Gm4419 (predicted gene 4419) - Rat Genome Database

Name: Gm4419
Creator: Rat Genome Database
License: Creative Commons CC BY 4.0
Keywords: Rat Gene RGD Genome

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Gene: Gm4419 (predicted gene 4419) Mus musculus

Analyze

Symbol:

Gm4419

Name:

predicted gene 4419

RGD ID:

2299391

MGI Page

MGI

Description:

Type:

ncrna (Ensembl: lncRNA)

RefSeq Status:

VALIDATED

Previously known as:

predicted gene, 100043407

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	21,467,883 - 21,471,065 (+)	NCBI	GRCm39	GRCm39	mm39
GRCm39 Ensembl	12	21,467,268 - 21,483,111 (+)	Ensembl		GRCm39 Ensembl
GRCm38	12	21,417,882 - 21,421,064 (+)	NCBI	GRCm38	GRCm38	mm10	GRCm38
GRCm38.p6 Ensembl	12	21,417,323 - 21,421,064 (+)	Ensembl	GRCm38		mm10	GRCm38
MGSCv37	12	21,423,757 - 21,425,250 (+)	NCBI	GRCm37	MGSCv37	mm9	NCBIm37
MGSCv36	12	21,423,760 - 21,424,722 (+)	NCBI		MGSCv36	mm8
Celera	12	19,481,674 - 19,483,388 (-)	NCBI		Celera
Cytogenetic Map	12	A1.3	NCBI
cM Map	12	8.31	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:12904583	PMID:14610273	PMID:16141072	PMID:16141073	PMID:18799693	PMID:28688761

Genomics

Variants

Variants in Gm4419
146 total Variants

miRNA Target Status

Predicted Target Of

	Summary Value
Count of predictions:	77
Count of miRNA genes:	76
Interacting mature miRNAs:	76
Transcripts:	ENSMUST00000180671
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
1301393	Dyscalc3_m	dystrophic cardiac calcinosis 3 (mouse)			Not determined		12	1	22418579	Mouse
12910983	Pifs1_m	peptide-induced fatal syndrome 1 (mouse)					12	1	30433078	Mouse
4141436	Chldq7_m	cholesterol and HDL QTL 7 (mouse)			Not determined		12	1	27920733	Mouse
1301655	Bmd12_m	bone mineral density 12 (mouse)			Not determined		12	1	24662697	Mouse
1301207	Circp1_m	circadian photosensitivity 1 (mouse)			Not determined		12	1	33430339	Mouse
1301143	Skull17_m	skull morphology 17 (mouse)			Not determined		12	1	22418579	Mouse
1301723	Fcsa7_m	femoral cross-sectional area 7 (mouse)			Not determined		12	9491004	43491112	Mouse
11039525	Tbbr2_m	Trypanosoma brucei brucei response 2 (mouse)					12	1	22418579	Mouse
15039339	Nmrs29_m	NAFLD-associated magnetic resonance shift 29 (mouse)					12	17825852	51825852	Mouse
4141296	Femwf9_m	femur work to failure 9 (mouse)			Not determined			1	27920733	Mouse
10043977	Obq34_m	obesity QTL 34 (mouse)			Not determined		12	15147331	49147331	Mouse
10043848	Hdlq90_m	HDL QTL 90 (mouse)			Not determined		12	17839939	51840081	Mouse
1301574	Lmblgq5_m	limb length QTL 5 (mouse)			Not determined		12	17596447	80956883	Mouse
1558978	Cplaq10_m	circadian period of locomotor activity 10 (mouse)			Not determined		12	15341026	79040364	Mouse
1300870	Ath18_m	atherosclerosis 18 (mouse)			Not determined		12	18259966	52260067	Mouse
12792982	Fbmd4_m	femoral bone mineral density 4, females only (mouse)					12	10043194	24365136	Mouse
13207568	Tcq14_m	total cholesterol QTL 14 (mouse)					12	11660001	97176774	Mouse
1357519	Vtbt12_m	vertebral trabecular bone trait 12 (mouse)			Not determined		12	1	24662697	Mouse
10402496	Lmr22_m	leishmaniasis resistance 22 (mouse)			Not determined		12	1	22418579	Mouse
27226753	Femd7_m	femur midshaft diameter 7, 10 week (mouse)					12	9550000	84146774	Mouse
26884410	Bzwq15_m	bi-zygomatic width QTL 15, 16 week (mouse)					12	3650000	29749999	Mouse
4141660	Nbwa1_m	NZB and NZW autoimmunity 1 (mouse)			Not determined		12	340134	34340302	Mouse
4142234	Tmc1m3_m	Tmc1 modifier 3 (mouse)			Not determined		12	5418440	77031203	Mouse
13524843	Ppiq8_m	prepulse inhibition QTL 8 (mouse)					12	11043194	50945796	Mouse
26884413	Bzwq9_m	bi-zygomatic width QTL 9, 10 week (mouse)					12	16150001	47746783	Mouse
13524839	Ppiq10_m	prepulse inhibition QTL 10 (mouse)					12	13043195	54945798	Mouse
13208568	Bmiq11_m	body mass index QTL 11 (mouse)					12	8050000	40049999	Mouse
4141516	slwr_m	slowlearner (mouse)			Not determined			12392475	46392614	Mouse
1301925	Ath6_m	atherosclerosis 6 (mouse)			Not determined		12	1	32758756	Mouse
1301163	Eae16_m	susceptibility to experimental allergic encephalomyelitis 16 (mouse)			Not determined		12	7723158	41723301	Mouse
12904956	Edlmmq10_m	extensor digitorum longus muscle mass QTL 10 (mouse)					12	19739833	53739833	Mouse
14746972	Manh72_m	mandible shape 72 (mouse)					12	10615281	44615281	Mouse
1301037	Cd4ts5_m	CD4 T cell subset 5 (mouse)			Not determined		12	8352444	42352581	Mouse
10401249	Bglu15_m	blood glucose level 15 (mouse)			Not determined		12	10620642	44620809	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	NR_166748	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
GenBank Nucleotide	AC140457	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
	AK133650	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles

