Atmin (ATM interactor) - Rat Genome Database

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Gene: Atmin (ATM interactor) Rattus norvegicus
Analyze
Symbol: Atmin
Name: ATM interactor
RGD ID: 1305781
Description: Predicted to enable DNA-binding transcription activator activity, RNA polymerase II-specific; dynein complex binding activity; and transcription cis-regulatory region binding activity. Predicted to be involved in positive regulation of transcription by RNA polymerase II. Predicted to act upstream of or within motile cilium assembly; positive regulation of gene expression; and positive regulation of non-motile cilium assembly. Predicted to be located in nuclear body. Orthologous to human ATMIN (ATM interactor); INTERACTS WITH 2,3,7,8-tetrachlorodibenzodioxine; bisphenol A; cobalt dichloride.
Type: protein-coding
RefSeq Status: VALIDATED
Previously known as: Asciz; ATM/ATR-Substrate Chk2-Interacting Zn2+-finger protein; LOC315037; RGD1305781; similar to mKIAA0431 protein
RGD Orthologs
Human
Mouse
Chinchilla
Bonobo
Dog
Squirrel
Pig
Green Monkey
Naked Mole-Rat
Alliance Genes
More Info more info ...
Related Pseudogenes: Atmin-ps1   Atmin-ps2  
Latest Assembly: mRatBN7.2 - mRatBN7.2 Assembly
Position:
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCr81961,905,343 - 61,922,443 (+)NCBIGRCr8
mRatBN7.21944,996,506 - 45,013,606 (+)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl1944,996,356 - 45,013,605 (+)EnsemblmRatBN7.2 Ensembl
UTH_Rnor_SHR_Utx1951,806,281 - 51,823,383 (+)NCBIRnor_SHRUTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.01952,459,296 - 52,476,398 (+)NCBIRnor_SHRSPUTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.01954,703,537 - 54,720,643 (+)NCBIRnor_WKYUTH_Rnor_WKY_Bbb_1.0
Rnor_6.01949,482,482 - 49,499,682 (+)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_5.01960,273,787 - 60,290,987 (+)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.41947,054,050 - 47,071,395 (+)NCBIRGSC3.4RGSC_v3.4rn4RGSC3.4
RGSC_v3.1771,090,419 - 71,092,881 (-)NCBI
Celera1944,269,716 - 44,286,805 (+)NCBICelera
Cytogenetic Map19q12NCBI
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

Cellular Component
nuclear body  (IEA,ISO)
nucleus  (IBA)

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:12477932   PMID:22167198   PMID:25294941  


