AI467606 (expressed sequence AI467606) - Rat Genome Database

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Gene: AI467606 (expressed sequence AI467606) Mus musculus
Analyze
Symbol: AI467606
Name: expressed sequence AI467606
RGD ID: 1622178
MGI Page MGI
Description: Predicted to be located in membrane. Is expressed in ductus deferens; prostate gland; testis; and thymus. Orthologous to human C16orf54 (chromosome 16 open reading frame 54).
Type: protein-coding
RefSeq Status: PROVISIONAL
Previously known as: transmembrane protein C16orf54 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
GRCm397126,689,952 - 126,693,221 (+)NCBIGRCm39GRCm39mm39
GRCm39 Ensembl7126,690,531 - 126,693,158 (+)EnsemblGRCm39 Ensembl
GRCm387127,090,780 - 127,094,049 (+)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl7127,091,359 - 127,093,986 (+)EnsemblGRCm38mm10GRCm38
MGSCv377134,234,950 - 134,237,563 (+)NCBIGRCm37MGSCv37mm9NCBIm37
MGSCv367126,882,584 - 126,885,197 (+)NCBIMGSCv36mm8
Celera7126,939,869 - 126,942,483 (+)NCBICelera
Cytogenetic Map7F3NCBI
cM Map769.32NCBI
JBrowse: View Region in Genome Browser (JBrowse)
Model


Gene-Chemical Interaction Annotations     Click to see Annotation Detail View
Gene Ontology Annotations     Click to see Annotation Detail View

Biological Process

Cellular Component

Molecular Function

Phenotype Annotations     Click to see Annotation Detail View

Mammalian Phenotype
References

References - curated
# Reference Title Reference Citation
1. ClinVar Automated Import and Annotation Pipeline RGD automated import pipeline for ClinVar variants, variant-to-disease annotations and gene-to-disease annotations
2. 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:16141072   PMID:16141073   PMID:16602821   PMID:21267068   PMID:21498670   PMID:21677750  
PMID:24194600   PMID:31591574  