Ensembl Acc Id:

ENSMUST00000180671

Type:

CODING

Position:

Mouse Assembly	Chr	Position (strand)	Source
GRCm39 Ensembl	12	21,467,912 - 21,469,828 (+)	Ensembl
GRCm38.p6 Ensembl	12	21,417,911 - 21,419,803 (+)	Ensembl

Ensembl Acc Id:

ENSMUST00000226239

Type:

CODING

Position:

Mouse Assembly	Chr	Position (strand)	Source
GRCm39 Ensembl	12	21,467,324 - 21,469,473 (+)	Ensembl
GRCm38.p6 Ensembl	12	21,417,323 - 21,419,389 (+)	Ensembl

Ensembl Acc Id:

ENSMUST00000226397

Type:

CODING

Position:

Mouse Assembly	Chr	Position (strand)	Source
GRCm39 Ensembl	12	21,467,845 - 21,471,065 (+)	Ensembl
GRCm38.p6 Ensembl	12	21,417,879 - 21,421,064 (+)	Ensembl

Ensembl Acc Id:

ENSMUST00000226567

Type:

CODING

Position:

Mouse Assembly	Chr	Position (strand)	Source
GRCm39 Ensembl	12	21,467,899 - 21,469,458 (+)	Ensembl
GRCm38.p6 Ensembl	12	21,417,898 - 21,419,457 (+)	Ensembl

Ensembl Acc Id:

ENSMUST00000226634

Type:

CODING

Position:

Mouse Assembly	Chr	Position (strand)	Source
GRCm39 Ensembl	12	21,467,708 - 21,469,458 (+)	Ensembl
GRCm38.p6 Ensembl	12	21,417,877 - 21,419,069 (+)	Ensembl

Ensembl Acc Id:

ENSMUST00000226706

Type:

CODING

Position:

Mouse Assembly	Chr	Position (strand)	Source
GRCm39 Ensembl	12	21,467,289 - 21,471,069 (+)	Ensembl
GRCm38.p6 Ensembl	12	21,417,941 - 21,421,064 (+)	Ensembl

Ensembl Acc Id:

ENSMUST00000227593

Type:

CODING

Position:

Mouse Assembly	Chr	Position (strand)	Source
GRCm39 Ensembl	12	21,467,878 - 21,469,023 (+)	Ensembl
GRCm38.p6 Ensembl	12	21,417,877 - 21,419,022 (+)	Ensembl

Ensembl Acc Id:

ENSMUST00000227598

Type:

CODING

Position:

Mouse Assembly	Chr	Position (strand)	Source
GRCm39 Ensembl	12	21,470,760 - 21,471,065 (+)	Ensembl
GRCm38.p6 Ensembl	12	21,420,759 - 21,421,064 (+)	Ensembl

Ensembl Acc Id:

ENSMUST00000228212

Type:

CODING

Position:

Mouse Assembly	Chr	Position (strand)	Source
GRCm39 Ensembl	12	21,467,320 - 21,469,024 (+)	Ensembl
GRCm38.p6 Ensembl	12	21,417,879 - 21,419,020 (+)	Ensembl

