5830428M24Rik (RIKEN cDNA 5830428M24 gene)

Gene: 5830428M24Rik (RIKEN cDNA 5830428M24 gene) Mus musculus

Analyze

Symbol:

5830428M24Rik

Name:

RIKEN cDNA 5830428M24 gene

RGD ID:

1610734

MGI Page

MGI

Description:

Type:

ncrna (Ensembl: lncRNA)

RefSeq Status:

VALIDATED

Previously known as:

100040862; Gm3007; hypothetical protein LOC76062; predicted gene 3007; predicted gene, 100040862

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	12	69,511,561 - 69,522,324 (-)	NCBI	GRCm39	GRCm39	mm39
GRCm39 Ensembl	12	69,511,558 - 69,522,361 (-)	Ensembl		GRCm39 Ensembl
GRCm38	12	69,464,787 - 69,475,550 (-)	NCBI	GRCm38	GRCm38	mm10	GRCm38
GRCm38.p6 Ensembl	12	69,464,787 - 69,475,550 (-)	Ensembl	GRCm38		mm10	GRCm38
MGSCv37	12	70,565,774 - 70,576,534 (-)	NCBI	GRCm37	MGSCv37	mm9	NCBIm37
MGSCv36	12	70,570,876 - 70,577,282 (-)	NCBI		MGSCv36	mm8
Celera	12	70,560,516 - 70,571,233 (-)	NCBI		Celera
Cytogenetic Map	12	C2	NCBI
cM Map	12	28.86	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:11752298	PMID:12466851	PMID:16141072	PMID:16141073

Genomics

Variants

Variants in 5830428M24Rik
454 total Variants

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
4142234	Tmc1m3_m	Tmc1 modifier 3 (mouse)			Not determined		12	5418440	77031203	Mouse
27226753	Femd7_m	femur midshaft diameter 7, 10 week (mouse)					12	9550000	84146774	Mouse
13207568	Tcq14_m	total cholesterol QTL 14 (mouse)					12	11660001	97176774	Mouse
1558978	Cplaq10_m	circadian period of locomotor activity 10 (mouse)			Not determined		12	15341026	79040364	Mouse
1301574	Lmblgq5_m	limb length QTL 5 (mouse)			Not determined		12	17596447	80956883	Mouse
4142002	Tbqt3_m	tibia bone quality traits 3 (mouse)			Not determined		12	35285496	109936243	Mouse
1357479	Splwt1_m	spleen weight 1 (mouse)			Not determined		12	41693175	90887526	Mouse
1357757	Lnopy2_m	lens opacity 2 (mouse)			Not determined		12	52846626	86846796	Mouse
1357749	Vtbt13_m	vertebral trabecular bone trait 13 (mouse)			Not determined		12	53132002	87132145	Mouse
12832727	Ahrq1_m	airway hyperresponsiveness QTL 1 (mouse)					12	54695910	82665939	Mouse
13504832	Bacszq2_m	baculum size QTL 2 (mouse)					12	56945798	75345787	Mouse
27226728	Tibl20_m	tibia length 20, 16 week (mouse)					12	59146786	93866774	Mouse
27226776	Tibl6_m	tibia length 6, 5 week (mouse)					12	60646786	92666774	Mouse
10043948	Pbft6_m	percent body fat 6 (mouse)			Not determined		12	61205427	95205427	Mouse
1301476	Pbwg12_m	postnatal body weight growth 12 (mouse)			Not determined		12	62040164	96040364	Mouse
27226797	Scvln19_m	sacral vertebrae length 2, 16 week (mouse)					12	62146786	99466259	Mouse
10043895	Bw20_m	body weight QTL 20 (mouse)			Not determined		12	62308252	96308252	Mouse
1301046	Par3_m	pulmonary adenoma resistance 3 (mouse)			Not determined		12	63956708	97956883	Mouse
1301337	Cdcs8_m	cytokine deficiency colitis susceptibility 8 (mouse)			Not determined		12	64689083	98689229	Mouse
1300633	Cdcs7_m	cytokine deficiency colitis susceptibility 7 (mouse)			Not determined		12	64689083	98689229	Mouse
14746976	Manh73_m	mandible shape 73 (mouse)					12	65857131	99857131	Mouse
27226771	Tibl14_m	tibia length 14, 10 week (mouse)					12	68346774	98766259	Mouse
27226793	Feml10_m	femur length 10, 5 week (mouse)					12	68346774	113363620	Mouse