Genomics

Comparative Map Data
Atmin
(Rattus norvegicus - Norway rat)
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCr81961,905,343 - 61,922,443 (+)NCBIGRCr8
mRatBN7.21944,996,506 - 45,013,606 (+)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl1944,996,356 - 45,013,605 (+)EnsemblmRatBN7.2 Ensembl
UTH_Rnor_SHR_Utx1951,806,281 - 51,823,383 (+)NCBIRnor_SHRUTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.01952,459,296 - 52,476,398 (+)NCBIRnor_SHRSPUTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.01954,703,537 - 54,720,643 (+)NCBIRnor_WKYUTH_Rnor_WKY_Bbb_1.0
Rnor_6.01949,482,482 - 49,499,682 (+)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_5.01960,273,787 - 60,290,987 (+)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.41947,054,050 - 47,071,395 (+)NCBIRGSC3.4RGSC_v3.4rn4RGSC3.4
RGSC_v3.1771,090,419 - 71,092,881 (-)NCBI
Celera1944,269,716 - 44,286,805 (+)NCBICelera
Cytogenetic Map19q12NCBI
ATMIN
(Homo sapiens - human)
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh381681,035,842 - 81,047,350 (+)NCBIGRCh38GRCh38hg38GRCh38
GRCh38.p14 Ensembl1681,035,842 - 81,047,350 (+)EnsemblGRCh38hg38GRCh38
GRCh371681,069,447 - 81,080,955 (+)NCBIGRCh37GRCh37hg19GRCh37
Build 361679,626,959 - 79,638,452 (+)NCBINCBI36Build 36hg18NCBI36
Celera1665,367,853 - 65,379,348 (+)NCBICelera
Cytogenetic Map16q23.2NCBI
HuRef1666,826,345 - 66,837,755 (+)NCBIHuRef
CHM1_11682,480,826 - 82,492,320 (+)NCBICHM1_1
T2T-CHM13v2.01687,097,372 - 87,108,882 (+)NCBIT2T-CHM13v2.0
Atmin
(Mus musculus - house mouse)
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm398117,670,132 - 117,687,184 (+)NCBIGRCm39GRCm39mm39
GRCm39 Ensembl8117,670,132 - 117,687,184 (+)EnsemblGRCm39 Ensembl
GRCm388116,943,383 - 116,960,445 (+)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl8116,943,393 - 116,960,445 (+)EnsemblGRCm38mm10GRCm38
MGSCv378119,467,293 - 119,484,345 (+)NCBIGRCm37MGSCv37mm9NCBIm37
MGSCv368119,829,385 - 119,846,422 (+)NCBIMGSCv36mm8
Celera8121,162,779 - 121,179,840 (+)NCBICelera
Cytogenetic Map8E1NCBI
cM Map863.37NCBI
Atmin
(Chinchilla lanigera - long-tailed chinchilla)
Chinchilla AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChiLan1.0 EnsemblNW_0049555223,829,865 - 3,835,449 (+)EnsemblChiLan1.0
ChiLan1.0NW_0049555223,829,875 - 3,835,449 (+)NCBIChiLan1.0ChiLan1.0
ATMIN
(Pan paniscus - bonobo/pygmy chimpanzee)
Bonobo AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
NHGRI_mPanPan1-v21890,788,124 - 90,797,462 (+)NCBINHGRI_mPanPan1-v2
NHGRI_mPanPan11696,707,583 - 96,719,096 (+)NCBINHGRI_mPanPan1
Mhudiblu_PPA_v01661,642,394 - 61,653,921 (+)NCBIMhudiblu_PPA_v0Mhudiblu_PPA_v0panPan3
PanPan1.11681,075,807 - 81,081,641 (+)NCBIpanpan1.1PanPan1.1panPan2
ATMIN
(Canis lupus familiaris - dog)
Dog AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
CanFam3.1570,779,676 - 70,795,829 (-)NCBICanFam3.1CanFam3.1canFam3CanFam3.1
CanFam3.1 Ensembl570,782,853 - 70,795,888 (-)EnsemblCanFam3.1canFam3CanFam3.1
Dog10K_Boxer_Tasha570,728,614 - 70,744,741 (-)NCBIDog10K_Boxer_Tasha
ROS_Cfam_1.0571,084,025 - 71,100,838 (-)NCBIROS_Cfam_1.0
ROS_Cfam_1.0 Ensembl571,086,034 - 71,100,940 (-)EnsemblROS_Cfam_1.0 Ensembl
UMICH_Zoey_3.1571,026,491 - 71,043,285 (-)NCBIUMICH_Zoey_3.1
UNSW_CanFamBas_1.0570,861,713 - 70,878,528 (-)NCBIUNSW_CanFamBas_1.0
UU_Cfam_GSD_1.0571,339,240 - 71,356,057 (-)NCBIUU_Cfam_GSD_1.0
Atmin
(Ictidomys tridecemlineatus - thirteen-lined ground squirrel)
Squirrel AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HiC_Itri_2X56,872,492 - 57,019,573 (+)NCBIHiC_Itri_2
SpeTri2.0 EnsemblNW_00493647528,711,984 - 28,719,281 (+)EnsemblSpeTri2.0SpeTri2.0 Ensembl
SpeTri2.0NW_0049365473,192,904 - 3,339,985 (+)NCBISpeTri2.0SpeTri2.0SpeTri2.0
ATMIN
(Sus scrofa - pig)
Pig AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Sscrofa11.1 Ensembl67,208,158 - 7,223,155 (-)EnsemblSscrofa11.1susScr11Sscrofa11.1
Sscrofa11.167,209,512 - 7,223,195 (-)NCBISscrofa11.1Sscrofa11.1susScr11Sscrofa11.1
ATMIN
(Chlorocebus sabaeus - green monkey)
Green Monkey AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChlSab1.1566,492,443 - 66,503,813 (+)NCBIChlSab1.1ChlSab1.1chlSab2
ChlSab1.1 Ensembl566,492,599 - 66,503,908 (+)EnsemblChlSab1.1ChlSab1.1 EnsemblchlSab2
Vero_WHO_p1.0NW_0236660479,331,660 - 9,343,059 (-)NCBIVero_WHO_p1.0Vero_WHO_p1.0
Atmin
(Heterocephalus glaber - naked mole-rat)
Naked Mole-Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HetGla_female_1.0 EnsemblNW_0046247466,293,132 - 6,306,426 (-)EnsemblHetGla_female_1.0HetGla_female_1.0 EnsemblhetGla2
HetGla 1.0NW_0046247466,290,715 - 6,305,780 (-)NCBIHetGla_female_1.0HetGla 1.0hetGla2