Ensembl Acc Id:

ENSMUST00000268462

Type:

CODING

Position:

Mouse Assembly	Chr	Position (strand)	Source
GRCm39 Ensembl	12	21,467,889 - 21,483,109 (+)	Ensembl

Ensembl Acc Id:

ENSMUST00000268463

Type:

CODING

Position:

Mouse Assembly	Chr	Position (strand)	Source
GRCm39 Ensembl	12	21,476,035 - 21,483,111 (+)	Ensembl

Ensembl Acc Id:

ENSMUST00000268464

Type:

CODING

Position:

Mouse Assembly	Chr	Position (strand)	Source
GRCm39 Ensembl	12	21,467,331 - 21,471,068 (+)	Ensembl

Ensembl Acc Id:

ENSMUST00000268465

Type:

CODING

Position:

Mouse Assembly	Chr	Position (strand)	Source
GRCm39 Ensembl	12	21,467,694 - 21,471,069 (+)	Ensembl

Ensembl Acc Id:

ENSMUST00000268466

Type:

CODING

Position:

Mouse Assembly	Chr	Position (strand)	Source
GRCm39 Ensembl	12	21,467,700 - 21,471,071 (+)	Ensembl

Ensembl Acc Id:

ENSMUST00000268467

Type:

CODING

Position:

Mouse Assembly	Chr	Position (strand)	Source
GRCm39 Ensembl	12	21,467,701 - 21,471,068 (+)	Ensembl

Ensembl Acc Id:

ENSMUST00000268468

Type:

CODING

Position:

Mouse Assembly	Chr	Position (strand)	Source
GRCm39 Ensembl	12	21,467,706 - 21,471,069 (+)	Ensembl

Ensembl Acc Id:

ENSMUST00000268469

Type:

CODING

Position:

Mouse Assembly	Chr	Position (strand)	Source
GRCm39 Ensembl	12	21,467,745 - 21,471,068 (+)	Ensembl

Ensembl Acc Id:

ENSMUST00000268470

Type:

CODING

Position:

Mouse Assembly	Chr	Position (strand)	Source
GRCm39 Ensembl	12	21,467,817 - 21,471,065 (+)	Ensembl

Ensembl Acc Id:

ENSMUST00000268471

Type:

CODING

Position:

Mouse Assembly	Chr	Position (strand)	Source
GRCm39 Ensembl	12	21,467,853 - 21,471,074 (+)	Ensembl

Ensembl Acc Id:

ENSMUST00000268472

Type:

CODING

Position:

Mouse Assembly	Chr	Position (strand)	Source
GRCm39 Ensembl	12	21,467,880 - 21,471,068 (+)	Ensembl

Ensembl Acc Id:

ENSMUST00000268473

Type:

CODING

Position:

Mouse Assembly	Chr	Position (strand)	Source
GRCm39 Ensembl	12	21,467,925 - 21,471,068 (+)	Ensembl

Ensembl Acc Id:

ENSMUST00000268474

Type:

CODING

Position:

Mouse Assembly	Chr	Position (strand)	Source
GRCm39 Ensembl	12	21,467,289 - 21,469,905 (+)	Ensembl

Ensembl Acc Id:

ENSMUST00000268475

Type:

CODING

Position:

Mouse Assembly	Chr	Position (strand)	Source
GRCm39 Ensembl	12	21,467,268 - 21,469,827 (+)	Ensembl

Ensembl Acc Id:

ENSMUST00000268476

Type:

CODING

Position:

Mouse Assembly	Chr	Position (strand)	Source
GRCm39 Ensembl	12	21,468,631 - 21,471,070 (+)	Ensembl

Ensembl Acc Id:

ENSMUST00000268477

Type:

CODING

Position:

Mouse Assembly	Chr	Position (strand)	Source
GRCm39 Ensembl	12	21,468,631 - 21,471,065 (+)	Ensembl

Ensembl Acc Id:

ENSMUST00000268478

Type:

CODING

Position:

Mouse Assembly	Chr	Position (strand)	Source
GRCm39 Ensembl	12	21,468,631 - 21,471,065 (+)	Ensembl

Ensembl Acc Id:

ENSMUST00000268479

Type:

CODING

Position:

Mouse Assembly	Chr	Position (strand)	Source
GRCm39 Ensembl	12	21,468,860 - 21,471,065 (+)	Ensembl

Ensembl Acc Id:

ENSMUST00000268480

Type:

CODING

Position:

Mouse Assembly	Chr	Position (strand)	Source
GRCm39 Ensembl	12	21,467,324 - 21,469,157 (+)	Ensembl

Ensembl Acc Id:

ENSMUST00000268481

Type:

CODING

Position:

Mouse Assembly	Chr	Position (strand)	Source
GRCm39 Ensembl	12	21,467,760 - 21,469,349 (+)	Ensembl

Ensembl Acc Id:

ENSMUST00000268482

Type:

CODING

Position:

Mouse Assembly	Chr	Position (strand)	Source
GRCm39 Ensembl	12	21,467,776 - 21,469,157 (+)	Ensembl

Ensembl Acc Id:

ENSMUST00000268483

Type:

CODING

Position:

Mouse Assembly	Chr	Position (strand)	Source
GRCm39 Ensembl	12	21,467,858 - 21,469,024 (+)	Ensembl

Ensembl Acc Id:

ENSMUST00000268484

Type:

CODING

Position:

Mouse Assembly	Chr	Position (strand)	Source
GRCm39 Ensembl	12	21,467,880 - 21,468,574 (+)	Ensembl

RefSeq Acc Id:

NR_166748

RefSeq Status:

VALIDATED

Type:

NON-CODING

Position:

Mouse Assembly	Chr	Position (strand)	Source
GRCm39	12	21,467,883 - 21,471,065 (+)	NCBI
GRCm38	12	21,417,882 - 21,421,064 (+)	NCBI

Sequence:

show sequence

ACTCCTGGGTGCGGCACGGGACCGGAGGTGCTTTCGACCTCCGAGGCTGCGACCGCGTGTCCTG
TAGCAGCAACCACTGCAGATGGGGCGTTGCAGCTCTCGAGCTGCTGCGGCTGCAGCTGGACTTG
GCAGGGGTGAGATAATTAGCCCTTTTGATGCACAAGCGCCTTCCTTTCTTCTACCTTCCTGTTC
TTGACAAAGGCACCCGAAAGCCAGCAATTCCCTTATGGAAAGGTAGATTCAGGAGATCTGGGCA
GGACTGCGTGGCAGCGTCAGGCTCCCTTATTTCCTAGCCCTCAATCCAATTCCTAGTGAGGTGG
CTGTCCTACCGGACTCAAAGAATGAAACTGCCACCTGGGCTCTGAAGAGATGCCAGTTCCAGTA
GTTCCTCAAGGGTTCAAAGAACTTCAGTGACTGCCACAGGCAAAGTGGATTCAAATGCTAAACG
GAACCAAGCAGACCGAAGACTGCAGAAAGGAAGGTGAGTCACATACATTCAGTTGAAATCCAGG
AGAGAGAAAAACAGCTTCCTTAGAGCAAGAGAGCCCTTCAGCAGTCTGTGTTTGAGTGTCATCT
TGTAACAGAGGCTCCTTTGAAACCTTTGGACTGAAAATGGAACATCAACCCTTCTGGGGCTCAG
CTTGTTGGCCCACCCTGCCTAATAAATCATTTATTTACAA

hide sequence

Promoters

RGD ID:

15094071

Promoter ID:

EPDNEWNC_M1985

Type:

multiple initiation site

Name:

Gm4419_2

Description:

predicted gene 4419 [Source:MGI Symbol;Acc:MGI:3782604]

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	21,417,275 - 21,417,335	EPDNEWNC

RGD ID:

15094083

Promoter ID:

EPDNEWNC_M1986

Type:

single initiation site

Name:

Gm4419_1

Description:

predicted gene 4419 [Source:MGI Symbol;Acc:MGI:3782604]

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	21,417,879 - 21,417,939	EPDNEWNC

RGD ID:

8678000

Promoter ID:

EPDNEW_M17030

Type:

multiple initiation site

Name:

AK133650_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	12	21,417,882 - 21,417,942	EPDNEW

RGD ID:

6823122

Promoter ID:

MM_KWN:11298

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, Spleen

Transcripts:

ENSMUST00000049531, LINCRNA_212, NM_011739, OTTMUST00000039251, OTTMUST00000039254, UC007NDX.1, UC007NDZ.1, XM_001480548_GM4419

Position:

Mouse Assembly	Chr	Position (strand)	Source
MGSCv36	12	21,421,671 - 21,424,717 (+)	MPROMDB

Additional Information

External Database Links

Database	Acc Id	Source(s)
Ensembl Genes	ENSMUSG00000097055	Ensembl, ENTREZGENE
Ensembl Transcript	ENSMUST00000268468	ENTREZGENE
MGD	MGI:3782604	ENTREZGENE
NCBI Gene	100043407	ENTREZGENE
PhenoGen	Gm4419	PhenoGen
RNAcentral	URS0001980F3F	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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