Abracl (ABRA C-terminal like) - Rat Genome Database

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Gene: Abracl (ABRA C-terminal like) Rattus norvegicus
Analyze
Symbol: Abracl
Name: ABRA C-terminal like
RGD ID: 1583256
Description: Predicted to be involved in regulation of actin filament-based process. Orthologous to human ABRACL (ABRA C-terminal like); INTERACTS WITH 2,3,7,8-tetrachlorodibenzodioxine; acrylamide; amitrole.
Type: protein-coding
RefSeq Status: VALIDATED
Previously known as: costars family protein ABRACL; hypothetical protein LOC685045; LOC685045; similar to Protein C6orf115; uncharacterized protein LOC685045
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
GRCr8114,474,802 - 14,484,992 (-)NCBIGRCr8GRCr8GRCr8
GRCr8 Ensembl114,474,803 - 14,485,055 (-)EnsemblGRCr8
mRatBN7.2112,654,951 - 12,665,143 (-)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl112,654,838 - 12,665,207 (-)EnsemblmRatBN7.2
UTH_Rnor_SHR_Utx112,426,988 - 12,437,196 (-)NCBIUTH_Rnor_SHR_UtxUTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.0118,428,914 - 18,439,123 (-)NCBIUTH_Rnor_SHRSP_BbbUtx_1.0UTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.0112,635,289 - 12,645,481 (-)NCBIUTH_Rnor_WKY_Bbb_1.0UTH_Rnor_WKY_Bbb_1.0
Rnor_6.0113,165,583 - 13,175,773 (-)NCBIRnor_6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl113,165,572 - 13,175,876 (-)Ensemblrn6Rnor6.0
Rnor_5.0114,859,230 - 14,869,420 (-)NCBIRnor_5.0Rnor_5.0rn5
RGSC_v3.4113,063,558 - 13,073,748 (-)NCBIRGSC_v3.4RGSC_v3.4rn4
Celera111,112,403 - 11,122,593 (-)NCBICelera
Cytogenetic Map1p12NCBI
JBrowse:




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. Data Import for Chemical-Gene Interactions RGD automated import pipeline for gene-chemical interactions
Additional References at PubMed
PMID:12477932  


