A230009B12Rik (RIKEN cDNA A230009B12 gene)

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Gene: A230009B12Rik (RIKEN cDNA A230009B12 gene) Mus musculus

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Symbol:

A230009B12Rik

Name:

RIKEN cDNA A230009B12 gene

RGD ID:

1607141

MGI Page

MGI

Description:

Type:

ncrna (Ensembl: lncRNA)

RefSeq Status:

VALIDATED

Previously known as:

hypothetical protein LOC319750

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	17	10,675,145 - 10,711,986 (+)	NCBI	GRCm39	GRCm39	mm39
GRCm39 Ensembl	17	10,675,142 - 10,711,986 (+)	Ensembl		GRCm39 Ensembl
GRCm38	17	10,456,216 - 10,493,057 (+)	NCBI	GRCm38	GRCm38	mm10	GRCm38
GRCm38.p6 Ensembl	17	10,456,216 - 10,493,057 (+)	Ensembl	GRCm38		mm10	GRCm38
MGSCv37	17	10,649,082 - 10,685,923 (+)	NCBI	GRCm37	MGSCv37	mm9	NCBIm37
Celera	17	10,494,745 - 10,531,984 (+)	NCBI		Celera
Cytogenetic Map	17	A1	NCBI
cM Map	17	7.8	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:14610273	PMID:16141072	PMID:16141073	PMID:24316575	PMID:37196079

Genomics

Variants

Variants in A230009B12Rik
1072 total Variants

miRNA Target Status

Predicted Target Of

	Summary Value
Count of predictions:	432
Count of miRNA genes:	252
Interacting mature miRNAs:	268
Transcripts:	ENSMUST00000159422, ENSMUST00000159602, ENSMUST00000160738, ENSMUST00000160763
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.

RGD ID	Symbol	Name	LOD	P Value	Trait	Sub Trait	Chr	Start	Stop	Species
12910982	Pifs2_m	peptide-induced fatal syndrome 2 (mouse)					17	1	26189355	Mouse
12910528	Nrq1_m	noise-induced hearing loss resistant QTL 1 (mouse)					17	1	29198453	Mouse
1302100	Circp2_m	circadian photosensitivity 2 (mouse)			Not determined		17	1	29198453	Mouse
1300890	Bhr3_m	bronchial hyperresponsiveness 3 (mouse)			Not determined		17	3974890	48866091	Mouse
1357789	Kdnw3_m	kidney weight 3 (mouse)			Not determined		17	4854752	47885665	Mouse
13824987	Flal1_m	fatty liver accumulation QTL 1, females only (mouse)					17	8218832	11218887	Mouse
1301338	Lmr1_m	leishmaniasis resistance 1 (mouse)			Not determined		17	10081340	86996400	Mouse
1300613	Pcyts4_m	plasmacytoma susceptibility 4 (mouse)			Not determined		17	1	27081639	Mouse
4141608	Phl1_m	progressive hearing loss 1 (mouse)			Not determined		17	7875843	29487423	Mouse
1357452	Vtbt18_m	vertebral trabecular bone trait 18 (mouse)			Not determined		17	1	20975022	Mouse
1357902	Obq19_m	obesity QTL 19 (mouse)			Not determined		17	1	25662076	Mouse
1301327	Lmr7_m	leishmaniasis resistance 7 (mouse)			Not determined		17	4854752	27715939	Mouse
4141215	Mnic1_m	macronutrient intake, carbohydrate 1 (mouse)			Not determined			4854752	45670266	Mouse
1300787	Cd8mts5_m	CD8 memory T cell subset 5 (mouse)			Not determined		17	8584914	42585149	Mouse
1357680	Idd23_m	insulin dependent diabetes susceptibility 23 (mouse)			Not determined		17	3974890	26401133	Mouse
1302196	Myaa1_m	modifier of Yaa 1 (mouse)			Not determined		17	1	20975022	Mouse
4141272	Tfv1_m	total food volume 1 (mouse)			Not determined			4854752	65637357	Mouse
10412276	Leci2_m	leukocyte endothelial cell interactions 2 (mouse)			Not determined		17	3348175	37348299	Mouse
1300706	Alan1_m	alloantigen response 1 (mouse)			Not determined		17	4854752	46469702	Mouse
10043949	Pbft7_m	percent body fat 7 (mouse)			Not determined		17	6893936	40893936	Mouse
1357743	Lith3_m	lithogenic gene 3 (mouse)			Not determined		17	1	26194456	Mouse
12910527	Nrq1a_m	noise-induced hearing loss resistant QTL 1a (mouse)					17	1	29198453	Mouse
1301615	Cfld3_m	cystic fibrosis lung disease 3 (mouse)			Not determined		17	1	27081639	Mouse
1301935	Skull24_m	skull morphology 24 (mouse)			Not determined		17	8584914	42585149	Mouse
13524851	Asrq8_m	acoustic startle response 8 (mouse)					17	1	31030170	Mouse

