Actl11 (actin-like 11) - Rat Genome Database

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Gene: Actl11 (actin-like 11) Rattus norvegicus
Analyze
No known orthologs.
Symbol: Actl11
Name: actin-like 11
RGD ID: 1310036
Description:
Type: protein-coding
RefSeq Status: VALIDATED
Previously known as: hypothetical protein LOC316000; LOC316000; RGD1310036; similar to RIKEN cDNA 4921517D21; Tact3; testis-specific actin-related protein 3; uncharacterized protein LOC316000
RGD Orthologs
Alliance Genes
More Info homologs ...
Latest Assembly: mRatBN7.2 - mRatBN7.2 Assembly
Position:
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCr88117,497,759 - 117,501,452 (+)NCBIGRCr8
mRatBN7.28108,619,143 - 108,622,836 (+)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl8108,618,536 - 108,623,629 (+)EnsemblmRatBN7.2 Ensembl
UTH_Rnor_SHR_Utx8114,245,586 - 114,249,279 (+)NCBIRnor_SHRUTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.08112,444,773 - 112,448,466 (+)NCBIRnor_SHRSPUTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.08110,287,549 - 110,291,242 (+)NCBIRnor_WKYUTH_Rnor_WKY_Bbb_1.0
Rnor_6.08116,708,027 - 116,711,716 (+)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl8116,708,027 - 116,711,716 (+)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.08116,062,361 - 116,066,050 (+)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.48113,197,891 - 113,201,580 (+)NCBIRGSC3.4RGSC_v3.4rn4RGSC3.4
RGSC_v3.18113,217,345 - 113,221,035 (+)NCBI
Celera8107,923,533 - 107,927,222 (+)NCBICelera
Cytogenetic Map8q32NCBI
JBrowse: View Region in Genome Browser (JBrowse)
Model


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. Rat ISS GO annotations from MGI mouse gene data--August 2006 MGD data from the GO Consortium
3. GOA pipeline RGD automated data pipeline
4. ClinVar Automated Import and Annotation Pipeline RGD automated import pipeline for ClinVar variants, variant-to-disease annotations and gene-to-disease annotations
5. Data Import for Chemical-Gene Interactions RGD automated import pipeline for gene-chemical interactions
Additional References at PubMed
PMID:24038581  


