Arl6ip4 (ADP-ribosylation factor-like 6 interacting protein 4) - Rat Genome Database

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Gene: Arl6ip4 (ADP-ribosylation factor-like 6 interacting protein 4) Mus musculus
Analyze
Symbol: Arl6ip4
Name: ADP-ribosylation factor-like 6 interacting protein 4
RGD ID: 1316977
MGI Page MGI
Description: Predicted to be involved in RNA splicing and mRNA processing. Predicted to be located in nuclear speck and nucleolus. Is expressed in cerebral cortex ventricular layer and embryo. Orthologous to human ARL6IP4 (ADP ribosylation factor like GTPase 6 interacting protein 4).
Type: protein-coding
RefSeq Status: PROVISIONAL
Previously known as: AA408210; AA408365; ADP-ribosylation factor-like protein 6-interacting protein 4; ADP-ribosylation-like factor 6 interacting protein 4; Ai; Aip-4; ARL-6-interacting protein 4; splicing factor SRrp37; Sr; Srp25; SRp25 nuclear protein
RGD Orthologs
Human
Rat
Chinchilla
Bonobo
Dog
Squirrel
Pig
Green Monkey
Naked Mole-Rat
Alliance Orthologs
More Info more info ...
Latest Assembly: GRCm39 - Mouse Genome Assembly GRCm39
Position:
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm395124,254,171 - 124,256,258 (+)NCBIGRCm39GRCm39mm39
GRCm39 Ensembl5124,254,152 - 124,256,259 (+)EnsemblGRCm39 Ensembl
GRCm385124,116,108 - 124,118,195 (+)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl5124,116,089 - 124,118,196 (+)EnsemblGRCm38mm10GRCm38
MGSCv375124,566,117 - 124,568,204 (+)NCBIGRCm37MGSCv37mm9NCBIm37
MGSCv365124,376,726 - 124,378,813 (+)NCBIMGSCv36mm8
Celera5121,192,330 - 121,194,510 (+)NCBICelera
Cytogenetic Map5FNCBI
cM Map563.39NCBI
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

Biological Process

Cellular Component
nuclear speck  (IEA)
nucleolus  (IEA)

Molecular Function

References

References - curated
# Reference Title Reference Citation
1. MGDs mouse GO annotations MGD data from the GO Consortium
2. Data Import for Chemical-Gene Interactions RGD automated import pipeline for gene-chemical interactions
Additional References at PubMed
PMID:8889548   PMID:10349636   PMID:10508919   PMID:10708573   PMID:11042159   PMID:11076861   PMID:11217851   PMID:12466851   PMID:12477932   PMID:14610273   PMID:16141072   PMID:16141073  
PMID:16602821   PMID:18986647   PMID:20178780   PMID:21267068   PMID:30196744   PMID:30457570   PMID:34321999   PMID:36114006  