Expression

Sequence

Nucleotide Sequences


RefSeq Transcripts	NR_038060	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
GenBank Nucleotide	AC157822	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
	AI060956	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
	AK017954	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
	AK039829	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
	DV046824	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles

RefSeq Acc Id:

ENSMUST00000221805

Type:

CODING

Position:

Mouse Assembly	Chr	Position (strand)	Source
GRCm39 Ensembl	12	69,511,730 - 69,514,166 (-)	Ensembl
GRCm38.p6 Ensembl	12	69,464,956 - 69,467,392 (-)	Ensembl

RefSeq Acc Id:

ENSMUST00000222697

Type:

CODING

Position:

Mouse Assembly	Chr	Position (strand)	Source
GRCm39 Ensembl	12	69,516,663 - 69,522,295 (-)	Ensembl
GRCm38.p6 Ensembl	12	69,469,889 - 69,475,521 (-)	Ensembl

RefSeq Acc Id:

ENSMUST00000222980

Type:

CODING

Position:

Mouse Assembly	Chr	Position (strand)	Source
GRCm39 Ensembl	12	69,520,388 - 69,522,324 (-)	Ensembl
GRCm38.p6 Ensembl	12	69,473,614 - 69,475,550 (-)	Ensembl

RefSeq Acc Id:

ENSMUST00000223143

Type:

CODING

Position:

Mouse Assembly	Chr	Position (strand)	Source
GRCm39 Ensembl	12	69,511,561 - 69,522,361 (-)	Ensembl
GRCm38.p6 Ensembl	12	69,464,787 - 69,475,547 (-)	Ensembl

RefSeq Acc Id:

ENSMUST00000240794

Type:

CODING

Position:

Mouse Assembly	Chr	Position (strand)	Source
GRCm39 Ensembl	12	69,511,653 - 69,522,290 (-)	Ensembl

RefSeq Acc Id:

ENSMUST00000240874

Type:

CODING

Position:

Mouse Assembly	Chr	Position (strand)	Source
GRCm39 Ensembl	12	69,511,588 - 69,522,284 (-)	Ensembl

RefSeq Acc Id:

ENSMUST00000241118

Type:

CODING

Position:

Mouse Assembly	Chr	Position (strand)	Source
GRCm39 Ensembl	12	69,511,558 - 69,522,361 (-)	Ensembl

RefSeq Acc Id:

ENSMUST00000241431

Type:

CODING

Position:

Mouse Assembly	Chr	Position (strand)	Source
GRCm39 Ensembl	12	69,511,558 - 69,522,357 (-)	Ensembl

RefSeq Acc Id:

ENSMUST00000241707

Type:

CODING

Position:

Mouse Assembly	Chr	Position (strand)	Source
GRCm39 Ensembl	12	69,511,588 - 69,522,324 (-)	Ensembl

RefSeq Acc Id:

ENSMUST00000242322

Type:

CODING

Position:

Mouse Assembly	Chr	Position (strand)	Source
GRCm39 Ensembl	12	69,520,760 - 69,522,262 (-)	Ensembl

RefSeq Acc Id:

ENSMUST00000242761

Type:

CODING

Position:

Mouse Assembly	Chr	Position (strand)	Source
GRCm39 Ensembl	12	69,511,558 - 69,522,324 (-)	Ensembl

RefSeq Acc Id:

ENSMUST00000243253

Type:

CODING

Position:

Mouse Assembly	Chr	Position (strand)	Source
GRCm39 Ensembl	12	69,511,588 - 69,522,324 (-)	Ensembl

RefSeq Acc Id:

ENSMUST00000243882

Type:

CODING

Position:

Mouse Assembly	Chr	Position (strand)	Source
GRCm39 Ensembl	12	69,511,558 - 69,522,357 (-)	Ensembl

RefSeq Acc Id:

ENSMUST00000244309

Type:

CODING

Position:

Mouse Assembly	Chr	Position (strand)	Source
GRCm39 Ensembl	12	69,511,588 - 69,522,357 (-)	Ensembl

RefSeq Acc Id:

ENSMUST00000244317

Type:

CODING

Position:

Mouse Assembly	Chr	Position (strand)	Source
GRCm39 Ensembl	12	69,511,588 - 69,522,324 (-)	Ensembl

RefSeq Acc Id:

ENSMUST00000245063

Type:

CODING

Position:

Mouse Assembly	Chr	Position (strand)	Source
GRCm39 Ensembl	12	69,520,766 - 69,522,305 (-)	Ensembl