Genomics

Comparative Map Data
AI467606
(Mus musculus - house mouse)
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm397126,689,952 - 126,693,221 (+)NCBIGRCm39GRCm39mm39
GRCm39 Ensembl7126,690,531 - 126,693,158 (+)EnsemblGRCm39 Ensembl
GRCm387127,090,780 - 127,094,049 (+)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl7127,091,359 - 127,093,986 (+)EnsemblGRCm38mm10GRCm38
MGSCv377134,234,950 - 134,237,563 (+)NCBIGRCm37MGSCv37mm9NCBIm37
MGSCv367126,882,584 - 126,885,197 (+)NCBIMGSCv36mm8
Celera7126,939,869 - 126,942,483 (+)NCBICelera
Cytogenetic Map7F3NCBI
cM Map769.32NCBI
C16orf54
(Homo sapiens - human)
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh381629,742,463 - 29,745,990 (-)NCBIGRCh38GRCh38hg38GRCh38
GRCh38.p14 Ensembl1629,742,463 - 29,745,990 (-)EnsemblGRCh38hg38GRCh38
GRCh371629,753,784 - 29,757,311 (-)NCBIGRCh37GRCh37hg19GRCh37
Build 361629,661,285 - 29,664,841 (-)NCBINCBI36Build 36hg18NCBI36
Celera1673,038,911 - 73,042,469 (+)NCBICelera
Cytogenetic Map16p11.2NCBI
HuRef1627,414,746 - 27,418,304 (-)NCBIHuRef
CHM1_11630,765,730 - 30,769,280 (-)NCBICHM1_1
T2T-CHM13v2.01630,024,601 - 30,028,756 (-)NCBIT2T-CHM13v2.0
C1h16orf54
(Rattus norvegicus - Norway rat)
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCr81191,132,972 - 191,135,653 (+)NCBIGRCr8
mRatBN7.21181,702,447 - 181,705,128 (+)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl1181,702,503 - 181,705,835 (+)EnsemblmRatBN7.2 Ensembl
UTH_Rnor_SHR_Utx1190,053,980 - 190,056,548 (+)NCBIRnor_SHRUTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.01197,240,067 - 197,242,635 (+)NCBIRnor_SHRSPUTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.01189,908,544 - 189,911,112 (+)NCBIRnor_WKYUTH_Rnor_WKY_Bbb_1.0
Rnor_6.01198,528,569 - 198,531,585 (+)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl1198,528,635 - 198,531,201 (+)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.01205,519,013 - 205,521,654 (+)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.41186,342,892 - 186,345,460 (+)NCBIRGSC3.4RGSC_v3.4rn4RGSC3.4
Celera1179,355,577 - 179,358,152 (+)NCBICelera
Cytogenetic Map1q37NCBI
LOC102010497
(Chinchilla lanigera - long-tailed chinchilla)
Chinchilla AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChiLan1.0 EnsemblNW_0049554937,204,576 - 7,207,907 (+)EnsemblChiLan1.0
ChiLan1.0NW_0049554937,204,452 - 7,207,168 (+)NCBIChiLan1.0ChiLan1.0
C18H16orf54
(Pan paniscus - bonobo/pygmy chimpanzee)
Bonobo AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
NHGRI_mPanPan1-v21830,492,303 - 30,496,946 (-)NCBINHGRI_mPanPan1-v2
NHGRI_mPanPan11635,728,985 - 35,733,615 (+)NCBINHGRI_mPanPan1
PanPan1.11630,115,260 - 30,118,777 (-)NCBIpanpan1.1PanPan1.1panPan2
PanPan1.1 Ensembl1630,117,052 - 30,117,726 (-)Ensemblpanpan1.1panPan2
C6H16orf54
(Canis lupus familiaris - dog)
Dog AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
CanFam3.1617,811,506 - 17,815,122 (-)NCBICanFam3.1CanFam3.1canFam3CanFam3.1
CanFam3.1 Ensembl617,812,667 - 17,853,083 (-)EnsemblCanFam3.1canFam3CanFam3.1
Dog10K_Boxer_Tasha619,388,529 - 19,430,190 (-)NCBIDog10K_Boxer_Tasha
ROS_Cfam_1.0617,946,108 - 17,987,003 (-)NCBIROS_Cfam_1.0
ROS_Cfam_1.0 Ensembl617,946,793 - 17,948,644 (-)EnsemblROS_Cfam_1.0 Ensembl
UMICH_Zoey_3.1617,745,649 - 17,786,525 (-)NCBIUMICH_Zoey_3.1
UNSW_CanFamBas_1.0617,661,321 - 17,702,230 (-)NCBIUNSW_CanFamBas_1.0
UU_Cfam_GSD_1.0617,976,597 - 18,017,514 (-)NCBIUU_Cfam_GSD_1.0
CUNH16orf54
(Ictidomys tridecemlineatus - thirteen-lined ground squirrel)
Squirrel AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HiC_Itri_2NW_024409344124,626,069 - 124,628,698 (+)NCBIHiC_Itri_2
SpeTri2.0 EnsemblNW_00493650112,723,815 - 12,726,560 (+)EnsemblSpeTri2.0SpeTri2.0 Ensembl
SpeTri2.0NW_00493650112,723,922 - 12,726,482 (+)NCBISpeTri2.0SpeTri2.0SpeTri2.0
C3H16orf54
(Sus scrofa - pig)
Pig AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Sscrofa11.1318,011,402 - 18,014,281 (-)NCBISscrofa11.1Sscrofa11.1susScr11Sscrofa11.1
Sscrofa10.2318,576,485 - 18,578,311 (+)NCBISscrofa10.2Sscrofa10.2susScr3
CUNH16orf54
(Chlorocebus sabaeus - green monkey)
Green Monkey AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChlSab1.1526,903,862 - 26,907,726 (+)NCBIChlSab1.1ChlSab1.1chlSab2
ChlSab1.1 Ensembl526,905,241 - 26,905,915 (+)EnsemblChlSab1.1ChlSab1.1 EnsemblchlSab2
Vero_WHO_p1.0NW_0236660682,619,189 - 2,623,027 (-)NCBIVero_WHO_p1.0Vero_WHO_p1.0
CUNH16orf54
(Heterocephalus glaber - naked mole-rat)
Naked Mole-Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HetGla 1.0NW_00462478213,437,850 - 13,446,433 (+)NCBIHetGla_female_1.0HetGla 1.0hetGla2

