Atmin (ATM interactor) - Rat Genome Database

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Gene: Atmin (ATM interactor) Rattus norvegicus
Analyze
Symbol: Atmin (Ensembl: AABR07043951.1)
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. Predicted to be active in nucleus. 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
Black Rat
Alliance Orthologs
More Info more info ...
Related Pseudogenes: Atmin-ps1   Atmin-ps2  
Latest Assembly: GRCr8 - GRCr8 Assembly
Position:
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCr81961,905,343 - 61,922,443 (+)NCBIGRCr8GRCr8GRCr8
GRCr8 Ensembl1961,905,144 - 61,922,443 (+)EnsemblGRCr8
mRatBN7.21944,996,506 - 45,013,606 (+)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl1944,996,356 - 45,013,605 (+)EnsemblmRatBN7.2
UTH_Rnor_SHR_Utx1951,806,281 - 51,823,383 (+)NCBIUTH_Rnor_SHR_UtxUTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.01952,459,296 - 52,476,398 (+)NCBIUTH_Rnor_SHRSP_BbbUtx_1.0UTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.01954,703,537 - 54,720,643 (+)NCBIUTH_Rnor_WKY_Bbb_1.0UTH_Rnor_WKY_Bbb_1.0
Rnor_6.01949,482,482 - 49,499,682 (+)NCBIRnor_6.0Rnor_6.0rn6Rnor6.0
Rnor_5.01960,273,787 - 60,290,987 (+)NCBIRnor_5.0Rnor_5.0rn5
RGSC_v3.41947,054,050 - 47,071,395 (+)NCBIRGSC_v3.4RGSC_v3.4rn4
Celera1944,269,716 - 44,286,805 (+)NCBICelera
RGSC_v3.1771,090,419 - 71,092,881 (-)NCBI
Cytogenetic Map19q12NCBI
JBrowse:




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 (+)NCBIGRCr8GRCr8GRCr8
GRCr8 Ensembl1961,905,144 - 61,922,443 (+)EnsemblGRCr8
mRatBN7.21944,996,506 - 45,013,606 (+)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl1944,996,356 - 45,013,605 (+)EnsemblmRatBN7.2
UTH_Rnor_SHR_Utx1951,806,281 - 51,823,383 (+)NCBIUTH_Rnor_SHR_UtxUTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.01952,459,296 - 52,476,398 (+)NCBIUTH_Rnor_SHRSP_BbbUtx_1.0UTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.01954,703,537 - 54,720,643 (+)NCBIUTH_Rnor_WKY_Bbb_1.0UTH_Rnor_WKY_Bbb_1.0
Rnor_6.01949,482,482 - 49,499,682 (+)NCBIRnor_6.0Rnor_6.0rn6Rnor6.0
Rnor_5.01960,273,787 - 60,290,987 (+)NCBIRnor_5.0Rnor_5.0rn5
RGSC_v3.41947,054,050 - 47,071,395 (+)NCBIRGSC_v3.4RGSC_v3.4rn4
Celera1944,269,716 - 44,286,805 (+)NCBICelera
RGSC_v3.1771,090,419 - 71,092,881 (-)NCBI
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 (+)Ensemblhg38GRCh38
GRCh371681,069,447 - 81,080,955 (+)NCBIGRCh37GRCh37hg19GRCh37
Build 361679,626,959 - 79,638,452 (+)NCBIBuild 36Build 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 EnsemblGRCm39
GRCm388116,943,383 - 116,960,445 (+)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl8116,943,393 - 116,960,445 (+)Ensemblmm10GRCm38
MGSCv378119,467,293 - 119,484,345 (+)NCBIMGSCv37MGSCv37mm9NCBIm37
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 (+)Ensembl
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 (-)EnsemblcanFam3CanFam3.1
Dog10K_Boxer_Tasha570,728,614 - 70,744,741 (-)NCBIDog10K_Boxer_TashaDog10K_Boxer_Tasha
ROS_Cfam_1.0571,084,025 - 71,100,838 (-)NCBIROS_Cfam_1.0ROS_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_1.0UU_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 (+)EnsemblSpeTri2.0 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 (-)EnsemblsusScr11Sscrofa11.1
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 (+)EnsemblChlSab1.1 EnsemblchlSab2Vervet-AGM
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_1.0 EnsemblhetGla2HetGla_female_1.0 Ensembl
HetGla 1.0NW_0046247466,290,715 - 6,305,780 (-)NCBIHetGla 1.0HetGla 1.0hetGla2
Atmin
(Rattus rattus - black rat)
Black Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Rrattus_CSIRO_v11736,579,194 - 36,596,183 (+)NCBIRrattus_CSIRO_v1

miRNA Target Status (No longer updated)

