Shfl (shiftless antiviral inhibitor of ribosomal frameshifting) - Rat Genome Database

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Gene: Shfl (shiftless antiviral inhibitor of ribosomal frameshifting) Mus musculus
Analyze
Symbol: Shfl
Name: shiftless antiviral inhibitor of ribosomal frameshifting
RGD ID: 1617995
MGI Page MGI
Description: Predicted to enable identical protein binding activity; ribosome binding activity; and sequence-specific mRNA binding activity. Predicted to be involved in several processes, including defense response to symbiont; regulation of translation; and viral translational frameshifting. Predicted to be located in P-body; cytosol; and nucleoplasm. Is expressed in midbrain. Orthologous to human SHFL (shiftless antiviral inhibitor of ribosomal frameshifting).
Type: protein-coding
RefSeq Status: VALIDATED
Previously known as: A230050P20Rik; hypothetical protein LOC319278; repressor of yield of DENV protein homolog; RIKEN cDNA A230050P20 gene; RyDEN; shiftless antiviral inhibitor of ribosomal frameshifting protein homolog; UPF0515 protein C19orf66 homolog
RGD Orthologs
Human
Rat
Chinchilla
Bonobo
Dog
Squirrel
Pig
Green Monkey
Naked Mole-Rat
Alliance Genes
More Info more info ...
Latest Assembly: GRCm39 - Mouse Genome Assembly GRCm39
Position:
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm39920,779,914 - 20,785,603 (+)NCBIGRCm39GRCm39mm39
GRCm39 Ensembl920,779,938 - 20,785,603 (+)EnsemblGRCm39 Ensembl
GRCm38920,868,635 - 20,874,307 (+)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl920,868,642 - 20,874,307 (+)EnsemblGRCm38mm10GRCm38
MGSCv37920,673,086 - 20,678,751 (+)NCBIGRCm37MGSCv37mm9NCBIm37
MGSCv36920,619,098 - 20,624,698 (+)NCBIMGSCv36mm8
Celera918,137,340 - 18,143,005 (+)NCBICelera
Cytogenetic Map9A3NCBI
cM Map97.65NCBI
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
cytoplasm  (ISO)
cytosol  (ISO)
nucleoplasm  (ISO)
nucleus  (ISO)
P-body  (ISO)

Molecular Function

Phenotype Annotations     Click to see Annotation Detail View

Mammalian Phenotype
References

References - curated
# Reference Title Reference Citation
1. Data Import for Chemical-Gene Interactions RGD automated import pipeline for gene-chemical interactions
Additional References at PubMed
PMID:10349636   PMID:11042159   PMID:11076861   PMID:11217851   PMID:12466851   PMID:12477932   PMID:14610273   PMID:16141072   PMID:16141073   PMID:20798045   PMID:21873635   PMID:24194600  
PMID:32325033   PMID:34873063  