Genomics

Comparative Map Data
Abracl
(Rattus norvegicus - Norway rat)
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCr8114,474,802 - 14,484,992 (-)NCBIGRCr8GRCr8GRCr8
GRCr8 Ensembl114,474,803 - 14,485,055 (-)EnsemblGRCr8
mRatBN7.2112,654,951 - 12,665,143 (-)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl112,654,838 - 12,665,207 (-)EnsemblmRatBN7.2
UTH_Rnor_SHR_Utx112,426,988 - 12,437,196 (-)NCBIUTH_Rnor_SHR_UtxUTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.0118,428,914 - 18,439,123 (-)NCBIUTH_Rnor_SHRSP_BbbUtx_1.0UTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.0112,635,289 - 12,645,481 (-)NCBIUTH_Rnor_WKY_Bbb_1.0UTH_Rnor_WKY_Bbb_1.0
Rnor_6.0113,165,583 - 13,175,773 (-)NCBIRnor_6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl113,165,572 - 13,175,876 (-)Ensemblrn6Rnor6.0
Rnor_5.0114,859,230 - 14,869,420 (-)NCBIRnor_5.0Rnor_5.0rn5
RGSC_v3.4113,063,558 - 13,073,748 (-)NCBIRGSC_v3.4RGSC_v3.4rn4
Celera111,112,403 - 11,122,593 (-)NCBICelera
Cytogenetic Map1p12NCBI
ABRACL
(Homo sapiens - human)
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh386139,028,745 - 139,043,302 (+)NCBIGRCh38GRCh38hg38GRCh38
GRCh38.p14 Ensembl6139,027,494 - 139,043,742 (+)Ensemblhg38GRCh38
GRCh376139,349,882 - 139,364,439 (+)NCBIGRCh37GRCh37hg19GRCh37
Build 366139,391,512 - 139,406,132 (+)NCBIBuild 36Build 36hg18NCBI36
Celera6140,089,868 - 140,104,496 (+)NCBICelera
Cytogenetic Map6q24.1NCBI
HuRef6136,911,451 - 136,925,964 (+)NCBIHuRef
CHM1_16139,612,858 - 139,627,484 (+)NCBICHM1_1
T2T-CHM13v2.06140,215,028 - 140,231,830 (+)NCBIT2T-CHM13v2.0
Abracl
(Mus musculus - house mouse)
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm391017,887,008 - 17,899,000 (-)NCBIGRCm39GRCm39mm39
GRCm39 Ensembl1017,887,008 - 17,899,036 (-)EnsemblGRCm39 EnsemblGRCm39
GRCm381018,011,260 - 18,023,252 (-)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl1018,011,260 - 18,023,288 (-)Ensemblmm10GRCm38
MGSCv371017,731,066 - 17,743,058 (-)NCBIMGSCv37MGSCv37mm9NCBIm37
MGSCv361017,700,677 - 17,728,665 (-)NCBIMGSCv36mm8
Celera1017,909,262 - 17,921,258 (-)NCBICelera
Cytogenetic Map10A3NCBI
cM Map107.39NCBI
Abracl
(Chinchilla lanigera - long-tailed chinchilla)
Chinchilla AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChiLan1.0 EnsemblNW_00495543620,634,071 - 20,645,609 (-)Ensembl
ChiLan1.0NW_00495543620,634,128 - 20,645,609 (-)NCBIChiLan1.0ChiLan1.0
ABRACL
(Pan paniscus - bonobo/pygmy chimpanzee)
Bonobo AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
NHGRI_mPanPan1-v25158,996,095 - 159,010,940 (+)NCBINHGRI_mPanPan1-v2
NHGRI_mPanPan16156,890,068 - 156,904,672 (+)NCBINHGRI_mPanPan1
Mhudiblu_PPA_v06136,789,968 - 136,804,723 (+)NCBIMhudiblu_PPA_v0Mhudiblu_PPA_v0panPan3
PanPan1.16140,871,265 - 140,885,938 (+)NCBIPanPan1.1PanPan1.1panPan2
PanPan1.1 Ensembl6140,871,264 - 140,889,288 (+)EnsemblpanPan2panpan1.1
ABRACL
(Canis lupus familiaris - dog)
Dog AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
CanFam3.1131,254,959 - 31,267,167 (+)NCBICanFam3.1CanFam3.1canFam3CanFam3.1
CanFam3.1 Ensembl131,254,551 - 31,275,981 (+)EnsemblcanFam3CanFam3.1
Dog10K_Boxer_Tasha132,128,027 - 32,140,741 (+)NCBIDog10K_Boxer_TashaDog10K_Boxer_Tasha
ROS_Cfam_1.0131,415,757 - 31,428,486 (+)NCBIROS_Cfam_1.0ROS_Cfam_1.0
ROS_Cfam_1.0 Ensembl131,416,541 - 31,428,489 (+)EnsemblROS_Cfam_1.0 Ensembl
UMICH_Zoey_3.1131,291,698 - 31,304,485 (+)NCBIUMICH_Zoey_3.1
UNSW_CanFamBas_1.0131,173,987 - 31,186,660 (+)NCBIUNSW_CanFamBas_1.0
UU_Cfam_GSD_1.0131,485,157 - 31,498,022 (+)NCBIUU_Cfam_GSD_1.0UU_Cfam_GSD_1.0
Abracl
(Ictidomys tridecemlineatus - thirteen-lined ground squirrel)
Squirrel AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HiC_Itri_2NW_024404946126,299,375 - 126,311,342 (+)NCBIHiC_Itri_2
SpeTri2.0 EnsemblNW_0049365606,078,625 - 6,090,612 (+)EnsemblSpeTri2.0 Ensembl
SpeTri2.0NW_0049365606,078,659 - 6,090,222 (+)NCBISpeTri2.0SpeTri2.0SpeTri2.0
ABRACL
(Sus scrofa - pig)
Pig AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Sscrofa11.1 Ensembl125,367,112 - 25,447,594 (-)EnsemblsusScr11Sscrofa11.1
Sscrofa11.1125,432,314 - 25,447,016 (-)NCBISscrofa11.1Sscrofa11.1susScr11Sscrofa11.1
Sscrofa10.2128,570,439 - 28,585,808 (-)NCBISscrofa10.2Sscrofa10.2susScr3
ABRACL
(Chlorocebus sabaeus - green monkey)
Green Monkey AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChlSab1.11334,354,533 - 34,369,070 (-)NCBIChlSab1.1ChlSab1.1chlSab2
ChlSab1.1 Ensembl1334,354,279 - 34,364,673 (-)EnsemblChlSab1.1 EnsemblchlSab2Vervet-AGM
Vero_WHO_p1.0NW_0236660406,497,900 - 6,512,731 (-)NCBIVero_WHO_p1.0Vero_WHO_p1.0
Abracl
(Heterocephalus glaber - naked mole-rat)
Naked Mole-Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HetGla_female_1.0 EnsemblNW_00462475314,922,862 - 14,935,567 (-)EnsemblHetGla_female_1.0 EnsemblhetGla2HetGla_female_1.0 Ensembl
HetGla 1.0NW_00462475314,923,097 - 14,935,432 (-)NCBIHetGla 1.0HetGla 1.0hetGla2
Abracl
(Rattus rattus - black rat)
Black Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Rrattus_CSIRO_v12218,867,407 - 218,877,720 (+)NCBIRrattus_CSIRO_v1