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 (GRCr8)
The following QTLs overlap with this region.    Full Report CSV TAB Printer Gviewer
RGD IDSymbolNameLODP ValueTraitSub TraitChrStartStopSpecies
61447Tcas1Tongue tumor susceptibility QTL 16.08tongue integrity trait (VT:0010553)squamous cell carcinoma of the tongue maximum tumor diameter (CMO:0001875)191922068964220689Rat
631840Niddm38Non-insulin dependent diabetes mellitus QTL 383.86blood glucose amount (VT:0000188)blood glucose level (CMO:0000046)191032907674246245Rat
724546Kidm3Kidney mass QTL 33.1kidney mass (VT:0002707)calculated kidney weight (CMO:0000160)194622677874246245Rat
7411549Bw130Body weight QTL 13050.001body mass (VT:0001259)body weight gain (CMO:0000420)193236531174246245Rat
1331737Uae29Urinary albumin excretion QTL 295.5urine albumin amount (VT:0002871)urine albumin level (CMO:0000130)193628974246245Rat
724518Uae19Urinary albumin excretion QTL 195.5urine albumin amount (VT:0002871)urine albumin excretion rate (CMO:0000757)192409397369093973Rat
61423Cia14Collagen induced arthritis QTL 143joint integrity trait (VT:0010548)joint inflammation composite score (CMO:0000919)191083361874246245Rat
2303628Vencon9Ventilatory control QTL 90.005respiration trait (VT:0001943)minute ventilation (CMO:0000132)192318858668188586Rat
2313395Anxrr26Anxiety related response QTL 26aggression-related behavior trait (VT:0015014)tameness/aggressiveness composite score (CMO:0002136)194438513474246245Rat
1578764Stresp19Stress response QTL 193.60.001blood renin amount (VT:0003349)plasma renin activity level (CMO:0000116)193253961574246245Rat
5135224Leukc1Leukocyte quantity QTL 1eosinophil quantity (VT:0002602)blood eosinophil count (CMO:0000033)196124916174246245Rat
1331788Rf45Renal function QTL 452.818kidney blood vessel physiology trait (VT:0100012)absolute change in renal blood flow rate (CMO:0001168)193177788874246245Rat
1554318Bmd5Bone mineral density QTL 512.10.0001lumbar vertebra mineral mass (VT:0010511)volumetric bone mineral density (CMO:0001553)192318858668188586Rat
2317848Alcrsp21Alcohol response QTL 211.8999999761581420.05response to alcohol trait (VT:0010489)duration of loss of righting reflex (CMO:0002289)192010930665109306Rat
7247442Uae39Urinary albumin excretion QTL 39urine albumin amount (VT:0002871)urine albumin excretion rate (CMO:0000757)19219431774246245Rat
1549835Tcas7Tongue tumor susceptibility QTL 70.001tongue integrity trait (VT:0010553)squamous cell carcinoma of the head and neck tumor number (CMO:0001876)194172254674246245Rat
724566Uae12Urinary albumin excretion QTL 125urine albumin amount (VT:0002871)urine albumin level (CMO:0000130)19219431774246245Rat

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


Expression

RNA-SEQ Expression

alimentary part of gastrointestinal system
appendage
circulatory system
ectoderm
hemolymphoid system
mesenchyme
mesoderm
musculoskeletal system
nervous system
renal system
reproductive system
sensory system
visual system
7 1 18 50 67 138 95 11 49 36 32 17 17

Sequence


Ensembl Acc Id: ENSRNOT00000015180   ⟹   ENSRNOP00000015180
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr8 Ensembl1961,905,309 - 61,922,443 (+)Ensembl
mRatBN7.2 Ensembl1944,996,356 - 45,013,605 (+)Ensembl
Ensembl Acc Id: ENSRNOT00000150796   ⟹   ENSRNOP00000099499
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr8 Ensembl1961,905,144 - 61,922,443 (+)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
  ENSRNOP00000099499.1
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)
Ensembl Acc Id: ENSRNOP00000015180   ⟸   ENSRNOT00000015180
Ensembl Acc Id: ENSRNOP00000099499   ⟸   ENSRNOT00000150796
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
  ENSRNOT00000015180.9 UniProtKB/TrEMBL
  ENSRNOT00000150796.1 UniProtKB/TrEMBL
Gene3D-CATH Classic Zinc Finger UniProtKB/TrEMBL
IMAGE_CLONE IMAGE:7455943 IMAGE-MGC_LOAD
InterPro ATMIN UniProtKB/TrEMBL
  C2H2_ASCIZ_1st_2nd UniProtKB/TrEMBL
  Znf_C2H2_ASCIZ_4th UniProtKB/TrEMBL
  Znf_C2H2_type UniProtKB/TrEMBL
  Znf_C2HC_ASCIZ_3rd 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
Pfam C2H2_ASCIZ UniProtKB/TrEMBL
  C2H2_ASCIZ_4th UniProtKB/TrEMBL
  C2HC_ASCIZ UniProtKB/TrEMBL
PhenoGen Atmin PhenoGen
PROSITE ZINC_FINGER_C2H2_1 UniProtKB/TrEMBL
RatGTEx ENSRNOG00000011422 RatGTEx
SMART ZnF_C2H2 UniProtKB/TrEMBL
UniProt A0ABK0LEG7_RAT UniProtKB/TrEMBL
  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