Markers in Region

Am107b

Mouse Assembly	Chr	Position (strand)	Source	JBrowse
GRCm38	17	10,477,745 - 10,478,338	UniSTS	GRCm38
MGSCv37	17	10,670,611 - 10,671,204	UniSTS	GRCm37
Celera	17	10,516,487 - 10,517,080	UniSTS
Cytogenetic Map	17	A2	UniSTS
cM Map	17	5.9	UniSTS

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	NR_077237	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
	NR_077238	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
	NR_077239	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
GenBank Nucleotide	AC090963	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
	AK038428	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
	AK038759	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
	AK045899	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles

Ensembl Acc Id:

ENSMUST00000159422

Type:

CODING

Position:

Mouse Assembly	Chr	Position (strand)	Source
GRCm39 Ensembl	17	10,675,150 - 10,692,690 (+)	Ensembl
GRCm38.p6 Ensembl	17	10,456,222 - 10,473,759 (+)	Ensembl

Ensembl Acc Id:

ENSMUST00000159602

Type:

CODING

Position:

Mouse Assembly	Chr	Position (strand)	Source
GRCm39 Ensembl	17	10,675,225 - 10,711,986 (+)	Ensembl
GRCm38.p6 Ensembl	17	10,456,296 - 10,493,057 (+)	Ensembl

Ensembl Acc Id:

ENSMUST00000160738

Type:

CODING

Position:

Mouse Assembly	Chr	Position (strand)	Source
GRCm39 Ensembl	17	10,683,766 - 10,692,687 (+)	Ensembl
GRCm38.p6 Ensembl	17	10,464,837 - 10,473,758 (+)	Ensembl

Ensembl Acc Id:

ENSMUST00000160763

Type:

CODING

Position:

Mouse Assembly	Chr	Position (strand)	Source
GRCm39 Ensembl	17	10,675,142 - 10,693,052 (+)	Ensembl
GRCm38.p6 Ensembl	17	10,456,216 - 10,474,123 (+)	Ensembl

Ensembl Acc Id:

ENSMUST00000247569

Type:

CODING

Position:

Mouse Assembly	Chr	Position (strand)	Source
GRCm39 Ensembl	17	10,675,174 - 10,711,986 (+)	Ensembl

Ensembl Acc Id:

ENSMUST00000272550

Type:

CODING

Position:

Mouse Assembly	Chr	Position (strand)	Source
GRCm39 Ensembl	17	10,691,730 - 10,692,687 (+)	Ensembl

RefSeq Acc Id:

NR_077237

RefSeq Status:

VALIDATED

Type:

NON-CODING

Position:

Mouse Assembly	Chr	Position (strand)	Source
GRCm39	17	10,675,145 - 10,711,986 (+)	NCBI
GRCm38	17	10,456,216 - 10,493,057 (+)	NCBI
Celera	17	10,494,745 - 10,531,984 (+)	NCBI

