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Gene: A830012C17Rik (RIKEN cDNA A830012C17 gene) Mus musculus

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Symbol:

A830012C17Rik

Name:

RIKEN cDNA A830012C17 gene

RGD ID:

1609467

MGI Page

MGI

Description:

Type:

ncrna (Ensembl: lncRNA)

RefSeq Status:

MODEL

Previously known as:

hypothetical protein LOC319308; uncharacterized protein LOC319308

Latest Assembly:

GRCm39 - Mouse Genome Assembly GRCm39

Position:

Mouse Assembly	Chr	Position (strand)	Source	Genome Browsers
Mouse Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
GRCm39	4	4,148,030 - 4,181,846 (+)	NCBI	GRCm39	GRCm39	mm39
GRCm39 Ensembl	4	4,138,321 - 4,188,703 (+)	Ensembl		GRCm39 Ensembl
GRCm38	4	4,148,030 - 4,181,846 (+)	NCBI	GRCm38	GRCm38	mm10	GRCm38
GRCm38.p6 Ensembl	4	4,138,321 - 4,188,703 (+)	Ensembl	GRCm38		mm10	GRCm38
MGSCv37	4	4,065,204 - 4,115,850 (+)	NCBI	GRCm37	MGSCv37	mm9	NCBIm37
MGSCv36	4	4,065,204 - 4,115,850 (+)	NCBI		MGSCv36	mm8
Celera	4	4,107,229 - 4,141,084 (+)	NCBI		Celera
Cytogenetic Map	4	A1	NCBI
cM Map	4	2.32	NCBI

JBrowse:

View Region in Genome Browser (JBrowse)

Model

Annotation Click to see Annotation Detail View

Gene Ontology Annotations Click to see Annotation Detail View

Biological Process

biological_process (ND)

Cellular Component

cellular_component (ND)

Molecular Function

molecular_function (ND)

References

Additional References at PubMed

PMID:10349636	PMID:11042159	PMID:11076861	PMID:11217851	PMID:12466851	PMID:16141072	PMID:16141073

Genomics

Variants

Variants in A830012C17Rik
1584 total Variants

miRNA Target Status

Predicted Target Of

	Summary Value
Count of predictions:	113
Count of miRNA genes:	109
Interacting mature miRNAs:	112
Transcripts:	ENSMUST00000131498
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.

RGD ID	Symbol	Name	LOD	P Value	Trait	Sub Trait	Chr	Start	Stop	Species
10412079	Sm1_m	susceptibility to Schistosoma mansoni infection 1 (mouse)			Not determined		4	1	22955614	Mouse
11567249	Elorr3_m	ethanol induced loss of righting response 3 (mouse)					4	3722677	156268235	Mouse
11049579	Lmr9b_m	leishmaniasis resistance 9b (mouse)					4	1	20657234	Mouse
11049580	Lmr9a_m	leishmaniasis resistance 9 (mouse)					4	1	20657234	Mouse
1301510	Bbaa13_m	B.burgdorferi-associated arthritis 13 (mouse)			Not determined		4	1	26395649	Mouse
1301274	Lmr9_m	leishmaniasis resistance 9 (mouse)			Not determined		4	1	20657234	Mouse

Expression

RNA-SEQ Expression

Click on a value in the shaded box below the category label to view a detailed expression data table for that system.

Sequence

Nucleotide Sequences


RefSeq Transcripts	XR_004942050	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
	XR_881079	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
GenBank Nucleotide	AK043612	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
	AL732517	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
	BX004841	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles

Ensembl Acc Id:

ENSMUST00000131498

Type:

CODING

Position:

Mouse Assembly	Chr	Position (strand)	Source
GRCm39 Ensembl	4	4,138,321 - 4,188,703 (+)	Ensembl
GRCm38.p6 Ensembl	4	4,138,321 - 4,188,703 (+)	Ensembl

RefSeq Acc Id:

XR_004942050

Type:

NON-CODING

Position:

Mouse Assembly	Chr	Position (strand)	Source
GRCm39	4	4,166,585 - 4,181,846 (+)	NCBI