Genomics

Comparative Map Data
Arl6ip4
(Mus musculus - house mouse)
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm395124,254,171 - 124,256,258 (+)NCBIGRCm39GRCm39mm39
GRCm39 Ensembl5124,254,152 - 124,256,259 (+)EnsemblGRCm39 Ensembl
GRCm385124,116,108 - 124,118,195 (+)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl5124,116,089 - 124,118,196 (+)EnsemblGRCm38mm10GRCm38
MGSCv375124,566,117 - 124,568,204 (+)NCBIGRCm37MGSCv37mm9NCBIm37
MGSCv365124,376,726 - 124,378,813 (+)NCBIMGSCv36mm8
Celera5121,192,330 - 121,194,510 (+)NCBICelera
Cytogenetic Map5FNCBI
cM Map563.39NCBI
ARL6IP4
(Homo sapiens - human)
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh3812122,980,233 - 122,982,909 (+)NCBIGRCh38GRCh38hg38GRCh38
GRCh38.p14 Ensembl12122,980,060 - 122,982,913 (+)EnsemblGRCh38hg38GRCh38
GRCh3712123,464,780 - 123,467,456 (+)NCBIGRCh37GRCh37hg19GRCh37
Build 3612122,030,833 - 122,033,413 (+)NCBINCBI36Build 36hg18NCBI36
Build 3412121,989,759 - 121,992,340NCBI
Celera12123,057,673 - 123,060,253 (+)NCBICelera
Cytogenetic Map12q24.31NCBI
HuRef12120,425,747 - 120,428,600 (+)NCBIHuRef
CHM1_112123,432,925 - 123,435,778 (+)NCBICHM1_1
T2T-CHM13v2.012122,976,758 - 122,979,434 (+)NCBIT2T-CHM13v2.0
Arl6ip4
(Rattus norvegicus - Norway rat)
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCr81238,140,566 - 38,142,711 (-)NCBIGRCr8
mRatBN7.21232,479,623 - 32,481,768 (-)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl1232,479,625 - 32,481,799 (-)EnsemblmRatBN7.2 Ensembl
UTH_Rnor_SHR_Utx1233,659,779 - 33,661,924 (-)NCBIRnor_SHRUTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.01234,271,123 - 34,273,268 (-)NCBIRnor_SHRSPUTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.01233,323,021 - 33,325,166 (-)NCBIRnor_WKYUTH_Rnor_WKY_Bbb_1.0
Rnor_6.01237,904,376 - 37,906,521 (-)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl1237,904,379 - 37,906,521 (-)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.01239,776,739 - 39,778,884 (-)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.41233,603,784 - 33,605,929 (-)NCBIRGSC3.4RGSC_v3.4rn4RGSC3.4
RGSC_v3.11233,467,172 - 33,469,332 (-)NCBI
Celera1234,167,882 - 34,170,027 (-)NCBICelera
Cytogenetic Map12q15NCBI
Arl6ip4
(Chinchilla lanigera - long-tailed chinchilla)
Chinchilla AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChiLan1.0 EnsemblNW_0049554825,804,531 - 5,805,517 (-)EnsemblChiLan1.0
ChiLan1.0NW_0049554825,804,393 - 5,807,460 (-)NCBIChiLan1.0ChiLan1.0
ARL6IP4
(Pan paniscus - bonobo/pygmy chimpanzee)
Bonobo AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
NHGRI_mPanPan1-v210131,076,098 - 131,078,816 (+)NCBINHGRI_mPanPan1-v2
NHGRI_mPanPan112131,072,474 - 131,075,192 (+)NCBINHGRI_mPanPan1
Mhudiblu_PPA_v012120,586,561 - 120,589,404 (+)NCBIMhudiblu_PPA_v0Mhudiblu_PPA_v0panPan3
PanPan1.112124,821,224 - 124,824,088 (+)NCBIpanpan1.1PanPan1.1panPan2
PanPan1.1 Ensembl12124,821,224 - 124,824,088 (+)Ensemblpanpan1.1panPan2
ARL6IP4
(Canis lupus familiaris - dog)
Dog AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
CanFam3.1266,522,881 - 6,525,195 (-)NCBICanFam3.1CanFam3.1canFam3CanFam3.1
CanFam3.1 Ensembl266,523,070 - 6,525,123 (-)EnsemblCanFam3.1canFam3CanFam3.1
Dog10K_Boxer_Tasha266,684,500 - 6,686,814 (-)NCBIDog10K_Boxer_Tasha
ROS_Cfam_1.0266,772,886 - 6,775,200 (-)NCBIROS_Cfam_1.0
ROS_Cfam_1.0 Ensembl266,773,076 - 6,775,129 (-)EnsemblROS_Cfam_1.0 Ensembl
UMICH_Zoey_3.1266,705,755 - 6,708,069 (-)NCBIUMICH_Zoey_3.1
UNSW_CanFamBas_1.0266,797,207 - 6,799,521 (-)NCBIUNSW_CanFamBas_1.0
UU_Cfam_GSD_1.0266,751,240 - 6,753,554 (-)NCBIUU_Cfam_GSD_1.0
Arl6ip4
(Ictidomys tridecemlineatus - thirteen-lined ground squirrel)
Squirrel AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HiC_Itri_2NW_024405118157,806,251 - 157,809,241 (+)NCBIHiC_Itri_2
SpeTri2.0 EnsemblNW_0049365581,669,934 - 1,672,550 (-)EnsemblSpeTri2.0SpeTri2.0 Ensembl
SpeTri2.0NW_0049365581,670,185 - 1,673,156 (-)NCBISpeTri2.0SpeTri2.0SpeTri2.0
ARL6IP4
(Sus scrofa - pig)
Pig AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Sscrofa11.1 Ensembl1429,886,042 - 29,888,470 (-)EnsemblSscrofa11.1susScr11Sscrofa11.1
Sscrofa11.11429,886,043 - 29,888,512 (-)NCBISscrofa11.1Sscrofa11.1susScr11Sscrofa11.1
Sscrofa10.21431,574,588 - 31,577,068 (-)NCBISscrofa10.2Sscrofa10.2susScr3
ARL6IP4
(Chlorocebus sabaeus - green monkey)
Green Monkey AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChlSab1.111118,320,310 - 118,323,229 (+)NCBIChlSab1.1ChlSab1.1chlSab2
Vero_WHO_p1.0NW_023666037126,989,637 - 126,991,961 (-)NCBIVero_WHO_p1.0Vero_WHO_p1.0
Arl6ip4
(Heterocephalus glaber - naked mole-rat)
Naked Mole-Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HetGla_female_1.0 EnsemblNW_00462474722,980,657 - 22,982,851 (+)EnsemblHetGla_female_1.0HetGla_female_1.0 EnsemblhetGla2
HetGla 1.0NW_00462474722,980,665 - 22,982,851 (+)NCBIHetGla_female_1.0HetGla 1.0hetGla2

