Armc2 (armadillo repeat containing 2) - Rat Genome Database

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Gene: Armc2 (armadillo repeat containing 2) Rattus norvegicus
Analyze
Symbol: Armc2
Name: armadillo repeat containing 2
RGD ID: 1562413
Description: Predicted to be involved in sperm axoneme assembly. Predicted to act upstream of or within several processes, including flagellated sperm motility; nucleus organization; and spermatogenesis. Human ortholog(s) of this gene implicated in spermatogenic failure 38. Orthologous to human ARMC2 (armadillo repeat containing 2); INTERACTS WITH 2,3,7,8-tetrachlorodibenzodioxine; acrylamide; atrazine.
Type: protein-coding
RefSeq Status: VALIDATED
Previously known as: armadillo repeat-containing protein 2; LOC499470; RGD1562413; similar to armadillo repeat containing 2
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
GRCr82046,976,442 - 47,083,888 (-)NCBIGRCr8GRCr8GRCr8
GRCr8 Ensembl2046,977,421 - 47,084,160 (-)EnsemblGRCr8
mRatBN7.22045,395,859 - 45,501,808 (-)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl2045,394,127 - 45,504,819 (-)EnsemblmRatBN7.2
Rnor_6.02046,766,467 - 46,872,009 (-)NCBIRnor_6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl2046,765,881 - 46,871,946 (-)Ensemblrn6Rnor6.0
Rnor_5.02048,445,848 - 48,551,252 (-)NCBIRnor_5.0Rnor_5.0rn5
RGSC_v3.42045,886,018 - 45,985,709 (-)NCBIRGSC_v3.4RGSC_v3.4rn4
Celera2054,455,022 - 54,563,888 (+)NCBICelera
Cytogenetic Map20q12NCBI
JBrowse:




Disease Annotations     Click to see Annotation Detail View

Gene Ontology Annotations     Click to see Annotation Detail View

Biological Process

Molecular Function

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. GOA pipeline RGD automated data pipeline
3. Data Import for Chemical-Gene Interactions RGD automated import pipeline for gene-chemical interactions
Additional References at PubMed
PMID:30686508  