Variants

.
Variants in Abracl
27 total Variants
miRNA Target Status (No longer updated)

Predicted Target Of
Summary Value
Count of predictions:30
Count of miRNA genes:27
Interacting mature miRNAs:29
Transcripts:ENSRNOT00000016618
Prediction methods: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
2313090Bmd69Bone mineral density QTL 694.40.0001tibia mineral mass (VT:1000283)compact volumetric bone mineral density (CMO:0001730)1529322934184556Rat
631688Hcas2Hepatocarcinoma susceptibility QTL 230.0001liver integrity trait (VT:0010547)liver tumorous lesion number (CMO:0001068)1774611852746118Rat
4889451Eae29Experimental allergic encephalomyelitis QTL 295.51nervous system integrity trait (VT:0010566)experimental autoimmune encephalomyelitis severity score (CMO:0001419)1774612152746121Rat
70179Xhs2X-ray hypersensitivity QTL 23.2intestine integrity trait (VT:0010554)post-insult time to onset of moribundity (CMO:0001896)1143965634Rat
1354647Despr8Despair related QTL 80.0000341locomotor behavior trait (VT:0001392)amount of experiment time spent in a discrete space in an experimental apparatus (CMO:0000958)1126564886Rat
1558642Prcr2Prostate cancer resistance QTL 24.3prostate integrity trait (VT:0010571)area of ventral prostate occupied by tumorous lesions to total ventral prostate area ratio (CMO:0000899)11037949255379492Rat
7421626Bp360Blood pressure QTL 3600.001arterial blood pressure trait (VT:2000000)mean arterial blood pressure (CMO:0000009)1694102251941022Rat
2313070Bss52Bone structure and strength QTL 524.40.0001body length (VT:0001256)body length (CMO:0000013)1529322934184556Rat
1357401Bw43Body weight QTL 433.75body mass (VT:0001259)body weight (CMO:0000012)1690935351909353Rat
1600360Mcs16Mammary carcinoma susceptibility QTL 162.4mammary gland integrity trait (VT:0010552)mammary tumor number (CMO:0000343)1126564886Rat
5684998Bss101Bone structure and strength QTL 1013.6tibia strength trait (VT:1000284)tibia ultimate force (CMO:0001734)1690935351909353Rat
5684999Bss102Bone structure and strength QTL 1025.57e-07tibia strength trait (VT:1000284)tibia stiffness (CMO:0001735)1690935351909353Rat
2302038Pia31Pristane induced arthritis QTL 315.50.001blood autoantibody amount (VT:0003725)serum immunoglobulin M-type rheumatoid factor level relative to an arbitrary reference serum (CMO:0002111)11282049457820494Rat
2317755Glom22Glomerulus QTL 223.8urine protein amount (VT:0005160)urine protein level (CMO:0000591)1134184556Rat
1300170Rf6Renal function QTL 63.14renal blood flow trait (VT:2000006)absolute change in renal blood flow rate (CMO:0001168)1128483164Rat
631508Sald1Serum aldosterone level QTL 13.7blood aldosterone amount (VT:0005346)serum aldosterone level (CMO:0000487)11168446456684464Rat
2313053Bss51Bone structure and strength QTL 513.80.0001tibia length (VT:0004357)tibia length (CMO:0000450)1529322934184556Rat

Markers in Region
RH139648  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.2112,655,303 - 12,655,503 (+)MAPPERmRatBN7.2
Rnor_6.0113,165,936 - 13,166,135NCBIRnor6.0
Rnor_5.0114,859,583 - 14,859,782UniSTSRnor5.0
RGSC_v3.4113,063,911 - 13,064,110UniSTSRGSC3.4
Celera111,112,756 - 11,112,955UniSTS
RH 3.4 Map1129.81UniSTS
Cytogenetic Map1p12UniSTS


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 67 165 91 90 59 92 59 6 356 192 11 144 81 92 31 17 17