Variants

.
Variants in Atmin
71 total Variants
miRNA Target Status

Predicted Target Of
Summary Value
Count of predictions:479
Count of miRNA genes:246
Interacting mature miRNAs:319
Transcripts:ENSRNOT00000015180
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 (mRatBN7.2)
The following QTLs overlap with this region.    Full Report CSV TAB Printer Gviewer
RGD IDSymbolNameLODP ValueTraitSub TraitChrStartStopSpecies
9589102Slep13Serum leptin concentration QTL 134.630.001blood leptin amount (VT:0005667)plasma leptin level (CMO:0000781)1956937445569374Rat
8694186Bw152Body weight QTL 1523.340.001body mass (VT:0001259)body weight gain (CMO:0000420)1956937445569374Rat
7247442Uae39Urinary albumin excretion QTL 39urine albumin amount (VT:0002871)urine albumin excretion rate (CMO:0000757)19218792746708701Rat
724566Uae12Urinary albumin excretion QTL 125urine albumin amount (VT:0002871)urine albumin level (CMO:0000130)19218792756457239Rat
61447Tcas1Tongue tumor susceptibility QTL 16.08tongue integrity trait (VT:0010553)squamous cell carcinoma of the tongue maximum tumor diameter (CMO:0001875)19231612147316121Rat
2317848Alcrsp21Alcohol response QTL 211.8999999761581420.05response to alcohol trait (VT:0010489)duration of loss of righting reflex (CMO:0002289)19320477748204777Rat
1331737Uae29Urinary albumin excretion QTL 295.5urine albumin amount (VT:0002871)urine albumin level (CMO:0000130)19409615555283277Rat
7411549Bw130Body weight QTL 13050.001body mass (VT:0001259)body weight gain (CMO:0000420)191545586057337602Rat
1331788Rf45Renal function QTL 452.818kidney blood vessel physiology trait (VT:0100012)absolute change in renal blood flow rate (CMO:0001168)191560502346559041Rat
1578764Stresp19Stress response QTL 193.60.001blood renin amount (VT:0003349)plasma renin activity level (CMO:0000116)191563020157337602Rat
2298478Eau8Experimental allergic uveoretinitis QTL 80.0163uvea integrity trait (VT:0010551)experimental autoimmune uveitis score (CMO:0001504)191715443357337602Rat
61350Bp32Blood pressure QTL 320.012arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)192048357557337602Rat
724546Kidm3Kidney mass QTL 33.1kidney mass (VT:0002707)calculated kidney weight (CMO:0000160)192932249057337602Rat
1358200Insglur2Insulin/glucose ratio QTL 24.1blood glucose amount (VT:0000188)serum insulin level (CMO:0000358)193383821455283146Rat
1358200Insglur2Insulin/glucose ratio QTL 24.1blood glucose amount (VT:0000188)serum glucose level (CMO:0000543)193383821455283146Rat
5135224Leukc1Leukocyte quantity QTL 1eosinophil quantity (VT:0002602)blood eosinophil count (CMO:0000033)194434021455283277Rat

Markers in Region
RH133499  
Rat AssemblyChrPosition (strand)SourceJBrowse
Cytogenetic Map19q12UniSTS