miRNA Target Status

Predicted Target Of
Summary Value
Count of predictions:654
Count of miRNA genes:342
Interacting mature miRNAs:383
Transcripts:ENSMUST00000031351, ENSMUST00000122394, ENSMUST00000145667, ENSMUST00000149835
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
27226719Tibw6_mtibia width 6, proximal, 16 week (mouse)572857343139985755Mouse
10412191Bbaa24_mB.burgdorferi-associated arthritis 24 (mouse)Not determined5119945037141700466Mouse
1301457Cfsw2_mcystic fibrosis survival to weaning 2 (mouse)Not determined590561006124561151Mouse
1301974Chab7_mcholesterol absorption 7 (mouse)Not determined595233214129233330Mouse
11528552Scram1_mspinal cord resistance to astrocytoma modifier 1 (mouse)5121455402151758149Mouse
1300827Cora1_mcorrelation in cytokine production 1 (mouse)Not determined5115156883149157015Mouse
25314315Mlh1fc4_mMLH1 foci count 4 (mouse)574460661132528839Mouse
1357662Lprq4_mlipoprotein QTL 4 (mouse)Not determined5114021753129632606Mouse
14746986Manh58_mmandible shape 58 (mouse)5102446283136446283Mouse
4142064Tmc1m4_mTmc1 modifier 4 (mouse)Not determined554500177127001072Mouse
10412239Alpq7_malcohol preference QTL 7 (mouse)Not determined5104705939138705939Mouse
1300993Hycdc_mhypercapnic duty cycle (mouse)Not determined590561006124561151Mouse
9587780Afw16_mabdominal fat weight QTL 16 (mouse)Not determined592830166126830285Mouse
1357644Egrd1_mearly growth rate, direct effect 1 (mouse)Not determined595434580129434786Mouse
12859290Criq2_mCitrobacter rodentium infection QTL 2 (mouse)5101332579135332579Mouse
1300940Actd3_mactivity-distance traveled 3 (mouse)Not determined596320385130320533Mouse
1300659Pcd8ts1_mp-glycoprotein positive CD8 T cell subset 1 (mouse)Not determined597021753131021986Mouse
1301362Prnr1_mprion resistance 1 (mouse)Not determined589418876146787935Mouse
1558774Lith17_mlithogenic gene 17 (mouse)Not determined595465549129465722Mouse
1300913Bwefm_mbody weight females and males day 10 (mouse)Not determined5109439348143439459Mouse
4141081Nidd7k_mNidd7 on KK-A (mouse)Not determined119945037149347326Mouse
10402486Dipa1_mdrug induced psychomotor activation 1 (mouse)Not determined595465549129465722Mouse
1301624Aevm2_mautoimmune extremity vasculitis in MRL mice 2 (mouse)Not determined5101863832135864028Mouse
10043890Trigq4_mtriglyceride QTL 4 (mouse)Not determined5107906299141906412Mouse
4141139Hmtb4_mhemostasis and thrombosis rebleeding time 4 (mouse)Not determined108762509126882944Mouse
11532736Sluc33b_msusceptibility to lung cancer 33b (mouse)5102945037136945196Mouse
4141519Hmtb5_mhemostasis and thrombosis bleeding time 5 (mouse)Not determined99949422126882944Mouse
26884395Humsd2_mhumerus midshaft diameter 2, 10 week (mouse)570057343132528839Mouse
1301858Smdq1_msegregation of mitochondrial DNA QTL 1 (mouse)Not determined597021753131021986Mouse
1301986Bpq4_mblood pressure QTL 4 (mouse)Not determined5121555236151758149Mouse
11049562Lmr24f_mleishmaniasis resistance 24f (mouse)590320962124321041Mouse
1301857Bglq14_mbody growth late QTL 14 (mouse)Not determined5118948964151758149Mouse
10412202Bbaa26_mB.burgdorferi-associated arthritis 26 (mouse)Not determined5104583688138555455Mouse
1301543Hypch_mhypercholesterolemia (mouse)Not determined5109238624139118905Mouse
12904945Tammq2_mtibialis anterior muscle mass QTL 2 (mouse)5100665965134665965Mouse
4142473Chlq11_mcirculating hormone level QTL 11 (mouse)Not determined5107906299141906412Mouse
13464251Ahl21_mage related hearing loss, early onset 21 (mouse)5109167240143167381Mouse
11341716Rvfs3_mRift Valley fever susceptibility 3 (mouse)526441234138455402Mouse
13464244Ahl19_mage related hearing loss, early onset 19 (mouse)595465549129465722Mouse
1301226Bbaa2_mB.burgdorferi-associated arthritis 2 (mouse)Not determined5115156883149157015Mouse
12904959Smmq1_msoleus muscle mass QTL 1 (mouse)5100665965134665965Mouse
10412197Bbaa25_mB.burgdorferi-associated arthritis 25 (mouse)Not determined5109167240143167381Mouse
1301102Cia14_mcollagen induced arthritis 14 (mouse)Not determined5113320385138555455Mouse
13506928Recrq8_mrecombination rate in male meiosis QTL 8 (mouse)574460661132528839Mouse
13464243Ahl20_mage related hearing loss, early onset 20 (mouse)5107906299141906412Mouse