Sequence


Ensembl Acc Id: ENSRNOT00000084870   ⟹   ENSRNOP00000074648
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2 Ensembl112,654,838 - 12,665,207 (-)Ensembl
Rnor_6.0 Ensembl113,165,572 - 13,175,876 (-)Ensembl
Ensembl Acc Id: ENSRNOT00000103174   ⟹   ENSRNOP00000095788
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2 Ensembl112,654,838 - 12,659,469 (-)Ensembl
Ensembl Acc Id: ENSRNOT00000107631   ⟹   ENSRNOP00000083184
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2 Ensembl112,654,952 - 12,664,166 (-)Ensembl
Ensembl Acc Id: ENSRNOT00000155922   ⟹   ENSRNOP00000102282
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr8 Ensembl114,474,803 - 14,485,055 (-)Ensembl
RefSeq Acc Id: NM_001099647   ⟹   NP_001093117
RefSeq Status: VALIDATED
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr8114,474,802 - 14,484,992 (-)NCBI
mRatBN7.2112,654,951 - 12,665,143 (-)NCBI
Rnor_6.0113,165,583 - 13,175,773 (-)NCBI
Rnor_5.0114,859,230 - 14,869,420 (-)NCBI
RGSC_v3.4113,063,558 - 13,073,748 (-)RGD
Celera111,112,403 - 11,122,593 (-)RGD
Sequence:
Protein Sequences
Protein RefSeqs NP_001093117 (Get FASTA)   NCBI Sequence Viewer  
GenBank Protein AAH89921 (Get FASTA)   NCBI Sequence Viewer  
  EDL93765 (Get FASTA)   NCBI Sequence Viewer  
Ensembl Protein ENSRNOP00000102282
  ENSRNOP00000102282.1
RefSeq Acc Id: NP_001093117   ⟸   NM_001099647
- UniProtKB: A6JP93 (UniProtKB/TrEMBL),   A6JP92 (UniProtKB/TrEMBL)
- Sequence:
Ensembl Acc Id: ENSRNOP00000074648   ⟸   ENSRNOT00000084870
Ensembl Acc Id: ENSRNOP00000095788   ⟸   ENSRNOT00000103174
Ensembl Acc Id: ENSRNOP00000083184   ⟸   ENSRNOT00000107631
Ensembl Acc Id: ENSRNOP00000102282   ⟸   ENSRNOT00000155922
Protein Domains
Costars

Protein Structures
Name Modeler Protein Id AA Range Protein Structure
AF-D3ZSL2-F1-model_v2 AlphaFold D3ZSL2 1-81 view protein structure

Transcriptome

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

Promoters
RGD ID:13689504
Promoter ID:EPDNEW_R29
Type:initiation region
Name:Abracl_1
Description:ABRA C-terminal like
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_6.0113,175,805 - 13,175,865EPDNEW

Additional Information

Database Acc Id Source(s)
AGR Gene RGD:1583256 AgrOrtholog
BioCyc Gene G2FUF-62280 BioCyc
Ensembl Genes ENSRNOG00000051450 Ensembl
  ENSRNOG00000085760 Ensembl, ENTREZGENE, UniProtKB/TrEMBL
Ensembl Transcript ENSRNOT00000155922 ENTREZGENE
  ENSRNOT00000155922.1 UniProtKB/TrEMBL
Gene3D-CATH 1.10.10.1540 UniProtKB/TrEMBL
IMAGE_CLONE IMAGE:7306744 IMAGE-MGC_LOAD
InterPro Costars UniProtKB/TrEMBL
  Costars_dom UniProtKB/TrEMBL
  Costars_sf UniProtKB/TrEMBL
KEGG Report rno:685045 UniProtKB/TrEMBL
MGC_CLONE MGC:109201 IMAGE-MGC_LOAD
NCBI Gene 685045 ENTREZGENE
PANTHER COSTARS FAMILY PROTEIN ABRACL UniProtKB/TrEMBL
  PTHR46334 UniProtKB/TrEMBL
Pfam Costars UniProtKB/TrEMBL
PhenoGen Abracl PhenoGen
RatGTEx ENSRNOG00000051450 RatGTEx
  ENSRNOG00000085760 RatGTEx
SMART Costars UniProtKB/TrEMBL
UniProt A0ABK0LMJ6_RAT UniProtKB/TrEMBL
  A6JP92 ENTREZGENE, UniProtKB/TrEMBL
  A6JP93 ENTREZGENE, UniProtKB/TrEMBL


Nomenclature History
Date Current Symbol Current Name Previous Symbol Previous Name Description Reference Status
2012-09-26 Abracl  ABRA C-terminal like  LOC685045  similar to Protein C6orf115  Nomenclature updated to reflect human and mouse nomenclature 1299863 APPROVED
2006-11-19 LOC685045  similar to Protein C6orf115      Symbol and Name status set to provisional 70820 PROVISIONAL