1700040D17Rik (RIKEN cDNA 1700040D17 gene)

Gene: 1700040D17Rik (RIKEN cDNA 1700040D17 gene) Mus musculus

Analyze

Symbol:

1700040D17Rik

Name:

RIKEN cDNA 1700040D17 gene

RGD ID:

1607377

MGI Page

MGI

Description:

Type:

ncrna (Ensembl: lncRNA)

RefSeq Status:

VALIDATED

Previously known as:

hypothetical protein LOC76602

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	3	94,316,696 - 94,320,262 (-)	NCBI	GRCm39	GRCm39	mm39
GRCm39 Ensembl	3	94,316,702 - 94,320,226 (-)	Ensembl		GRCm39 Ensembl
GRCm38	3	94,409,389 - 94,412,955 (-)	NCBI	GRCm38	GRCm38	mm10	GRCm38
GRCm38.p6 Ensembl	3	94,409,395 - 94,412,919 (-)	Ensembl	GRCm38		mm10	GRCm38
MGSCv37	3	94,213,311 - 94,216,867 (-)	NCBI	GRCm37	MGSCv37	mm9	NCBIm37
Celera	3	95,854,215 - 95,857,771 (-)	NCBI		Celera
Cytogenetic Map	3	F2.1	NCBI
cM Map	3	40.61	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:8889548	PMID:10349636	PMID:11042159	PMID:11076861	PMID:11217851	PMID:12466851	PMID:16141072	PMID:16141073

Genomics

Variants

Variants in 1700040D17Rik
73 total Variants

miRNA Target Status

Predicted Target Of

	Summary Value
Count of predictions:	65
Count of miRNA genes:	64
Interacting mature miRNAs:	64
Transcripts:	ENSMUST00000181305
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
26884436	Zlq3_m	zygomatic length QTL 3, 10 week (mouse)					3	3265060	142405761	Mouse
4142399	Aec1_m	autoimmune exocrinopathy 1 (mouse)			Not determined			7586174	102690034	Mouse
26884427	Cvht4_m	cranial vault height 4, 10 week (mouse)					3	16054164	109707316	Mouse
13207570	Tcq12_m	total cholesterol QTL 12 (mouse)					3	16504164	130163649	Mouse
26884422	Cvht7_m	cranial vault height 7, 16 week (mouse)					3	28954149	118893649	Mouse
1302056	Orgwq4_m	organ weight QTL 4 (mouse)			Not determined		3	30067588	147304689	Mouse
1301705	Sles3_m	systemic lupus erythmatosus suppressor 3 (mouse)			Not determined		3	37174862	143353183	Mouse
13208566	Bmiq5_m	body mass index QTL 5 (mouse)					3	40954435	115793649	Mouse
26884380	Skwq1_m	skull length QTL 1, 5 week (mouse)					3	43954435	101607316	Mouse
26884378	Skwq6_m	skull length QTL 6, 10 week (mouse)					3	51907421	102307316	Mouse
26884382	Bzwq1_m	bi-zygomatic width QTL 1, 5 week (mouse)					3	52207421	137205761	Mouse
11039519	Ltpr3_m	Leishmania tropica response 3 (mouse)					3	56704102	100464137	Mouse
4141294	Bmd24_m	bone mineral density 24 (mouse)			Not determined		3	61740061	95740241	Mouse
1301971	Cia5_m	collagen induced arthritis QTL 5 (mouse)			Not determined		3	66046658	100046795	Mouse
25314313	Syncl1_m	synaptonemal complex length 1 (mouse)					3	67907333	128393649	Mouse
11251721	Ewc3_m	ethanol withdrawal and consumption 3 (mouse)					3	69568554	103568554	Mouse
1301791	Char4_m	P. chabaudi malaria resistance QTL 4 (mouse)			Not determined		3	69625509	100655290	Mouse
1301422	Sle11_m	systematic lupus erythematosus susceptibility 11 (mouse)			Not determined		3	70208904	104209042	Mouse
11049572	Lmr11c_m	leishmaniasis resistance 11c (mouse)					3	72139967	106140094	Mouse
1300982	Lmr11_m	leishmaniasis resistance 11 (mouse)			Not determined		3	72139967	106140094	Mouse
1300595	Tmevd2_m	Theiler's murine encephalomyelitis virus induced demyelinating disease susceptibility 2 (mouse)			Not determined		3	75463302	109463549	Mouse
1301392	Eae3_m	susceptibility to experimental allergic encephalomyelitis 3 (mouse)			Not determined		3	79548730	113548837	Mouse
1301947	Pcfm3_m	periosteal circumference and femur length 3 (mouse)			Not determined		3	81084652	115084797	Mouse
1301904	Iba2_m	induction of brown adipocytes 2 (mouse)			Not determined		3	82147043	116147184	Mouse
11041900	Lmr11a_m	leishmaniasis resistance 11a (mouse)					3	83463991	117464137	Mouse
11039510	Ltpr3d_m	Leishmania tropica response 3d (mouse)					3	83463991	117464137	Mouse
11039511	Ltpr3c_m	Leishmania tropica response 3c (mouse)					3	83463991	117464137	Mouse
11039507	Ltpr3g_m	Leishmania tropica response 3g (mouse)					3	83463991	117464137	Mouse
11039508	Ltpr3f_m	Leishmania tropica response 3f (mouse)					3	83463991	117464137	Mouse
11039509	Ltpr3e_m	Leishmania tropica response 3e (mouse)					3	83463991	117464137	Mouse
11039512	Ltpr3b_m	Leishmania tropica response 3b (mouse)					3	83463991	117464137	Mouse
1301272	Cfsw1_m	cystic fibrosis survival to weaning 1 (mouse)			Not determined		3	83882912	117883044	Mouse
4142099	Cq3_m	cholesterol QTL 3 (mouse)			Not determined		3	84888918	118889067	Mouse
14746984	Manh54_m	mandible shape 54 (mouse)					3	85289152	119289152	Mouse
1357583	Sle18_m	systematic lupus erythematosus susceptibility 18 (mouse)			Not determined		3	87208904	125316236	Mouse
12738440	Twq3_m	testis weight QTL 3 (mouse)					3	87228015	121228015	Mouse
4142178	Ctrq2_m	C. trachomatis resistance QTL 2 (mouse)			Not determined		3	89139967	137453008	Mouse
10766455	Sle22_m	systematic lupus erythematosus susceptibility 22 (mouse)					3	90376936	124377072	Mouse
14747001	Mancz4_m	mandible centroid size 4 (mouse)					3	90378017	124378017	Mouse
1301398	Rapop3_m	radiation-induced apoptosis 3 (mouse)			Not determined		3	90511217	100464137	Mouse
1302052	Etohcta4_m	ethanol conditioned taste aversion 4 (mouse)			Not determined		3	91000105	125008748	Mouse
1301349	Pgia26_m	proteoglycan induced arthritis 26 (mouse)			Not determined		3	92251533	126251650	Mouse