Genomics

Comparative Map Data
Shfl
(Mus musculus - house mouse)
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm39920,779,914 - 20,785,603 (+)NCBIGRCm39GRCm39mm39
GRCm39 Ensembl920,779,938 - 20,785,603 (+)EnsemblGRCm39 Ensembl
GRCm38920,868,635 - 20,874,307 (+)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl920,868,642 - 20,874,307 (+)EnsemblGRCm38mm10GRCm38
MGSCv37920,673,086 - 20,678,751 (+)NCBIGRCm37MGSCv37mm9NCBIm37
MGSCv36920,619,098 - 20,624,698 (+)NCBIMGSCv36mm8
Celera918,137,340 - 18,143,005 (+)NCBICelera
Cytogenetic Map9A3NCBI
cM Map97.65NCBI
SHFL
(Homo sapiens - human)
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh381910,086,317 - 10,093,243 (+)NCBIGRCh38GRCh38hg38GRCh38
GRCh38.p14 Ensembl1910,086,122 - 10,093,252 (+)EnsemblGRCh38hg38GRCh38
GRCh371910,196,993 - 10,203,919 (+)NCBIGRCh37GRCh37hg19GRCh37
Build 361910,057,806 - 10,064,928 (+)NCBINCBI36Build 36hg18NCBI36
Celera1910,092,297 - 10,099,418 (+)NCBICelera
Cytogenetic Map19p13.2NCBI
HuRef199,777,615 - 9,784,585 (+)NCBIHuRef
CHM1_11910,197,078 - 10,204,203 (+)NCBICHM1_1
T2T-CHM13v2.01910,212,537 - 10,219,461 (+)NCBIT2T-CHM13v2.0
Shfl
(Rattus norvegicus - Norway rat)
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCr8827,683,560 - 27,690,269 (+)NCBIGRCr8
mRatBN7.2819,408,298 - 19,414,084 (+)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl819,408,333 - 19,413,971 (+)EnsemblmRatBN7.2 Ensembl
UTH_Rnor_SHR_Utx823,427,673 - 23,433,448 (+)NCBIRnor_SHRUTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.0821,725,519 - 21,731,295 (+)NCBIRnor_SHRSPUTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.0819,638,006 - 19,643,765 (+)NCBIRnor_WKYUTH_Rnor_WKY_Bbb_1.0
Rnor_6.0821,890,214 - 21,896,045 (+)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl821,890,319 - 21,896,031 (+)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.0821,946,550 - 21,952,295 (+)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.4819,893,861 - 19,899,475 (+)NCBIRGSC3.4RGSC_v3.4rn4RGSC3.4
Celera820,803,335 - 20,808,975 (+)NCBICelera
Cytogenetic Map8q13NCBI
Shfl
(Chinchilla lanigera - long-tailed chinchilla)
Chinchilla AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChiLan1.0 EnsemblNW_0049554951,431,023 - 1,440,821 (+)EnsemblChiLan1.0
ChiLan1.0NW_0049554951,431,677 - 1,437,035 (+)NCBIChiLan1.0ChiLan1.0
SHFL
(Pan paniscus - bonobo/pygmy chimpanzee)
Bonobo AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
NHGRI_mPanPan1-v22015,001,218 - 15,008,351 (+)NCBINHGRI_mPanPan1-v2
NHGRI_mPanPan11914,001,520 - 14,008,644 (+)NCBINHGRI_mPanPan1
Mhudiblu_PPA_v0199,634,718 - 9,641,824 (+)NCBIMhudiblu_PPA_v0Mhudiblu_PPA_v0panPan3
PanPan1.11910,293,967 - 10,301,067 (+)NCBIpanpan1.1PanPan1.1panPan2
PanPan1.1 Ensembl1910,293,967 - 10,301,067 (+)Ensemblpanpan1.1panPan2
SHFL
(Canis lupus familiaris - dog)
Dog AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
CanFam3.12050,961,557 - 50,966,261 (-)NCBICanFam3.1CanFam3.1canFam3CanFam3.1
CanFam3.1 Ensembl2050,961,551 - 50,965,961 (-)EnsemblCanFam3.1canFam3CanFam3.1
Dog10K_Boxer_Tasha2050,830,673 - 50,835,649 (-)NCBIDog10K_Boxer_Tasha
ROS_Cfam_1.02051,482,922 - 51,487,898 (-)NCBIROS_Cfam_1.0
ROS_Cfam_1.0 Ensembl2051,483,358 - 51,487,768 (-)EnsemblROS_Cfam_1.0 Ensembl
UMICH_Zoey_3.12050,690,819 - 50,695,795 (-)NCBIUMICH_Zoey_3.1
UNSW_CanFamBas_1.02051,117,829 - 51,122,806 (-)NCBIUNSW_CanFamBas_1.0
UU_Cfam_GSD_1.02051,358,731 - 51,363,707 (-)NCBIUU_Cfam_GSD_1.0
Shfl
(Ictidomys tridecemlineatus - thirteen-lined ground squirrel)
Squirrel AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HiC_Itri_2NW_024405118209,862,784 - 209,873,772 (-)NCBIHiC_Itri_2
SpeTri2.0 EnsemblNW_004936659473,889 - 493,978 (+)EnsemblSpeTri2.0SpeTri2.0 Ensembl
SpeTri2.0NW_004936659480,934 - 491,926 (+)NCBISpeTri2.0SpeTri2.0SpeTri2.0
SHFL
(Sus scrofa - pig)
Pig AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Sscrofa11.1 Ensembl268,942,450 - 68,948,989 (+)EnsemblSscrofa11.1susScr11Sscrofa11.1
Sscrofa11.1268,942,246 - 68,947,107 (+)NCBISscrofa11.1Sscrofa11.1susScr11Sscrofa11.1
Sscrofa10.2269,270,421 - 69,275,282 (+)NCBISscrofa10.2Sscrofa10.2susScr3
SHFL
(Chlorocebus sabaeus - green monkey)
Green Monkey AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChlSab1.169,152,015 - 9,162,883 (+)NCBIChlSab1.1ChlSab1.1chlSab2
ChlSab1.1 Ensembl69,152,100 - 9,163,871 (+)EnsemblChlSab1.1ChlSab1.1 EnsemblchlSab2
Vero_WHO_p1.0NW_02366607410,898,442 - 10,905,492 (-)NCBIVero_WHO_p1.0Vero_WHO_p1.0
Shfl
(Heterocephalus glaber - naked mole-rat)
Naked Mole-Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HetGla_female_1.0 EnsemblNW_0046248282,287,275 - 2,292,199 (+)EnsemblHetGla_female_1.0HetGla_female_1.0 EnsemblhetGla2
HetGla 1.0NW_0046248282,285,577 - 2,293,307 (+)NCBIHetGla_female_1.0HetGla 1.0hetGla2