Genomics

Comparative Map Data
Armc2
(Rattus norvegicus - Norway rat)
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCr82046,976,442 - 47,083,888 (-)NCBIGRCr8GRCr8GRCr8
GRCr8 Ensembl2046,977,421 - 47,084,160 (-)EnsemblGRCr8
mRatBN7.22045,395,859 - 45,501,808 (-)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl2045,394,127 - 45,504,819 (-)EnsemblmRatBN7.2
Rnor_6.02046,766,467 - 46,872,009 (-)NCBIRnor_6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl2046,765,881 - 46,871,946 (-)Ensemblrn6Rnor6.0
Rnor_5.02048,445,848 - 48,551,252 (-)NCBIRnor_5.0Rnor_5.0rn5
RGSC_v3.42045,886,018 - 45,985,709 (-)NCBIRGSC_v3.4RGSC_v3.4rn4
Celera2054,455,022 - 54,563,888 (+)NCBICelera
Cytogenetic Map20q12NCBI
ARMC2
(Homo sapiens - human)
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh386108,848,422 - 109,053,040 (+)NCBIGRCh38GRCh38hg38GRCh38
GRCh38.p14 Ensembl6108,848,416 - 108,974,551 (+)Ensemblhg38GRCh38
GRCh376109,169,625 - 109,295,679 (+)NCBIGRCh37GRCh37hg19GRCh37
Build 366109,276,312 - 109,402,045 (+)NCBIBuild 36Build 36hg18NCBI36
Build 346109,276,317 - 109,401,877NCBI
Celera6109,915,511 - 110,041,258 (+)NCBICelera
Cytogenetic Map6q21NCBI
HuRef6106,736,195 - 106,861,947 (+)NCBIHuRef
CHM1_16109,432,491 - 109,558,178 (+)NCBICHM1_1
T2T-CHM13v2.06110,025,813 - 110,236,991 (+)NCBIT2T-CHM13v2.0
Armc2
(Mus musculus - house mouse)
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm391041,784,284 - 41,894,383 (-)NCBIGRCm39GRCm39mm39
GRCm39 Ensembl1041,790,986 - 41,894,438 (-)EnsemblGRCm39 EnsemblGRCm39
GRCm381041,908,463 - 42,018,382 (-)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl1041,914,990 - 42,018,442 (-)Ensemblmm10GRCm38
MGSCv371041,634,796 - 41,738,188 (-)NCBIMGSCv37MGSCv37mm9NCBIm37
MGSCv361041,603,408 - 41,665,159 (-)NCBIMGSCv36mm8
Celera1042,794,301 - 42,897,743 (-)NCBICelera
Cytogenetic Map10B2NCBI
cM Map1022.77NCBI
Armc2
(Chinchilla lanigera - long-tailed chinchilla)
Chinchilla AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChiLan1.0 EnsemblNW_00495541133,920,719 - 34,025,700 (+)Ensembl
ChiLan1.0NW_00495541133,921,459 - 34,021,375 (+)NCBIChiLan1.0ChiLan1.0
ARMC2
(Pan paniscus - bonobo/pygmy chimpanzee)
Bonobo AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
NHGRI_mPanPan1-v25128,856,542 - 128,982,855 (+)NCBINHGRI_mPanPan1-v2
NHGRI_mPanPan16126,747,950 - 126,874,265 (+)NCBINHGRI_mPanPan1
Mhudiblu_PPA_v06106,650,907 - 106,777,544 (+)NCBIMhudiblu_PPA_v0Mhudiblu_PPA_v0panPan3
PanPan1.16110,701,552 - 110,827,167 (+)NCBIPanPan1.1PanPan1.1panPan2
PanPan1.1 Ensembl6110,701,552 - 110,826,937 (+)EnsemblpanPan2panpan1.1
ARMC2
(Canis lupus familiaris - dog)
Dog AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
CanFam3.11265,829,110 - 65,933,378 (+)NCBICanFam3.1CanFam3.1canFam3CanFam3.1
CanFam3.1 Ensembl1265,824,672 - 65,933,098 (+)EnsemblcanFam3CanFam3.1
Dog10K_Boxer_Tasha1265,647,540 - 65,751,829 (+)NCBIDog10K_Boxer_TashaDog10K_Boxer_Tasha
ROS_Cfam_1.01266,710,531 - 66,814,827 (+)NCBIROS_Cfam_1.0ROS_Cfam_1.0
ROS_Cfam_1.0 Ensembl1266,709,454 - 66,815,202 (+)EnsemblROS_Cfam_1.0 Ensembl
UMICH_Zoey_3.11266,061,166 - 66,165,385 (+)NCBIUMICH_Zoey_3.1
UNSW_CanFamBas_1.01265,909,455 - 66,013,678 (+)NCBIUNSW_CanFamBas_1.0
UU_Cfam_GSD_1.01266,181,495 - 66,285,688 (+)NCBIUU_Cfam_GSD_1.0UU_Cfam_GSD_1.0
Armc2
(Ictidomys tridecemlineatus - thirteen-lined ground squirrel)
Squirrel AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HiC_Itri_2NW_024404946100,786,449 - 100,903,977 (+)NCBIHiC_Itri_2
SpeTri2.0 EnsemblNW_0049365645,061,312 - 5,180,300 (+)EnsemblSpeTri2.0 Ensembl
SpeTri2.0NW_0049365645,061,340 - 5,179,371 (+)NCBISpeTri2.0SpeTri2.0SpeTri2.0
ARMC2
(Sus scrofa - pig)
Pig AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Sscrofa11.1 Ensembl174,923,868 - 75,043,060 (+)EnsemblsusScr11Sscrofa11.1
Sscrofa11.1174,923,824 - 75,081,742 (+)NCBISscrofa11.1Sscrofa11.1susScr11Sscrofa11.1
Sscrofa10.2184,234,288 - 84,342,427 (+)NCBISscrofa10.2Sscrofa10.2susScr3
ARMC2
(Chlorocebus sabaeus - green monkey)
Green Monkey AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChlSab1.11364,877,181 - 65,098,517 (-)NCBIChlSab1.1ChlSab1.1chlSab2
ChlSab1.1 Ensembl1364,876,837 - 65,098,116 (-)EnsemblChlSab1.1 EnsemblchlSab2Vervet-AGM
Vero_WHO_p1.0NW_02366604037,179,847 - 37,335,177 (-)NCBIVero_WHO_p1.0Vero_WHO_p1.0
Armc2
(Heterocephalus glaber - naked mole-rat)
Naked Mole-Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HetGla_female_1.0 EnsemblNW_004624916104,119 - 219,359 (+)EnsemblHetGla_female_1.0 EnsemblhetGla2HetGla_female_1.0 Ensembl
HetGla 1.0NW_004624916104,856 - 219,341 (+)NCBIHetGla 1.0HetGla 1.0hetGla2
Armc2
(Rattus rattus - black rat)
Black Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Rrattus_CSIRO_v11841,590,327 - 41,689,230 (-)NCBIRrattus_CSIRO_v1

Variants

.
Variants in Armc2
779 total Variants
miRNA Target Status (No longer updated)

Predicted Target Of
Summary Value
Count of predictions:181
Count of miRNA genes:143
Interacting mature miRNAs:149
Transcripts:ENSRNOT00000031047, ENSRNOT00000072363
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.


