582255Gluco29Glucose level QTL 293.10.0025blood glucose amount (VT:0000188)absolute change in blood glucose level area under curve (CMO:0002034)147764007196755654Rat
9589034Epfw11Epididymal fat weight QTL 1160.001epididymal fat pad mass (VT:0010421)epididymal fat pad weight to body weight ratio (CMO:0000658)1459848686104848686Rat
1582209Gluco20Glucose level QTL 203.80.0005blood glucose amount (VT:0000188)blood glucose level (CMO:0000046)147764007196755654Rat
1300136Rf22Renal function QTL 223.9renal blood flow trait (VT:2000006)absolute change in renal vascular resistance (CMO:0001900)144261625899224555Rat
1549834Scl45Serum cholesterol level QTL 455.8blood cholesterol amount (VT:0000180)serum total cholesterol level (CMO:0000363)146592028399224555Rat
738037Hcas6Hepatocarcinoma susceptibility QTL 62.93liver integrity trait (VT:0010547)liver nonremodeling tumorous lesion volume to total liver volume ratio (CMO:0001464)143941117087582095Rat


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
sensory system
visual system
16 8 60 148 91 90 59 87 59 6 340 177 11 126 81 92 31 16 16

Sequence


Ensembl Acc Id: ENSRNOT00000057529   ⟹   ENSRNOP00000054338
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr8 Ensembl1483,438,563 - 83,523,450 (-)Ensembl
mRatBN7.2 Ensembl1479,215,013 - 79,299,910 (-)Ensembl
Rnor_6.0 Ensembl1484,576,857 - 84,662,143 (-)Ensembl
Ensembl Acc Id: ENSRNOT00000080078   ⟹   ENSRNOP00000068948
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr8 Ensembl1483,438,563 - 83,523,450 (-)Ensembl
mRatBN7.2 Ensembl1479,214,998 - 79,299,910 (-)Ensembl
Rnor_6.0 Ensembl1484,576,825 - 84,662,222 (-)Ensembl
RefSeq Acc Id: NM_001017501   ⟹   NP_001017501
RefSeq Status: VALIDATED
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr81483,438,563 - 83,523,450 (-)NCBI
mRatBN7.21479,215,013 - 79,299,910 (-)NCBI
Rnor_6.01484,576,857 - 84,662,143 (-)NCBI
Rnor_5.01485,258,458 - 85,343,171 (-)NCBI
RGSC_v3.41484,971,123 - 85,056,271 (-)RGD
Celera1478,124,840 - 78,209,277 (-)RGD
Sequence:
RefSeq Acc Id: NM_001401619   ⟹   NP_001388548
RefSeq Status: VALIDATED
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr81483,438,563 - 83,523,450 (-)NCBI
mRatBN7.21479,215,013 - 79,299,910 (-)NCBI
RefSeq Acc Id: XM_008770341   ⟹   XP_008768563
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr81483,438,555 - 83,523,985 (-)NCBI
mRatBN7.21479,215,016 - 79,300,445 (-)NCBI
Rnor_6.01484,576,856 - 84,662,237 (-)NCBI
Sequence:
RefSeq Acc Id: XM_008770342   ⟹   XP_008768564
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr81483,438,555 - 83,523,985 (-)NCBI
mRatBN7.21479,215,016 - 79,300,445 (-)NCBI
Rnor_6.01484,576,856 - 84,662,237 (-)NCBI
Sequence:
RefSeq Acc Id: XM_008770343   ⟹   XP_008768565
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr81483,438,555 - 83,523,985 (-)NCBI
mRatBN7.21479,215,016 - 79,300,445 (-)NCBI
Rnor_6.01484,576,856 - 84,662,237 (-)NCBI
Sequence:
RefSeq Acc Id: XM_039092294   ⟹   XP_038948222
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr81483,438,555 - 83,523,989 (-)NCBI
mRatBN7.21479,215,016 - 79,300,447 (-)NCBI
RefSeq Acc Id: XM_063273476   ⟹   XP_063129546
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr81483,438,555 - 83,524,004 (-)NCBI
RefSeq Acc Id: XM_063273477   ⟹   XP_063129547
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr81483,438,555 - 83,524,015 (-)NCBI
RefSeq Acc Id: NP_001017501   ⟸   NM_001017501
- Peptide Label: isoform 2
- UniProtKB: Q6AXZ7 (UniProtKB/TrEMBL)
- Sequence:
RefSeq Acc Id: XP_008768565   ⟸   XM_008770343
- Peptide Label: isoform X1
- UniProtKB: A0A0G2JU34 (UniProtKB/TrEMBL)
- Sequence:
RefSeq Acc Id: XP_008768564   ⟸   XM_008770342
- Peptide Label: isoform X1
- UniProtKB: A0A0G2JU34 (UniProtKB/TrEMBL)
- Sequence:
RefSeq Acc Id: XP_008768563   ⟸   XM_008770341
- Peptide Label: isoform X1
- UniProtKB: A0A0G2JU34 (UniProtKB/TrEMBL)
- Sequence:
Ensembl Acc Id: ENSRNOP00000068948   ⟸   ENSRNOT00000080078
Ensembl Acc Id: ENSRNOP00000054338   ⟸   ENSRNOT00000057529
RefSeq Acc Id: XP_038948222   ⟸   XM_039092294
- Peptide Label: isoform X2
RefSeq Acc Id: NP_001388548   ⟸   NM_001401619
- Peptide Label: isoform 1
- UniProtKB: A0A0G2JU34 (UniProtKB/TrEMBL)
RefSeq Acc Id: XP_063129547   ⟸   XM_063273477
- Peptide Label: isoform X4
RefSeq Acc Id: XP_063129546   ⟸   XM_063273476
- Peptide Label: isoform X3
Protein Domains
HORMA