Variants

.
Variants in Shfl
179 total Variants
miRNA Target Status

Predicted Target Of
Summary Value
Count of predictions:731
Count of miRNA genes:442
Interacting mature miRNAs:511
Transcripts:ENSMUST00000043911, ENSMUST00000175820, ENSMUST00000176142, ENSMUST00000176990, ENSMUST00000177067
Prediction methods: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 (GRCm39)
The following QTLs overlap with this region.    Full Report CSV TAB Printer Gviewer
RGD IDSymbolNameLODP ValueTraitSub TraitChrStartStopSpecies
4142326Tgq19_mtriglyceride QTL 19 (mouse)Not determined121060750Mouse
1300899Chol6_mcholesterol 6 (mouse)Not determined9129902913Mouse
13434920Dcollq1_mdifferential colonization level QTL 1 (mouse)9130341840Mouse
35673312Ari7_mantibody response to influenza 7, day 45, IgG3 (mouse)9780000122211296Mouse
1300849Sles4_msystemic lupus erythmatosus suppressor 4 (mouse)Not determined9910756237306370Mouse
13504833Bglu19_mblood glucose level 19 (mouse)9991076843910768Mouse
1300532Tbs2_mtuberculosis severity 2 (mouse)Not determined91236997046370114Mouse
10043917Obq37_mobesity QTL 37 (mouse)Not determined91339117547391175Mouse
1357637Si5lq2_mserum IGFBP-5 level QTL 2 (mouse)Not determined91541175149411890Mouse
4141591Cq4_mcholesterol QTL 4 (mouse)Not determined91541175149411890Mouse
1301421Lgth4_mbody length 4 (mouse)Not determined91541175149411890Mouse
4141447Cfmq2_mcystic fibrosis modifier QTL 2 (mouse)Not determined91541175149411890Mouse
12790993Adq1_maortic diameter QTL 1 (mouse)91574962749749627Mouse
11354951Pdcc3_mplasmacytoid dentritic cell compartment 3 (mouse)91574962749749627Mouse
12790997Adq2_maortic diameter QTL 2 (mouse)91574962749749627Mouse
12880415V125Dq7_mvitamin D active form serum level QTL 7 (mouse)91601129650011296Mouse
12880416V125Dq8_mvitamin D active form serum level QTL 8 (mouse)91601129650011296Mouse
13504834Hdlq109_mHDL QTL 109 (mouse)91670964150709641Mouse
1357465Vtbt6_mvertebral trabecular bone trait 6 (mouse)Not determined91697884050978943Mouse
1300643Pvcan2_mprotection against vaginal candidiasis 2 (mouse)Not determined91994340653943525Mouse
1301439Morph2_mmorphine antinociception 2 (mouse)Not determined92015336254153492Mouse
1301883Skull12_mskull morphology 12 (mouse)Not determined92030619754306370Mouse
1301045Sluc10_msusceptibility to lung cancer 10 (mouse)Not determined92030619754306370Mouse
10043950Pbft5_mpercent body fat 5 (mouse)Not determined92030619754306370Mouse
4142352Lmr17_mleishmaniasis resistance 17 (mouse)Not determined92030619754306370Mouse