QTLs in Region (GRCr8)
The following QTLs overlap with this region.    Full Report CSV TAB Printer Gviewer
RGD IDSymbolNameLODP ValueTraitSub TraitChrStartStopSpecies
2303587Bw93Body weight QTL 9313body mass (VT:0001259)body weight (CMO:0000012)202668936256021148Rat
4889610Pancm3Pancreatic morphology QTL 33.750.001pancreas mass (VT:0010144)pancreas wet weight (CMO:0000626)20418947649189476Rat
1598858Cm61Cardiac mass QTL 613.6heart mass (VT:0007028)heart weight to body weight ratio (CMO:0000074)20821635953216359Rat
1331747Hrtrt16Heart rate QTL 163.163heart pumping trait (VT:2000009)heart rate (CMO:0000002)202679235356021148Rat
1598816Memor12Memory QTL 122.4exploratory behavior trait (VT:0010471)average horizontal distance between subject and target during voluntary locomotion in an experimental apparatus (CMO:0002674)201224324249189476Rat
2303578Gluco50Glucose level QTL 502blood glucose amount (VT:0000188)blood glucose level (CMO:0000046)202668936256021148Rat
2303626Vencon10Ventilatory control QTL 100.001respiration trait (VT:0001943)respiration rate (CMO:0000289)202074558556021148Rat
1598869Memor6Memory QTL 63.1exploratory behavior trait (VT:0010471)total horizontal distance resulting from voluntary locomotion in an experimental apparatus (CMO:0001443)202668936256021148Rat
1598870Bp289Blood pressure QTL 2892.4arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)20821635953216359Rat
2300188Bmd68Bone mineral density QTL 686.40.0001femur mineral mass (VT:0010011)volumetric bone mineral density (CMO:0001553)202668936256021148Rat

Markers in Region
D4Mit226.1  
Rat AssemblyChrPosition (strand)SourceJBrowse
Rnor_5.01093,642,077 - 93,642,181NCBIRnor5.0
Rnor_5.02048,505,646 - 48,505,728NCBIRnor5.0
RGSC_v3.42045,946,477 - 45,946,558UniSTSRGSC3.4
RGSC_v3.41095,066,637 - 95,066,740UniSTSRGSC3.4
Celera2054,503,381 - 54,503,462UniSTS
Celera1089,307,395 - 89,307,498UniSTS
Cytogenetic Map20q13UniSTS
Cytogenetic Map10q32.1UniSTS
BI285847  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.22045,480,201 - 45,480,352 (+)MAPPERmRatBN7.2
Rnor_6.02046,850,346 - 46,850,496NCBIRnor6.0
Rnor_5.02048,529,534 - 48,529,684UniSTSRnor5.0
RGSC_v3.42045,971,331 - 45,971,481UniSTSRGSC3.4
Celera2054,479,383 - 54,479,533UniSTS
RH 3.4 Map20485.42UniSTS
Cytogenetic Map20q13UniSTS


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 12 66 161 91 90 59 87 59 6 345 186 11 140 76 92 31 17 17