Markers in Region
AW552395  
Mouse AssemblyChrPosition (strand)SourceJBrowse
GRCm385124,115,091 - 124,115,206UniSTSGRCm38
MGSCv375124,565,100 - 124,565,215UniSTSGRCm37
Celera5121,191,232 - 121,191,347UniSTS
Cytogenetic Map5FUniSTS
Whitehead/MRC_RH51510.1UniSTS
RH124703  
Mouse AssemblyChrPosition (strand)SourceJBrowse
GRCm385124,118,009 - 124,118,153UniSTSGRCm38
MGSCv375124,568,018 - 124,568,162UniSTSGRCm37
Celera5121,194,324 - 121,194,468UniSTS
Cytogenetic Map5FUniSTS
RH125778  
Mouse AssemblyChrPosition (strand)SourceJBrowse
GRCm385124,118,076 - 124,118,181UniSTSGRCm38
MGSCv375124,568,085 - 124,568,190UniSTSGRCm37
Celera5121,194,391 - 121,194,496UniSTS
Cytogenetic Map5FUniSTS
Whitehead/MRC_RH51507.62UniSTS
AU041636  
Mouse AssemblyChrPosition (strand)SourceJBrowse
GRCm385124,115,094 - 124,115,206UniSTSGRCm38
MGSCv375124,565,103 - 124,565,215UniSTSGRCm37
Celera5121,191,235 - 121,191,347UniSTS
Cytogenetic Map5FUniSTS
Whitehead/MRC_RH51508.27UniSTS