Variants

.
Variants in AI467606
73 total Variants
miRNA Target Status

Predicted Target Of
Summary Value
Count of predictions:353
Count of miRNA genes:296
Interacting mature miRNAs:312
Transcripts:ENSMUST00000056288
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 (GRCm39)
The following QTLs overlap with this region.    Full Report CSV TAB Printer Gviewer
RGD IDSymbolNameLODP ValueTraitSub TraitChrStartStopSpecies
25314307Mlh1fc2_mMLH1 foci count 2 (mouse)76502999133501729Mouse
12792978Fbmd3_mfemoral bone mineral density 3, females only (mouse)77050288142367832Mouse
1301158Eae4_msusceptibility to experimental allergic encephalomyelitis 4 (mouse)Not determined719147398141919804Mouse
27226751Femd5_mfemur midshaft diameter 5, 10 week (mouse)753249748143153737Mouse
27226778Femd11_mfemur midshaft diameter 11, 16 week (mouse)756949748134001729Mouse
27095933Ulnl3_mulna length 3, 5 week (mouse)773149748143153737Mouse
26884398Humsd6_mhumerus midshaft diameter 6, 16 week (mouse)778649748136901729Mouse
27095930Ulnl10_mulna length 10, 16 week (mouse)780849748126699172Mouse
1300528Ssial3_msusceptibility to sialadenitis 3 (mouse)Not determined793391848127392041Mouse
1301478Eae26_msusceptibility to experimental allergic encephalomyelitis 26 (mouse)Not determined798164922132165010Mouse
13524850Asrq7_macoustic startle response 7 (mouse)798394974132394974Mouse
10412104Tons2_mtongue size 2 (mouse)Not determined799837716133837716Mouse
11039524Tbbr3_mTrypanosoma brucei brucei response 3 (mouse)7100750722134750843Mouse
1301447Fembm3_mfemoral bone morphometry 3 (mouse)Not determined7100993261134993342Mouse
1357460Vtbt4_mvertebral trabecular bone trait 4 (mouse)Not determined7101693381135693530Mouse
1301105Cfld4_mcystic fibrosis lung disease 4 (mouse)Not determined7101693381135693530Mouse
1300721Cfbw3_mcystic fibrosis body weight 3 (mouse)Not determined7101693381135693530Mouse
4142312Nilac4_mnicotine induced locomotor activity 4 (mouse)Not determined7102485219136485380Mouse
5491192Mobq1_mmultigenic obesity QTL 1 (mouse)Not determined7105250663139250811Mouse
13524852Asrq7a_macoustic startle response 7a (mouse)7105350008139350008Mouse
14700684Civq1_mcerebral infarct volume QTL 1 (mouse)7109707335143707335Mouse
14700687Civq5_mcerebral infarct volume QTL 5 (mouse)7109707335143707335Mouse
14700688Civq6_mcerebral infarct volume QTL 6 (mouse)7109707335143707335Mouse
11059562Lmr21b_mleishmaniasis resistance 21b (mouse)7110967235144967336Mouse
10402499Lmr21_mleishmaniasis resistance 21 (mouse)Not determined7110967235144967336Mouse
1302032Alcp12_malcohol preference locus 12 (mouse)Not determined7111166122144995196Mouse
1301898Alcp14_malcohol preference locus 14 (mouse)Not determined7111166122144995196Mouse
1300670Sluc19_msusceptibility to lung cancer 19 (mouse)Not determined7111166122144995196Mouse
4142444Femwf5_mfemur work to failure 5 (mouse)Not determined112552248144995196Mouse
1300747Skts2_mskin tumor susceptibility 2 (mouse)Not determined7112922733144995196Mouse
38501072Stsl7_mSalmonella typhimurium susceptibility locus 7 (mouse)7115699235128501724Mouse
1300677Bmd9_mbone mineral density 9 (mouse)Not determined7116634089144995196Mouse
15092059Wogrme1_mweek one growth rate, maternal effect 1 (mouse)7117199227134101729Mouse
11059561Lmr21a_mleishmaniasis resistance 21a (mouse)7117750722127967336Mouse
1357711Adbg1_madult body growth 1 (mouse)Not determined7118693381144398314Mouse
1301773Stheal7_msoft tissue heal 7 (mouse)Not determined7119132573144995196Mouse
1357613Bsbob2_mBSB obesity 2 (mouse)Not determined7122250663128819324Mouse
1301903Tlsm1_mthymic lymphoma susceptible 1 (mouse)Not determined7122250663135170901Mouse
38501066Tip2_mtuberculosis immunophenotype 2, spleen CFU (mouse)7124299223126899172Mouse
4141945Il4ppq_mIL-4 producing potential QTL (mouse)Not determined7124513662128819324Mouse

Markers in Region
AI467606  
Mouse AssemblyChrPosition (strand)SourceJBrowse
GRCm387127,093,647 - 127,093,743UniSTSGRCm38
MGSCv377134,237,161 - 134,237,257UniSTSGRCm37
Celera7126,942,081 - 126,942,177UniSTS
Cytogenetic Map7F3UniSTS
Whitehead/MRC_RH71291.91UniSTS