Protein Structures
Name Modeler Protein Id AA Range Protein Structure
AF-A0A0G2JU34-F1-model_v2 AlphaFold A0A0G2JU34 1-323 view protein structure

Transcriptome

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


Additional Information

Database Acc Id Source(s)
AGR Gene RGD:1565447 AgrOrtholog
BioCyc Gene G2FUF-15177 BioCyc
Ensembl Genes ENSRNOG00000037865 Ensembl, ENTREZGENE, UniProtKB/TrEMBL
Ensembl Transcript ENSRNOT00000057529 ENTREZGENE
  ENSRNOT00000057529.4 UniProtKB/TrEMBL
  ENSRNOT00000080078 ENTREZGENE
  ENSRNOT00000080078.3 UniProtKB/TrEMBL
Gene3D-CATH 3.30.900.10 UniProtKB/TrEMBL
IMAGE_CLONE IMAGE:7133170 IMAGE-MGC_LOAD
InterPro HORMA_DNA_bd UniProtKB/TrEMBL
  HORMA_dom_sf UniProtKB/TrEMBL
  HORMA_MeioticProgression UniProtKB/TrEMBL
KEGG Report rno:498400 UniProtKB/TrEMBL
MGC_CLONE MGC:94350 IMAGE-MGC_LOAD
NCBI Gene 498400 ENTREZGENE
PANTHER HORMA DOMAIN-CONTAINING PROTEIN 1 UniProtKB/TrEMBL
  HORMA DOMAIN-CONTAINING PROTEIN 2 UniProtKB/TrEMBL
Pfam HORMA UniProtKB/TrEMBL
PhenoGen Hormad2 PhenoGen
PROSITE HORMA UniProtKB/TrEMBL
RatGTEx ENSRNOG00000037865 RatGTEx
Superfamily-SCOP HORMA_DNA_bd UniProtKB/TrEMBL
UniProt A0A0G2JU34 ENTREZGENE, UniProtKB/TrEMBL
  F7FJK2_RAT UniProtKB/TrEMBL
  Q6AXZ7 ENTREZGENE, UniProtKB/TrEMBL


Nomenclature History
Date Current Symbol Current Name Previous Symbol Previous Name Description Reference Status
2006-02-09 LOC498400  similar to HORMA domain containing 2      Symbol and Name status set to provisional 70820 PROVISIONAL