Sequence


Ensembl Acc Id: ENSRNOT00000031047   ⟹   ENSRNOP00000033465
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr8 Ensembl2046,977,421 - 47,084,072 (-)Ensembl
mRatBN7.2 Ensembl2045,394,127 - 45,504,819 (-)Ensembl
Rnor_6.0 Ensembl2046,765,881 - 46,871,946 (-)Ensembl
Ensembl Acc Id: ENSRNOT00000106346   ⟹   ENSRNOP00000085731
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr8 Ensembl2047,066,342 - 47,084,160 (-)Ensembl
mRatBN7.2 Ensembl2045,483,704 - 45,494,670 (-)Ensembl
Ensembl Acc Id: ENSRNOT00000142900   ⟹   ENSRNOP00000106297
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr8 Ensembl2046,977,421 - 47,084,115 (-)Ensembl
RefSeq Acc Id: XM_039099142   ⟹   XP_038955070
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr82046,976,442 - 47,076,762 (-)NCBI
mRatBN7.22045,395,859 - 45,494,479 (-)NCBI
RefSeq Acc Id: XM_063279680   ⟹   XP_063135750
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr82046,976,442 - 47,073,611 (-)NCBI
RefSeq Acc Id: XM_574794   ⟹   XP_574794
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr82046,976,442 - 47,083,888 (-)NCBI
mRatBN7.22045,395,859 - 45,501,606 (-)NCBI
Rnor_6.02046,766,467 - 46,871,760 (-)NCBI
Rnor_5.02048,445,848 - 48,551,252 (-)NCBI
RGSC_v3.42045,886,018 - 45,985,709 (-)RGD
Sequence:
RefSeq Acc Id: XR_005497350
Type: NON-CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr82046,993,223 - 47,083,885 (-)NCBI
mRatBN7.22045,410,917 - 45,501,606 (-)NCBI
RefSeq Acc Id: XP_574794   ⟸   XM_574794
- Peptide Label: isoform X1
- Sequence:
Ensembl Acc Id: ENSRNOP00000033465   ⟸   ENSRNOT00000031047
RefSeq Acc Id: XP_038955070   ⟸   XM_039099142
- Peptide Label: isoform X2
Ensembl Acc Id: ENSRNOP00000085731   ⟸   ENSRNOT00000106346
RefSeq Acc Id: XP_063135750   ⟸   XM_063279680
- Peptide Label: isoform X3
- UniProtKB: A6K6Z7 (UniProtKB/TrEMBL)
Ensembl Acc Id: ENSRNOP00000106297   ⟸   ENSRNOT00000142900

Protein Structures
Name Modeler Protein Id AA Range Protein Structure
AF-D4AE64-F1-model_v2 AlphaFold D4AE64 1-895 view protein structure

Transcriptome

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

Promoters
RGD ID:13701672
Promoter ID:EPDNEW_R12193
Type:single initiation site
Name:Armc2_1
Description:armadillo repeat containing 2
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_6.02046,872,011 - 46,872,071EPDNEW

Additional Information

Database Acc Id Source(s)
AGR Gene RGD:1562413 AgrOrtholog
BioCyc Gene G2FUF-3386 BioCyc
Ensembl Genes ENSRNOG00000026217 Ensembl, ENTREZGENE, UniProtKB/TrEMBL
Ensembl Transcript ENSRNOT00000031047 ENTREZGENE
  ENSRNOT00000031047.9 UniProtKB/TrEMBL
  ENSRNOT00000106346.2 UniProtKB/TrEMBL
  ENSRNOT00000142900.1 UniProtKB/TrEMBL
Gene3D-CATH 1.25.10.10 UniProtKB/TrEMBL
InterPro ARM-like UniProtKB/TrEMBL
  ARM-type_fold UniProtKB/TrEMBL
  Armadillo UniProtKB/TrEMBL
  ARMC2 UniProtKB/TrEMBL
NCBI Gene 499470 ENTREZGENE
PANTHER ARMADILLO REPEAT-CONTAINING PROTEIN 2 UniProtKB/TrEMBL
  PTHR21356 UniProtKB/TrEMBL
PhenoGen Armc2 PhenoGen
PROSITE ARM_REPEAT UniProtKB/TrEMBL
RatGTEx ENSRNOG00000026217 RatGTEx
SMART ARM UniProtKB/TrEMBL
Superfamily-SCOP ARM-type_fold UniProtKB/TrEMBL
UniProt A0A8I6A0V3_RAT UniProtKB/TrEMBL
  A0ABK0L7W0_RAT UniProtKB/TrEMBL
  A6K6Z7 ENTREZGENE, UniProtKB/TrEMBL
  D4AE64 ENTREZGENE, UniProtKB/TrEMBL


Nomenclature History
Date Current Symbol Current Name Previous Symbol Previous Name Description Reference Status
2008-02-29 Armc2  armadillo repeat containing 2  RGD1562413_predicted  similar to armadillo repeat containing 2 (predicted)  Nomenclature updated to reflect human and mouse nomenclature 1299863 APPROVED
2006-03-07 RGD1562413_predicted  similar to armadillo repeat containing 2 (predicted)  LOC499470  similar to armadillo repeat containing 2  Symbol and Name status set to approved 1299863 APPROVED
2006-02-09 LOC499470  similar to armadillo repeat containing 2      Symbol and Name status set to provisional 70820 PROVISIONAL