Expression


Sequence


Reference Sequences
RefSeq Acc Id: ENSMUST00000056288   ⟹   ENSMUSP00000063016
Type: CODING
Position:
Mouse AssemblyChrPosition (strand)Source
GRCm39 Ensembl7126,690,531 - 126,693,158 (+)Ensembl
GRCm38.p6 Ensembl7127,091,359 - 127,093,986 (+)Ensembl
RefSeq Acc Id: ENSMUST00000206102   ⟹   ENSMUSP00000146315
Type: CODING
Position:
Mouse AssemblyChrPosition (strand)Source
GRCm39 Ensembl7126,690,596 - 126,692,165 (+)Ensembl
GRCm38.p6 Ensembl7127,091,424 - 127,092,993 (+)Ensembl
RefSeq Acc Id: NM_178901   ⟹   NP_849232
RefSeq Status: PROVISIONAL
Type: CODING
Position:
Mouse AssemblyChrPosition (strand)Source
GRCm397126,690,608 - 126,693,221 (+)NCBI
GRCm387127,091,436 - 127,094,049 (+)NCBI
MGSCv377134,234,950 - 134,237,563 (+)RGD
Celera7126,939,869 - 126,942,483 (+)RGD
cM Map7 ENTREZGENE
Sequence:
RefSeq Acc Id: XM_006507162   ⟹   XP_006507225
Type: CODING
Position:
Mouse AssemblyChrPosition (strand)Source
GRCm397126,689,952 - 126,693,158 (+)NCBI
GRCm387127,090,780 - 127,093,986 (+)NCBI
Sequence:
Reference Protein Sequences
RefSeq Acc Id: NP_849232   ⟸   NM_178901
- UniProtKB: Q6P3A6 (UniProtKB/Swiss-Prot),   Q8C708 (UniProtKB/Swiss-Prot)
- Sequence:
RefSeq Acc Id: XP_006507225   ⟸   XM_006507162
- Peptide Label: isoform X1
- UniProtKB: Q6P3A6 (UniProtKB/Swiss-Prot),   Q8C708 (UniProtKB/Swiss-Prot)
- Sequence:
RefSeq Acc Id: ENSMUSP00000146315   ⟸   ENSMUST00000206102
RefSeq Acc Id: ENSMUSP00000063016   ⟸   ENSMUST00000056288

Protein Structures
Name Modeler Protein Id AA Range Protein Structure
AF-Q8C708-F1-model_v2 AlphaFold Q8C708 1-225 view protein structure

Promoters
RGD ID:8665635
Promoter ID:EPDNEW_M10849
Type:initiation region
Name:AI467606_1
Description:Mus musculus expressed sequence AI467606 , 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
GRCm387127,091,383 - 127,091,443EPDNEW
RGD ID:6840504
Promoter ID:MM_KWN:52748
Type:Non-CpG
SO ACC ID:SO:0000170
Source:MPROMDB
Tissues & Cell Lines:BoneMarrow_0Hour,   BoneMarrow_2Hour,   BoneMarrow_4Hour,   Kidney,   Lung,   Spleen
Transcripts:ENSMUST00000056288
Position:
Mouse AssemblyChrPosition (strand)Source
MGSCv367134,234,646 - 134,235,146 (+)MPROMDB

Additional Information

Database Acc Id Source(s)
AGR Gene MGI:2141979 AgrOrtholog
Ensembl Genes ENSMUSG00000045165 Ensembl, ENTREZGENE, UniProtKB/Swiss-Prot
Ensembl Transcript ENSMUST00000056288 ENTREZGENE
  ENSMUST00000056288.7 UniProtKB/Swiss-Prot
  ENSMUST00000206102.2 UniProtKB/Swiss-Prot
InterPro DUF4689 UniProtKB/Swiss-Prot
KEGG Report mmu:101602 UniProtKB/Swiss-Prot
MGD MGI:2141979 ENTREZGENE
NCBI Gene 101602 ENTREZGENE
PANTHER PTHR36134 UniProtKB/Swiss-Prot
  TRANSMEMBRANE PROTEIN C16ORF54 UniProtKB/Swiss-Prot
Pfam DUF4689 UniProtKB/Swiss-Prot
PhenoGen AI467606 PhenoGen
UniProt CP054_MOUSE UniProtKB/Swiss-Prot
  Q6P3A6 ENTREZGENE
  Q8C708 ENTREZGENE
UniProt Secondary Q6P3A6 UniProtKB/Swiss-Prot