Genomics

Variants

.
Variants in Actl11
2 total Variants
miRNA Target Status

Predicted Target Of
Summary Value
Count of predictions:125
Count of miRNA genes:100
Interacting mature miRNAs:110
Transcripts:ENSRNOT00000047309
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
1581557Eae16Experimental allergic encephalomyelitis QTL 163.8nervous system integrity trait (VT:0010566)experimental autoimmune encephalomyelitis incidence/prevalence measurement (CMO:0001046)88462195110921472Rat
631650Stl6Serum triglyceride level QTL 640.0019blood triglyceride amount (VT:0002644)plasma triglyceride level (CMO:0000548)810378157112202585Rat
1554321Bmd3Bone mineral density QTL 37.90.0001femur mineral mass (VT:0010011)volumetric bone mineral density (CMO:0001553)840952565123900184Rat
70197BpQTLcluster8Blood pressure QTL cluster 83.482arterial blood pressure trait (VT:2000000)mean arterial blood pressure (CMO:0000009)846531639119088626Rat
70197BpQTLcluster8Blood pressure QTL cluster 83.482arterial blood pressure trait (VT:2000000)pulse pressure (CMO:0000292)846531639119088626Rat
70197BpQTLcluster8Blood pressure QTL cluster 83.482arterial blood pressure trait (VT:2000000)absolute change in systolic blood pressure (CMO:0000607)846531639119088626Rat
70197BpQTLcluster8Blood pressure QTL cluster 83.482arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)846531639119088626Rat
2303171Bp331Blood pressure QTL 3315.570.005arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)861290298119084929Rat
631653Bp125Blood pressure QTL 1253.3arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)866142385111142385Rat
631210Bw3Body weight QTL35.9mesenteric fat pad mass (VT:0010427)mesenteric fat pad weight to body weight ratio (CMO:0000654)869349194112783834Rat
1300171Bp184Blood pressure QTL 1843.66arterial blood pressure trait (VT:2000000)blood pressure time series experimental set point of the baroreceptor response (CMO:0002593)870513503118219066Rat
8694446Bw170Body weight QTL 17012.070.001retroperitoneal fat pad mass (VT:0010430)retroperitoneal fat pad weight to body weight ratio (CMO:0000635)871888757116888757Rat
9590292Uminl3Urine mineral level QTL 33.620.001urine mineral amount (VT:0015086)urine electrolyte level (CMO:0000593)871888757116888757Rat
8694200Abfw4Abdominal fat weight QTL 49.070.001visceral adipose mass (VT:0010063)abdominal fat pad weight to body weight ratio (CMO:0000095)871888757116888757Rat
8694392Bw161Body weight QTL 1618.060.001body lean mass (VT:0010483)lean tissue morphological measurement (CMO:0002184)871888757116888757Rat
1549909Stresp11Stress response QTL 116.830.0019stress-related behavior trait (VT:0010451)number of approaches toward negative stimulus before onset of defensive burying response (CMO:0001960)873473045118473045Rat
2300181Bmd55Bone mineral density QTL 555.70.0001femur mineral mass (VT:0010011)volumetric bone mineral density (CMO:0001553)876468691121468691Rat
61437Cia6Collagen induced arthritis QTL 6joint integrity trait (VT:0010548)joint inflammation composite score (CMO:0000919)882460758122812818Rat
2313400Anxrr25Anxiety related response QTL 25aggression-related behavior trait (VT:0015014)tameness/aggressiveness composite score (CMO:0002136)889265192114019816Rat
738011Anxrr9Anxiety related response QTL 96.1exploratory behavior trait (VT:0010471)number of entries into a discrete space in an experimental apparatus (CMO:0000960)893535351123900184Rat
1358893Bp263Blood pressure QTL 2635.01arterial blood pressure trait (VT:2000000)mean arterial blood pressure (CMO:0000009)893965141123900184Rat
1358903Bp252Blood pressure QTL 25270.0001arterial blood pressure trait (VT:2000000)mean arterial blood pressure (CMO:0000009)893965141123900184Rat
738014Anxrr15Anxiety related response QTL 153.60.005locomotor behavior trait (VT:0001392)amount of experiment time spent in a discrete space in an experimental apparatus (CMO:0000958)895718998123900184Rat
2300182Bmd56Bone mineral density QTL 565.4femur mineral mass (VT:0010011)volumetric bone mineral density (CMO:0001553)895718998123900184Rat
724539Cm19Cardiac mass QTL 192.6heart mass (VT:0007028)calculated heart weight (CMO:0000073)8100149864120994388Rat
631217Activ1Activity QTL 115.9voluntary movement trait (VT:0003491)number of photobeam interruptions in an experimental apparatus (CMO:0001517)8102370617108923645Rat

Markers in Region
BE118801  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.28108,619,729 - 108,619,911 (+)MAPPERmRatBN7.2
Rnor_6.08116,708,614 - 116,708,795NCBIRnor6.0
Rnor_5.08116,062,948 - 116,063,129UniSTSRnor5.0
RGSC_v3.48113,198,478 - 113,198,659UniSTSRGSC3.4
Celera8107,924,120 - 107,924,301UniSTS
RH 3.4 Map81120.8UniSTS
Cytogenetic Map8q32UniSTS


Expression


RNA-SEQ Expression
High: > 1000 TPM value   Medium: Between 11 and 1000 TPM
Low: Between 0.5 and 10 TPM   Below Cutoff: < 0.5 TPM

alimentary part of gastrointestinal system circulatory system endocrine system exocrine system hemolymphoid system hepatobiliary system integumental system musculoskeletal system nervous system reproductive system respiratory system appendage
High
Medium 7
Low
Below cutoff 1 3 3 1 3 1 2 4 11 1 1 2