Sequence:

show sequence

TTCTGATGATGAGTTGTAAAGTAGCCAAGCGTGGTGACAAACACCGGAAACACTGGCACTTGGG
AGGATATGCTAGAATGGGTCCATAAAACCAGCCAAGAGGAGCCTCGGCCCTTTTTCTTTTATAG
TAGATGTTGCAAAACTGTGACCAGCGTTGGATCTCAGCCCACAGATGTGTTTCGTTTGGCTCAC
ATGGCATGATTTAAAATTTTGAATGTTTCCAACATTTAAGAATAAAAAAATCTTACATAAAAAT
TCGGATTTCTAGCTTACTTTGGAAATCAGATCTGGCTCCTGTCCGGGCTCATGTTTCAGCATCA
AGTGTGGGCTGAGGGTTAACCACCCTGGGGAGTGGGGCGGGGCAGGGTTGAGCCCAGATAGTTC
CTTGGACTTGCTTGGCTTCTGCAAACATTCTAATCCTGTAACTTCAGTCCATTCACCCGGCCTA
CAGTGCTTTAAGACCAGGCTCTAAACCCTTGGACCCAGGGTCCAAACAGGACCTCAGTTTGCTA
ATTTGTAAACTGGATGGGGATAGTCCAAGTTAATGGGCTACATGCCCATGCTACCCTTCAGTCT
GAATCTCCCACCATCTTCTGCTTCCATGTCTGAGCCTGTGTGGATCACTTACTTGTACCTTGTA
AAGTTTGGAGCCAGCAGCACAGCTGAAGCCCCCGCTGAAGCTCAGTGATATCTTTCACTTCCAG
CAGATATGATGGTGTGTGCACTCTAGTACTGGGTACAAAATTCTGTTTTTGACTGGGAGAGAGG
GTAGGCTTCAGACAAACACTTGAGTAAGTAGACAAGTCTGTAGTCTGGTTATGCAGATTTGGTG
TGCATACCATGTTGTGAGGAGCTGCTGTCCTCGATTTCCTTTATATATCAATATTCATCTTATG
GAAGACACACAATAAAATACATATAGGTCTAGGGGAGCTCATATCCTATTAAAGTCCACTGCCA
AAGCATGTGAGAAAGTATAGTTTATCATTGGTGTGTTCAAAAACAAGACAAAGCTTACTTTCTC
TTTGAGATCTCTAGATATATTAAAAAATAAGATTCTGACTCACCGACACCAGCCATGAATGAAT
GACAATTTTAAATGCCTTTTGTGAACTCAAGCTGACTGCCTAAACACATAAAAAACGTGATAGT
ACAAAGCACGCTTATGCCCAAGAGAGAATACAGTGTCCATAACAAGCACTGTCACAGTTCCAGG
TTTTAAGGCTGCAGATAAGGGGGAACCGCATTTCTCTGTCTCTGTCTTCAGAGCAGATGCTTTT
CTGCCGAGTCACTACTCTAACAGTTAGTCATTGATAACTTATTATTTTTAGGATCATAAAATAC
ACAGTATCATGCTATATTGTAAGATAGGATACAGTGTACATCCTCAGAAGAGCGTGGCTGTGTT
TTTGAGATTTATTAATT

hide sequence

RefSeq Acc Id:

XR_881079

Type:

NON-CODING

Position:

Mouse Assembly	Chr	Position (strand)	Source
GRCm39	4	4,148,030 - 4,181,846 (+)	NCBI
GRCm38	4	4,148,030 - 4,181,846 (+)	NCBI

Sequence:

show sequence

TCGTCATGGAAGCTGTAGTGTGTCACAATGCGTCCCACAGTATACCCCTTTGTCCACACATCTT
CACATTAAAATGTTCATTGCAAGAAGTCATTAGTCTGCTTTGAGGCCTCTGGCCTCCACTGGAT
CCTCAGCAGGGCTCCTCTTGGTTATCCTGTTGTTGTCCCAAGCCATGGAGATCCTGCAGCTTTG
GATCAACAAGACCAGCCGGTTCACAAGCTTTAGCAGTTGATAGATAAGGACTTTCGTGTTATTG
AATAGGAGTGGGCTTCCCTTACTTGTCCCTGACTGCAGAGGAAGACCTCTCATGGTTTGATTGA
GTTGTAAAGTAGCCAAGCGTGGTGACAAACACCGGAAACACTGGCACTTGGGAGGATATGCTAG
AATGGGTCCATAAAACCAGCCAAGAGGAGCCTCGGCCCTTTTTCTTTTATAGTAGATGTTGCAA
AACTGTGACCAGCGTTGGATCTCAGCCCACAGATGTGTTTCGTTTGGCTCACATGGCATGATTT
AAAATTTTGAATGTTTCCAACATTTAAGAATAAAAAAATCTTACATAAAAATTCGGATTTCTAG
CTTACTTTGGAAATCAGATCTGGCTCCTGTCCGGGCTCATGTTTCAGCATCAAGTGTGGGCTGA
GGGTTAACCACCCTGGGGAGTGGGGCGGGGCAGGGTTGAGCCCAGATAGTTCCTTGGACTTGCT
TGGCTTCTGCAAACATTCTAATCCTGTAACTTCAGTCCATTCACCCGGCCTACAGTGCTTTAAG
ACCAGGCTCTAAACCCTTGGACCCAGGGTCCAAACAGGACCTCAGTTTGCTAATTTGTAAACTG
GATGGGGATAGTCCAAGTTAATGGGCTACATGCCCATGCTACCCTTCAGTCTGAATCTCCCACC
ATCTTCTGCTTCCATGTCTGAGCCTGTGTGGATCACTTACTTGTACCTTGTAAAGTTTGGAGCC
AGCAGCACAGCTGAAGCCCCCGCTGAAGCTCAGTGATATCTTTCACTTCCAGCAGATATGATGG
TGTGTGCACTCTAGTACTGGGTACAAAATTCTGTTTTTGACTGGGAGAGAGGGTAGGCTTCAGA
CAAACACTTGAGTAAGTAGACAAGTCTGTAGTCTGGTTATGCAGATTTGGTGTGCATACCATGT
TGTGAGGAGCTGCTGTCCTCGATTTCCTTTATATATCAATATTCATCTTATGGAAGACACACAA
TAAAATACATATAGGTCTAGGGGAGCTCATATCCTATTAAAGTCCACTGCCAAAGCATGTGAGA
AAGTATAGTTTATCATTGGTGTGTTCAAAAACAAGACAAAGCTTACTTTCTCTTTGAGATCTCT
AGATATATTAAAAAATAAGATTCTGACTCACCGACACCAGCCATGAATGAATGACAATTTTAAA
TGCCTTTTGTGAACTCAAGCTGACTGCCTAAACACATAAAAAACGTGATAGTACAAAGCACGCT
TATGCCCAAGAGAGAATACAGTGTCCATAACAAGCACTGTCACAGTTCCAGGTTTTAAGGCTGC
AGATAAGGGGGAACCGCATTTCTCTGTCTCTGTCTTCAGAGCAGATGCTTTTCTGCCGAGTCAC
TACTCTAACAGTTAGTCATTGATAACTTATTATTTTTAGGATCATAAAATACACAGTATCATGC
TATATTGTAAGATAGGATACAGTGTACATCCTCAGAAGAGCGTGGCTGTGTTTTTGAGATTTAT
TAATT

hide sequence

Promoters

RGD ID:

15092663

Promoter ID:

EPDNEWNC_M570

Type:

single initiation site

Name:

A830012C17Rik_1

Description:

RIKEN cDNA A830012C17 gene [Source:MGISymbol;Acc:MGI:2441830]

SO ACC ID:

SO:0000170

Source:

EPDNEWNC (Eukaryotic Promoter Database, http://epd.vital-it.ch/)

Experiment Methods:

Single-end sequencing.

Position:

Mouse Assembly	Chr	Position (strand)	Source
GRCm38	4	4,138,321 - 4,138,381	EPDNEWNC

RGD ID:

6882742

Promoter ID:

EPDNEW_M4821

Type:

multiple initiation site

Name:

AK043612_1

Description:

n/a

SO ACC ID:

SO:0000170

Source:

EPDNEW (Eukaryotic Promoter Database, http://epd.vital-it.ch/)

Experiment Methods:

Single-end sequencing.

Position:

Mouse Assembly	Chr	Position (strand)	Source
GRCm38	4	4,138,321 - 4,138,381	EPDNEW

Additional Information

External Database Links

Database	Acc Id	Source(s)
Ensembl Genes	ENSMUSG00000085996	Ensembl
MGD	MGI:2441830	ENTREZGENE
NCBI Gene	319308	ENTREZGENE
PhenoGen	A830012C17Rik	PhenoGen
RNAcentral	URS00009B3704	RNACentral

Gene Annotator (Functional Annotation) unavailable	Gene Annotator (Annotation Distribution) unavailable	Variant Visualizer (Genomic Variants) unavailble Variant Visualizer (Genomic Variants) unavailable
Gene Annotator (Functional Annotation)	Gene Annotator (Annotation Distribution)	Variant Visualizer (Genomic Variants)

InterViewer (Protein-Protein Interactions) unavailable	Gviewer (Genome Viewer) unavailable	Variant Visualizer (Damaging Variants) unavailble Variant Visualizer (Damaging Variants) unavailable
InterViewer (Protein-Protein Interactions)	GViewer (Genome Viewer)	Variant Visualizer (Damaging Variants)

Gene Annotator (Annotation Comparison) unavailable	OLGA (Gene List Generator) unavailable
Gene Annotator (Annotation Comparison)	OLGA (Gene List Generator)	Excel (Download)

MOET (Multi-Ontology Enrichement) unavailable	GOLF (Gene-Ortholog Location Finder) unavailable
MOET (Multi-Ontology Enrichement)	GOLF (Gene-Ortholog Location Finder)

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