Sequence:

show sequence

TTTGGACACAATTTTCTCCGTAGTATTTTGAGACATCATCATCTTTTCAAATAAAAGCAAAAGA
TTTTCTTTCTCCCCCTGCAGCCTGGAAACCGTCCTTGCTACAAGTGACACAACGCAATAACCCG
GCATAATGAAAAGAGAGGCCACATAACAGTTCCATTTGGCGACCTATCACTACTGGGGAGTTTT
CAAGTTTTCTTCTTTTGGCTTTCTGTGCTCTCTCAGTCTTTCCTGACTCTTACTCAATTCTCAC
CCTGAATTACGCCAGGTTGGTTCTTAAGGCTGCCCCTGCCAATGAGGAGACTGAGGAGCTGGCA
GGAGTTTTAGTCTCCAGACCAGGCCTTGAGGGTCAAGACCACCACCAGCCTTCTATTCTACGCA
CCTCCCTGCGGCTTCGATTTGGCTAAGTCAACTCCAAAGTGCTGGCTGCAGTTCTCACTGTTTC
CTTTTCAGAACCAAGCCTTCTGGGCCACAGTTATGATGTCCTGAGCCCACCTGCAAGGCAAATC
TAGAGTACTGTGGCTCGGCTTCGGGGGCCCCTCCATACCGAAGCACTCTCCCTGGGCTGCTTGT
CTGGATGAAGGTGCTCTCAGGGCCAGCATGTCCCCTTACTATTGCCCGAGCCAGGGGATGACTG
CCTTTATGGCCGTCTCAGCTGTTTGCCTGACCACTCCTCTCTCATTCGGCCATTGTTCCAGAAC
ACAACTGGCACAGCTGCTCTAATTCTCAATCCTTCGCATTTCTTCCATGATGGATCATCAACTG
CCGAGGACAGGCAGAGTCTCCCCGTCTCTGCTCCCACAGTGCTTGCCTCTACTCCTCTAGCACA
CAGCAGAAGATTCTGAACTAACATCGAGGACCCTAAGATCGGACTGTGCCCTATCGGTCAAGGC
CTACGTGGCCCTGAGCGAGCTGCTTAGGATCTGTTGCTTTCAGCTTGTCTAGAAGACAAACATT
TCACAGTAAGGCTATTTGTGAAATCTAAATGATGTACTAAATCCAGACTGCAATGTATTTCATA
TTTATATCAGTGTCTACATAGGAGTTTTATGTGGCCTATCTAGATGGAATTTGACCAAATCTGA
AAATCTGGCTGAAATCTGTTGGCTGTAAGGGATGCCTGAGCAGAGTCTATTCTTGGGTGTGTCC
TGAGTCCCAGGAAGCAGCTGTGGAAGAAGACAGTGACCCTCAACACCAGCCTGGTTTGGACTGA
GTCTGCAGACAGAACATTTCAAAGTCGGTTATTTTATTGTATTTTCACAGAGAGATAATGCAGT
TTAAAATACGGACTTGGCAAAGCCTCTGAGTGTTAGAGACTTCATTACCAACCTTCAGCCGCTC
CCTGCTTTCATAAGAAGGAATTTTTAGAAATGGGTGAGAGTTGTTACCAATCCACTGGTAGAAA
CAGCAGGTATCCCCTAAGCTCATGGACCCAACAAAACTTCTGCTGGCTTCCAACATTCAGTACA
GGAAACATCTGTTAAGCAGGATAAAGATCTAAAAAATATTTGTAGGTAGCCTAGTTGAGCTGAA
CACTGGTAATTCATTGGACATTGACCCTGAATCTTTAAAGCCCCCTTCCGGTCAAAGTTTGAAA
CTTTGGACTGTCCTCAACTGGGGGCTCTGGGCTGCAGGCTATACACAATGGAGTCCATAATCTC
TGGGGCTCTGCAATCAGCAACCTAAGCATTCCGACACACTAGCCCTGGGGATCCTCCCTTCTGC
TGGCAAGGGAACTCAAGGTATTTTATGAGATGCCAGGGCATTGATTCAATGAGCAAGGACCACG
TTTATTTTAACCAGTGGGGAGAAAACAAAATCAAAATAGAAATTTCAGCTAATTTATGGATAAT
AAAACGCATCTGTCTAATTGATTAAAGAATGTTCAT

hide sequence

RefSeq Acc Id:

NR_077238

RefSeq Status:

VALIDATED

Type:

NON-CODING

Position:

Mouse Assembly	Chr	Position (strand)	Source
GRCm39	17	10,675,145 - 10,693,052 (+)	NCBI
GRCm38	17	10,456,216 - 10,474,123 (+)	NCBI
Celera	17	10,494,745 - 10,531,984 (+)	NCBI

Sequence:

show sequence

TTTGGACACAATTTTCTCCGTAGTATTTTGAGACATCATCATCTTTTCAAATAAAAGCAAAAGA
TTTTCTTTCTCCCCCTGCAGCCTGGAAACCGTCCTTGCTACAAGTGACACAACGCAATAACCCG
GTACTTTGAAAGGTCTGTATTCCGCCACAGGTGTATTCCACTAAAGCAGGACAGATTCCACACC
ATGTGTGCATGCTCTGCTCTTCTGGGTCTGTTTGCTGCCTCTCCGACTGCTCTGGTATCTTCAA
TGAGATCTTAAAACTACATGGAAGATTGAGCTGTGACACCAATGACCTCAGCGAGCATGGCTGC
CGTGATGGTGGTCCTATGGGGAACATTTGCCAACAACTGAGTGACTCAGGCCTGGCTGCAGAGC
CAAGGTCCTCCAATAGGCATGTGGGCTGGATGCCAGAGGAGACTTCGCTCAGGGACATGGCACA
TTTCTCATGGAATGGATTGCTGATTTCAACCAGCCACCTCAGCCCTGCTAACTGCTGACTTCTG
ACTTTCTCTAAATGAGAAACGTGAAGGCGTGTTTGTATGTTTTAGACAGGAGGGACAGTTGTGA
GCATTTTTTCCATGGCTAACTTGCAACTCAGTCCTTCCTTTGCTTTGGGTTGCTTCATATCGAA
TGATGGCTTGAATGTGCTGGAGCCTTACTTAGGTTAGCGTACATTTATTCACACATAATGAAAA
AGATCAATGTGAAGGAAATGAAGGGACACAGTATGGTCATTATACCTTTCATAATAAACACTGT
GCGGCCAGCGTCTCATTTTGTGCTGTTTGCTTCCGTGAAATTAGCTAATCCCTGGAGCACAGCC
TTATCAATATTAACAATTATTGGTTGTTTGTATCATTCCATTTCTACTTCATAGCTAGCCTCCC
CTTTTAGTTTTTCTTATTATAGACTGAGGAATTGATTAATGAAACATAAAATGTGGAGTCAGCT
CACAGCTACTTGAAACCATATCCACCTAAGTCTGTCTTTGGACCTCTTTGGTGAGGCAACTGTC
ATGTTAACCTGGTTAGATGGACTGCAGCTGCTCCTTGTGCAGGCTGTGGAGAGGTTTGGGTGAT
AAGAGGCTCCATTTCAGGGTCATTTGTCATGTTTCTTGATAAAGGCTAACAATAGTG

hide sequence

RefSeq Acc Id:

NR_077239

RefSeq Status:

VALIDATED

Type:

NON-CODING

Position:

Mouse Assembly	Chr	Position (strand)	Source
GRCm39	17	10,675,145 - 10,693,052 (+)	NCBI
GRCm38	17	10,456,216 - 10,474,123 (+)	NCBI
Celera	17	10,494,745 - 10,531,984 (+)	NCBI