Expression


Sequence


Reference Sequences
RefSeq Acc Id: ENSMUST00000043911   ⟹   ENSMUSP00000045384
Type: CODING
Position:
Mouse AssemblyChrPosition (strand)Source
GRCm39 Ensembl920,779,938 - 20,785,603 (+)Ensembl
GRCm38.p6 Ensembl920,868,642 - 20,874,307 (+)Ensembl
RefSeq Acc Id: ENSMUST00000175820
Type: CODING
Position:
Mouse AssemblyChrPosition (strand)Source
GRCm39 Ensembl920,779,954 - 20,785,603 (+)Ensembl
GRCm38.p6 Ensembl920,868,658 - 20,874,307 (+)Ensembl
RefSeq Acc Id: ENSMUST00000176142
Type: CODING
Position:
Mouse AssemblyChrPosition (strand)Source
GRCm39 Ensembl920,779,976 - 20,781,391 (+)Ensembl
GRCm38.p6 Ensembl920,868,680 - 20,870,095 (+)Ensembl
RefSeq Acc Id: ENSMUST00000176990
Type: CODING
Position:
Mouse AssemblyChrPosition (strand)Source
GRCm39 Ensembl920,782,068 - 20,784,417 (+)Ensembl
GRCm38.p6 Ensembl920,870,772 - 20,873,121 (+)Ensembl
RefSeq Acc Id: ENSMUST00000177067
Type: CODING
Position:
Mouse AssemblyChrPosition (strand)Source
GRCm39 Ensembl920,780,573 - 20,785,067 (+)Ensembl
GRCm38.p6 Ensembl920,869,277 - 20,873,771 (+)Ensembl
RefSeq Acc Id: NM_175687   ⟹   NP_783618
RefSeq Status: VALIDATED
Type: CODING
Position:
Mouse AssemblyChrPosition (strand)Source
GRCm39920,779,938 - 20,785,603 (+)NCBI
GRCm38920,868,642 - 20,874,307 (+)NCBI
MGSCv37920,673,086 - 20,678,751 (+)RGD
Celera918,137,340 - 18,143,005 (+)RGD
cM Map9 ENTREZGENE
Sequence:
RefSeq Acc Id: XM_006510405   ⟹   XP_006510468
Type: CODING
Position:
Mouse AssemblyChrPosition (strand)Source
GRCm39920,779,914 - 20,785,599 (+)NCBI
GRCm38920,868,635 - 20,874,303 (+)NCBI
Sequence:
Reference Protein Sequences
RefSeq Acc Id: NP_783618   ⟸   NM_175687
- UniProtKB: Q05BY8 (UniProtKB/Swiss-Prot),   Q8CAK3 (UniProtKB/Swiss-Prot)
- Sequence:
RefSeq Acc Id: XP_006510468   ⟸   XM_006510405
- Peptide Label: isoform X1
- UniProtKB: Q3U076 (UniProtKB/TrEMBL)
- Sequence:
RefSeq Acc Id: ENSMUSP00000045384   ⟸   ENSMUST00000043911

Protein Structures
Name Modeler Protein Id AA Range Protein Structure
AF-Q8CAK3-F1-model_v2 AlphaFold Q8CAK3 1-290 view protein structure

Promoters
RGD ID:6844015
Promoter ID:MM_KWN:56528
Type:CpG-Island
SO ACC ID:SO:0000170
Source:MPROMDB
Tissues & Cell Lines:BoneMarrow_0Hour,   BoneMarrow_2Hour,   BoneMarrow_4Hour,   Brain,   Liver,   Lung
Transcripts:NM_175687,   UC009OJI.1
Position:
Mouse AssemblyChrPosition (strand)Source
MGSCv36920,672,926 - 20,673,426 (+)MPROMDB
RGD ID:6848371
Promoter ID:MM_ACW:49724
Type:CpG-Island
SO ACC ID:SO:0000170
Source:MPROMDB
Tissues & Cell Lines:BoneMarrow_2Hour
Transcripts:A230050P20RIK.ESEP07-UNSPLICED
Position:
Mouse AssemblyChrPosition (strand)Source
MGSCv36920,673,611 - 20,674,111 (+)MPROMDB
RGD ID:8668894
Promoter ID:EPDNEW_M12478
Type:multiple initiation site
Name:A230050P20Rik_1
Description:Mus musculus RIKEN cDNA A230050P20 gene , mRNA.
SO ACC ID:SO:0000170
Source:EPDNEW (Eukaryotic Promoter Database, http://epd.vital-it.ch/)
Experiment Methods:Single-end sequencing.
Position:
Mouse AssemblyChrPosition (strand)Source
GRCm38920,868,658 - 20,868,718EPDNEW

Additional Information

Database Acc Id Source(s)
AGR Gene MGI:2441788 AgrOrtholog
Ensembl Genes ENSMUSG00000038884 Ensembl, ENTREZGENE, UniProtKB/Swiss-Prot
Ensembl Transcript ENSMUST00000043911 ENTREZGENE
  ENSMUST00000043911.8 UniProtKB/Swiss-Prot
  ENSMUST00000175820 ENTREZGENE
InterPro RyDEN UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
KEGG Report mmu:319278 UniProtKB/Swiss-Prot
MGD MGI:2441788 ENTREZGENE
NCBI Gene 319278 ENTREZGENE
PANTHER PTHR16135 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  SHIFTLESS ANTIVIRAL INHIBITOR OF RIBOSOMAL FRAMESHIFTING PROTEIN UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
Pfam UPF0515 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
PhenoGen Shfl PhenoGen
UniProt Q05BY8 ENTREZGENE
  Q3U076 ENTREZGENE, UniProtKB/TrEMBL
  Q8CAK3 ENTREZGENE, UniProtKB/Swiss-Prot
UniProt Secondary Q05BY8 UniProtKB/Swiss-Prot


Nomenclature History
Date Current Symbol Current Name Previous Symbol Previous Name Description Reference Status
2019-05-28 Shfl  shiftless antiviral inhibitor of ribosomal frameshifting  A230050P20Rik  RIKEN cDNA A230050P20 gene  Symbol and/or name change 5135510 APPROVED