RefSeq Acc Id:

ENSMUST00000245246

Type:

CODING

Position:

Mouse Assembly	Chr	Position (strand)	Source
GRCm39 Ensembl	12	69,511,591 - 69,522,357 (-)	Ensembl

RefSeq Acc Id:

ENSMUST00000246610

Type:

CODING

Position:

Mouse Assembly	Chr	Position (strand)	Source
GRCm39 Ensembl	12	69,516,619 - 69,522,321 (-)	Ensembl

RefSeq Acc Id:

NR_038060

RefSeq Status:

VALIDATED

Type:

NON-CODING

Position:

Mouse Assembly	Chr	Position (strand)	Source
GRCm39	12	69,511,561 - 69,522,324 (-)	NCBI
GRCm38	12	69,464,787 - 69,475,550 (-)	ENTREZGENE
Celera	12	70,560,516 - 70,571,236 (-)	ENTREZGENE
cM Map	12		ENTREZGENE

Sequence:

show sequence

AGAGAGGAACCGGTGTGGTGAACTCCTGGCATGCGCAGGTGACAAGAGGTTCCGCAGGGTAAGG
TCACAGGCTTATTAAACTTGGATGACAGTAAACCGATGACTAACTGGAATGAATGGAGTCTCTA
CACATCAAATCGTGTGTCTTGACTACTCAGGATGTCAAGGGCAAAGGTTAACTCCTGGGGGTTT
TCTTTCTGTATTAAGATTCTCAAGAGAACAGAACCAGTGGTGGATGTGGAAACAAGGCTCCGAA
AATGTTAAAGAAGCCACTCCTGGTCATTACATCAGCTAAACGACAGGCTCTGATTCACCTGGGC
TGTGGGATTTCCAGGATCAAAGCAAGTGTAAGAGGGCTGATGGTGGGCCACTGTCACCACACCC
TTCATCTTTCACTGTGTCATCTGAGGTTGTTCTACAGTGCCTTGCTTCTGATTGTGCTGTCAAC
CTTCTCAGTCCCTGGGTTGGACCTAGGACAACAGGCCAGCCTTTGGTTAGCATCAGCAGCTGAG
TGGAGACTCGTCTCCAAGCATCAAGGATGTGAAAATGTGATCTTGTTGGGGATAGTGGGAGCTT
GGGGGATGGGTTCCTTTGTACTTCTCTCAAGGTCTCCTGGTCCCTCCCTGTGTGTTTGTGGGCG
CCACAGACAGCCTCACAATCAGGATGAGTGGTAACGGGACAGTCAAACACAATGAAGGGAATCA
TTGTCTCACGAGAGTCAGAACATCTGTTCCTCCCACCGCACCTGGGCGAAGGCCAAATAATCAA
AAGAAGGAAACAGGATCTGCCAACAACGCACTTTACCTTGAGTCTTTGTGTAGAGAATACCTTC
TCCAAGTAGGCGCCTTTCATTGGCTCAGATTTTCCCATCTCAGTTGTCATTATAACTGAAAGCT
ATTGTAGCTCATAATTTCACATTGTCCTTTCAAATAGAAGCATCGCCAAGCAGATGTGAACAAT
TATCTTCAATTGTGATTTTTTTTCCATTAAATTTCTAAAGGAATACCTAACCTGGGTGTTCAAA
CATTGGTTAATCC

hide sequence

Promoters

RGD ID:

15094142

Promoter ID:

EPDNEWNC_M2032

Type:

initiation region

Name:

5830428M24Rik_1

Description:

RIKEN cDNA 5830428M24 gene [Source:MGISymbol;Acc:MGI:1923312]

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	12	69,475,550 - 69,475,610	EPDNEWNC

Additional Information

External Database Links

Database	Acc Id	Source(s)
Ensembl Genes	ENSMUSG00000113035	Ensembl, ENTREZGENE
Ensembl Transcript	ENSMUST00000223143	ENTREZGENE
MGD	MGI:1923312	ENTREZGENE
NCBI Gene	76062	ENTREZGENE
PhenoGen	5830428M24Rik	PhenoGen
RNAcentral	URS000075C521	RNACentral

Nomenclature History

Date	Current Symbol	Current Name	Previous Symbol	Previous Name	Description	Reference	Status
2016-04-05	5830428M24Rik	RIKEN cDNA 5830428M24 gene	Gm3007	predicted gene 3007	Data merged from RGD:2299442	737654	PROVISIONAL

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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