Sequence:

show sequence

TTTGGACACAATTTTCTCCGTAGTATTTTGAGACATCATCATCTTTTCAAATAAAAGCAAAAGA
TTTTCTTTCTCCCCCTGCAGCCTGGAAACCGTCCTTGCTACAAGTGACACAACGCAATAACCCG
GTTCTCTCGGGGCAGAGGCAAGACATGGACATAGTGATAGCCATGCTTATTTCTGTATGTGCAT
TACAAATCATGAGTGCACACCAGTACCCAGTATCCCCAGGTCCAGGCCAGCGTGACAAGGTACT
TTGAAAGGTCTGTATTCCGCCACAGGTGTATTCCACTAAAGCAGGACAGATTCCACACCATGTG
TGCATGCTCTGCTCTTCTGGGTCTGTTTGCTGCCTCTCCGACTGCTCTGGTATCTTCAATGAGA
TCTTAAAACTACATGGAAGATTGAGCTGTGACACCAATGACCTCAGCGAGCATGGCTGCCGTGA
TGGTGGTCCTATGGGGAACATTTGCCAACAACTGAGTGACTCAGGCCTGGCTGCAGAGCCAAGG
TCCTCCAATAGGCATGTGGGCTGGATGCCAGAGGAGACTTCGCTCAGGGACATGGCACATTTCT
CATGGAATGGATTGCTGATTTCAACCAGCCACCTCAGCCCTGCTAACTGCTGACTTCTGACTTT
CTCTAAATGAGAAACGTGAAGGCGTGTTTGTATGTTTTAGACAGGAGGGACAGTTGTGAGCATT
TTTTCCATGGCTAACTTGCAACTCAGTCCTTCCTTTGCTTTGGGTTGCTTCATATCGAATGATG
GCTTGAATGTGCTGGAGCCTTACTTAGGTTAGCGTACATTTATTCACACATAATGAAAAAGATC
AATGTGAAGGAAATGAAGGGACACAGTATGGTCATTATACCTTTCATAATAAACACTGTGCGGC
CAGCGTCTCATTTTGTGCTGTTTGCTTCCGTGAAATTAGCTAATCCCTGGAGCACAGCCTTATC
AATATTAACAATTATTGGTTGTTTGTATCATTCCATTTCTACTTCATAGCTAGCCTCCCCTTTT
AGTTTTTCTTATTATAGACTGAGGAATTGATTAATGAAACATAAAATGTGGAGTCAGCTCACAG
CTACTTGAAACCATATCCACCTAAGTCTGTCTTTGGACCTCTTTGGTGAGGCAACTGTCATGTT
AACCTGGTTAGATGGACTGCAGCTGCTCCTTGTGCAGGCTGTGGAGAGGTTTGGGTGATAAGAG
GCTCCATTTCAGGGTCATTTGTCATGTTTCTTGATAAAGGCTAACAATAGTG

hide sequence

Promoters

RGD ID:

13674730

Promoter ID:

EPDNEW_M21514

Type:

single initiation site

Name:

A230009B12Rik_1

Description:

Mus musculus RIKEN cDNA A230009B12 gene , transcript variant3, long non-coding RNA.

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	17	10,456,296 - 10,456,356	EPDNEW

RGD ID:

15094754

Promoter ID:

EPDNEWNC_M2668

Type:

single initiation site

Name:

A230009B12Rik_2

Description:

RIKEN cDNA A230009B12 gene [Source:MGISymbol;Acc:MGI:2442666]

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	17	10,456,296 - 10,456,356	EPDNEWNC

RGD ID:

15094753

Promoter ID:

EPDNEWNC_M2669

Type:

single initiation site

Name:

A230009B12Rik_1

Description:

RIKEN cDNA A230009B12 gene [Source:MGISymbol;Acc:MGI:2442666]

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	17	10,464,843 - 10,464,903	EPDNEWNC

Additional Information

External Database Links

Database	Acc Id	Source(s)
Ensembl Genes	ENSMUSG00000089633	Ensembl, ENTREZGENE
Ensembl Transcript	ENSMUST00000159602	ENTREZGENE
	ENSMUST00000160763	ENTREZGENE
MGD	MGI:2442666	ENTREZGENE
NCBI Gene	319750	ENTREZGENE
PhenoGen	A230009B12Rik	PhenoGen
RNAcentral	URS000075A6DD	RNACentral
	URS000075D22E	RNACentral
	URS000075EB97	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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