Expression

RNA-SEQ Expression


Sequence


Ensembl Acc Id: ENSMUST00000031351   ⟹   ENSMUSP00000031351
Type: CODING
Position:
Mouse AssemblyChrPosition (strand)Source
GRCm39 Ensembl5124,254,162 - 124,256,259 (+)Ensembl
GRCm38.p6 Ensembl5124,116,099 - 124,118,196 (+)Ensembl
Ensembl Acc Id: ENSMUST00000122394   ⟹   ENSMUSP00000112506
Type: CODING
Position:
Mouse AssemblyChrPosition (strand)Source
GRCm39 Ensembl5124,254,185 - 124,256,159 (+)Ensembl
GRCm38.p6 Ensembl5124,116,122 - 124,118,096 (+)Ensembl
Ensembl Acc Id: ENSMUST00000145667   ⟹   ENSMUSP00000122377
Type: CODING
Position:
Mouse AssemblyChrPosition (strand)Source
GRCm39 Ensembl5124,254,742 - 124,256,097 (+)Ensembl
GRCm38.p6 Ensembl5124,116,679 - 124,118,034 (+)Ensembl
Ensembl Acc Id: ENSMUST00000149835   ⟹   ENSMUSP00000116269
Type: CODING
Position:
Mouse AssemblyChrPosition (strand)Source
GRCm39 Ensembl5124,254,152 - 124,255,105 (+)Ensembl
GRCm38.p6 Ensembl5124,116,089 - 124,117,042 (+)Ensembl
Ensembl Acc Id: ENSMUST00000196401   ⟹   ENSMUSP00000142496
Type: CODING
Position:
Mouse AssemblyChrPosition (strand)Source
GRCm39 Ensembl5124,255,374 - 124,256,254 (+)Ensembl
GRCm38.p6 Ensembl5124,117,311 - 124,118,191 (+)Ensembl
RefSeq Acc Id: NM_144509   ⟹   NP_653092
RefSeq Status: PROVISIONAL
Type: CODING
Position:
Mouse AssemblyChrPosition (strand)Source
GRCm395124,254,171 - 124,256,258 (+)NCBI
GRCm385124,116,108 - 124,118,195 (+)ENTREZGENE
MGSCv375124,566,117 - 124,568,204 (+)RGD
Celera5121,192,330 - 121,194,510 (+)RGD
cM Map5 ENTREZGENE
Sequence:
RefSeq Acc Id: NP_653092   ⟸   NM_144509
- UniProtKB: Q9WUG8 (UniProtKB/Swiss-Prot),   Q9JM93 (UniProtKB/Swiss-Prot)
- Sequence:
Ensembl Acc Id: ENSMUSP00000031351   ⟸   ENSMUST00000031351
Ensembl Acc Id: ENSMUSP00000122377   ⟸   ENSMUST00000145667
Ensembl Acc Id: ENSMUSP00000116269   ⟸   ENSMUST00000149835
Ensembl Acc Id: ENSMUSP00000142496   ⟸   ENSMUST00000196401
Ensembl Acc Id: ENSMUSP00000112506   ⟸   ENSMUST00000122394

Protein Structures
Name Modeler Protein Id AA Range Protein Structure
AF-Q9JM93-F1-model_v2 AlphaFold Q9JM93 1-229 view protein structure

Promoters
RGD ID:6888082
Promoter ID:EPDNEW_M7486
Type:initiation region
Name:Arl6ip4_1
Description:Mus musculus ADP-ribosylation factor-like 6 interacting protein4 , 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
GRCm385124,116,101 - 124,116,161EPDNEW
RGD ID:6837107
Promoter ID:MM_KWN:44068
Type:CpG-Island
SO ACC ID:SO:0000170
Source:MPROMDB
Tissues & Cell Lines:3T3L1_Day0,   3T3L1_Day1,   3T3L1_Day2,   3T3L1_Day3,   3T3L1_Day4,   BoneMarrow_0Hour,   BoneMarrow_2Hour,   BoneMarrow_4Hour,   Brain,   ES_Cell,   Kidney,   Liver,   Lung,   MEF_B4,   MEF_B6
Transcripts:ENSMUST00000122394,   OTTMUST00000071488,   OTTMUST00000071489,   OTTMUST00000071491
Position:
Mouse AssemblyChrPosition (strand)Source
MGSCv365124,566,121 - 124,567,152 (+)MPROMDB

Additional Information

Database Acc Id Source(s)
AGR Gene MGI:1929500 AgrOrtholog
Ensembl Genes ENSMUSG00000029404 Ensembl, ENTREZGENE, UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
Ensembl Transcript ENSMUST00000031351 ENTREZGENE
  ENSMUST00000031351.11 UniProtKB/Swiss-Prot
  ENSMUST00000122394.8 UniProtKB/TrEMBL
  ENSMUST00000145667.2 UniProtKB/TrEMBL
  ENSMUST00000149835.2 UniProtKB/TrEMBL
  ENSMUST00000196401.2 UniProtKB/TrEMBL
InterPro Nucl_RNA-splicing_assoc_SR-25 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
KEGG Report mmu:65105 UniProtKB/Swiss-Prot
MGD MGI:1929500 ENTREZGENE
NCBI Gene 65105 ENTREZGENE
Pfam SR-25 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
PhenoGen Arl6ip4 PhenoGen
UniProt A0A0G2JDT7_MOUSE UniProtKB/TrEMBL
  AR6P4_MOUSE UniProtKB/Swiss-Prot
  D3YWC2_MOUSE UniProtKB/TrEMBL
  D3Z668_MOUSE UniProtKB/TrEMBL
  D3Z6F1_MOUSE UniProtKB/TrEMBL
  Q9JM93 ENTREZGENE
  Q9WUG8 ENTREZGENE
UniProt Secondary Q9WUG8 UniProtKB/Swiss-Prot