Sequence


Reference Sequences
RefSeq Acc Id: ENSRNOT00000047309   ⟹   ENSRNOP00000064923
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2 Ensembl8108,618,536 - 108,623,629 (+)Ensembl
Rnor_6.0 Ensembl8116,708,027 - 116,711,716 (+)Ensembl
RefSeq Acc Id: NM_001024788   ⟹   NP_001019959
RefSeq Status: VALIDATED
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr88117,497,759 - 117,501,452 (+)NCBI
mRatBN7.28108,619,143 - 108,622,836 (+)NCBI
Rnor_6.08116,708,027 - 116,711,716 (+)NCBI
Rnor_5.08116,062,361 - 116,066,050 (+)NCBI
RGSC_v3.48113,197,891 - 113,201,580 (+)RGD
Celera8107,923,533 - 107,927,222 (+)RGD
Sequence:
Protein Sequences
Protein RefSeqs NP_001019959 (Get FASTA)   NCBI Sequence Viewer  
GenBank Protein AAU87362 (Get FASTA)   NCBI Sequence Viewer  
  EDL77210 (Get FASTA)   NCBI Sequence Viewer  
Ensembl Protein ENSRNOP00000064923
  ENSRNOP00000064923.1
Reference Protein Sequences
RefSeq Acc Id: NP_001019959   ⟸   NM_001024788
- UniProtKB: M0R682 (UniProtKB/TrEMBL),   A6I317 (UniProtKB/TrEMBL),   Q4VSW4 (UniProtKB/TrEMBL)
- Sequence:
RefSeq Acc Id: ENSRNOP00000064923   ⟸   ENSRNOT00000047309

Protein Structures
Name Modeler Protein Id AA Range Protein Structure
AF-M0R682-F1-model_v2 AlphaFold M0R682 1-1218 view protein structure

Transcriptome

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

Promoters
RGD ID:13696283
Promoter ID:EPDNEW_R6808
Type:multiple initiation site
Name:Actl11_1
Description:actin-like 11
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_6.08116,708,011 - 116,708,071EPDNEW

Additional Information

Database Acc Id Source(s)
AGR Gene RGD:1310036 AgrOrtholog
BioCyc Gene G2FUF-29168 BioCyc
Ensembl Genes ENSRNOG00000032642 Ensembl, ENTREZGENE, UniProtKB/TrEMBL
Ensembl Transcript ENSRNOT00000047309 ENTREZGENE
  ENSRNOT00000047309.5 UniProtKB/TrEMBL
Gene3D-CATH 3.30.420.40 UniProtKB/TrEMBL
InterPro Actin-related UniProtKB/TrEMBL
  ATPase_NBD UniProtKB/TrEMBL
KEGG Report rno:316000 UniProtKB/TrEMBL
NCBI Gene 316000 ENTREZGENE
PANTHER ACTIN-LIKE 11 UniProtKB/TrEMBL
  PTHR11937 UniProtKB/TrEMBL
Pfam Actin UniProtKB/TrEMBL
PhenoGen Actl11 PhenoGen
PRINTS ACTIN UniProtKB/TrEMBL
RatGTEx ENSRNOG00000032642 RatGTEx
SMART ACTIN UniProtKB/TrEMBL
Superfamily-SCOP SSF53067 UniProtKB/TrEMBL
UniProt A6I317 ENTREZGENE, UniProtKB/TrEMBL
  M0R682 ENTREZGENE, UniProtKB/TrEMBL
  Q4VSW4 ENTREZGENE, UniProtKB/TrEMBL


Nomenclature History
Date Current Symbol Current Name Previous Symbol Previous Name Description Reference Status
2012-11-21 Actl11  actin-like 11  RGD1310036  similar to RIKEN cDNA 4921517D21  Nomenclature updated to reflect human and mouse nomenclature 1299863 APPROVED
2005-12-06 RGD1310036  similar to RIKEN cDNA 4921517D21  RGD1310036_predicted  similar to RIKEN cDNA 4921517D21 (predicted)  Symbol and Name updated 1559027 APPROVED
2005-01-20 RGD1310036_predicted  similar to RIKEN cDNA 4921517D21 (predicted)  LOC316000_predicted    Symbol and Name status set to approved 1331353 APPROVED
2005-01-12 LOC316000_predicted  similar to RIKEN cDNA 4921517D21 (predicted)      Symbol and Name status set to provisional 70820 PROVISIONAL