Expression


Sequence


Reference Sequences
RefSeq Acc Id: ENSRNOT00000015180   ⟹   ENSRNOP00000015180
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2 Ensembl1944,996,356 - 45,013,605 (+)Ensembl
RefSeq Acc Id: NM_001191786   ⟹   NP_001178715
RefSeq Status: VALIDATED
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr81961,905,343 - 61,922,442 (+)NCBI
mRatBN7.21944,996,506 - 45,013,605 (+)NCBI
Rnor_6.01949,482,482 - 49,499,682 (+)NCBI
Rnor_5.01960,273,787 - 60,290,987 (+)NCBI
Celera1944,269,716 - 44,286,805 (+)NCBI
Sequence:
RefSeq Acc Id: XM_039097804   ⟹   XP_038953732
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr81961,914,712 - 61,922,443 (+)NCBI
mRatBN7.21945,005,875 - 45,013,606 (+)NCBI
Protein Sequences
Protein RefSeqs NP_001178715 (Get FASTA)   NCBI Sequence Viewer  
  XP_038953732 (Get FASTA)   NCBI Sequence Viewer  
GenBank Protein AAI05858 (Get FASTA)   NCBI Sequence Viewer  
  EDL92639 (Get FASTA)   NCBI Sequence Viewer  
Ensembl Protein ENSRNOP00000015180
  ENSRNOP00000015180.8
Reference Protein Sequences
RefSeq Acc Id: NP_001178715   ⟸   NM_001191786
- UniProtKB: F1LN81 (UniProtKB/TrEMBL)
- Sequence:
RefSeq Acc Id: XP_038953732   ⟸   XM_039097804
- Peptide Label: isoform X1
- UniProtKB: Q3B8Q7 (UniProtKB/TrEMBL)
RefSeq Acc Id: ENSRNOP00000015180   ⟸   ENSRNOT00000015180
Protein Domains
C2H2-type

Protein Structures
Name Modeler Protein Id AA Range Protein Structure
AF-F1LN81-F1-model_v2 AlphaFold F1LN81 1-478 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:1305781 AgrOrtholog
BioCyc Gene G2FUF-5560 BioCyc
Ensembl Genes ENSRNOG00000011422 Ensembl, ENTREZGENE, UniProtKB/TrEMBL
Ensembl Transcript ENSRNOT00000015180 ENTREZGENE
  ENSRNOT00000015180.8 UniProtKB/TrEMBL
Gene3D-CATH Classic Zinc Finger UniProtKB/TrEMBL
IMAGE_CLONE IMAGE:7455943 IMAGE-MGC_LOAD
InterPro Znf_C2H2_type UniProtKB/TrEMBL
KEGG Report rno:315037 UniProtKB/TrEMBL
MGC_CLONE MGC:125240 IMAGE-MGC_LOAD
NCBI Gene 315037 ENTREZGENE
PANTHER ATM INTERACTOR UniProtKB/TrEMBL
  ATM INTERACTOR UniProtKB/TrEMBL
PhenoGen Atmin PhenoGen
PROSITE ZINC_FINGER_C2H2_1 UniProtKB/TrEMBL
RatGTEx ENSRNOG00000011422 RatGTEx
SMART ZnF_C2H2 UniProtKB/TrEMBL
UniProt F1LN81 ENTREZGENE, UniProtKB/TrEMBL
  Q3B8Q7 ENTREZGENE, UniProtKB/TrEMBL


Nomenclature History
Date Current Symbol Current Name Previous Symbol Previous Name Description Reference Status
2008-03-31 Atmin  ATM interactor  Asciz  ATM/ATR-Substrate Chk2-Interacting Zn2+-finger protein  Nomenclature updated to reflect human and mouse nomenclature 1299863 APPROVED
2008-03-06 Asciz  ATM/ATR-Substrate Chk2-Interacting Zn2+-finger protein  RGD1305781  similar to mKIAA0431 protein  Nomenclature updated to reflect human and mouse nomenclature 1299863 APPROVED
2006-03-07 RGD1305781  similar to mKIAA0431 protein  RGD1305781_predicted  similar to mKIAA0431 protein (predicted)  Symbol and Name status set to approved 1299863 APPROVED
2005-01-20 RGD1305781_predicted  similar to mKIAA0431 protein (predicted)  LOC315037_predicted    Symbol and Name status set to approved 1331353 APPROVED
2005-01-12 LOC315037_predicted  similar to mKIAA0431 protein (predicted)      Symbol and Name status set to provisional 70820 PROVISIONAL