Expression

Sequence

Nucleotide Sequences


RefSeq Transcripts	NR_152121	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
GenBank Nucleotide	AC122808	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
	AK006651	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
	AV259906	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
	BF472266	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles

RefSeq Acc Id:

ENSMUST00000181305

Type:

CODING

Position:

Mouse Assembly	Chr	Position (strand)	Source
GRCm39 Ensembl	3	94,316,702 - 94,320,226 (-)	Ensembl
GRCm38.p6 Ensembl	3	94,409,395 - 94,412,919 (-)	Ensembl

RefSeq Acc Id:

NR_152121

RefSeq Status:

VALIDATED

Type:

NON-CODING

Position:

Mouse Assembly	Chr	Position (strand)	Source
GRCm39	3	94,316,696 - 94,320,262 (-)	NCBI
GRCm38	3	94,409,389 - 94,412,955 (-)	NCBI

Sequence:

show sequence

GGGACTTTGGCGCTCCGAGGGTCGGGGGATTGGGTCACTCGTGGGTGTCCCGAGGCCTACGGAG
TCATTCCGCGGCCAGCGGCCTTGGGGGAAGCCACCTCCTGATTGCGGCGCCACTTTATCTGTTA
AGAATTTCTGCCTGGATGGACCCCCTACCCCCATCTTAGCCAGGGGACAGGAAAGCAACTATGT
TAAAGGAGTGAAATGGGGGCGGGCGCTGCACACGCCACGTGGACCGAAAGTCACCGTGGCCACC
ACCTGGCATACTATGTGTAATCCTGGTGTGTGAAGAGACCAGAAGAAGGTGCTGGATTCCCAGG
AACTGGAGTTACAGAAGGTTGTGAGCCACCATGAGGATGCTAGGAATCAAACCCAGGTCCTCTG
CAAGAGATAGCAAGTGCTTTTGACAGCTGAGCCACCTCTCCAGCCCTCTCTTTAAGCCTAGTTT
GCTCCAATGATCTATTCATATTCTAATGCCACTAATACATGCTATAAAAAATAATTCATAGTAC
ATGTACAAATGATAAATGCACAGTTTGTTGGTTTGTGATGGGCTCTTTGCTCTGTAGCACAGGC
TGGCTCGGAAGTCACTCTAGGCAATCCTCCTGCCTTACCCTCAAGAGTTCTGGAACTACAAGTA
GGAGTTGCCATATGCCATTTTATATATACATATTTTTTTTCCAAAAATGGGTTATCTTTTGTAA
CCAGCACCAAATCAAGAAGAAATATTACCTATGTCCGAGAAGCCACCCATGAGCCCTTTCCTGC
CAGCACTCTCCTCAAGAGGGAATCGCAGAATATGTACTCTCTTGTGTCTAGCTTCCTTTGTTTG
AATTACTTAAGCAAGAGTCGGGCTTAATGTATATAAAGCTTGCCTATTTATTATTATTACTGTG
TCCTAGTACATTGTGAAAATTGTCCATAATTTGCTTTTCTGTTTTATTGCTAATGTTATTTTTT
ATTGGAATTACATATTTTTAGATTAAAGAAACATTGCTGTATTTGTATAATCTTCCCATAAATT
TATGTCTTGGATGTCC

hide sequence

Promoters

RGD ID:

6881492

Promoter ID:

EPDNEW_M4197

Type:

initiation region

Name:

1700040D17Rik_1

Description:

Mus musculus RIKEN cDNA 1700040D17 gene , 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	3	94,412,889 - 94,412,949	EPDNEW

RGD ID:

15092581

Promoter ID:

EPDNEWNC_M485

Type:

single initiation site

Name:

1700040D17Rik_1

Description:

RIKEN cDNA 1700040D17 gene [Source:MGISymbol;Acc:MGI:1923852]

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	3	94,412,889 - 94,412,949	EPDNEWNC

Additional Information

External Database Links

Database	Acc Id	Source(s)
Ensembl Genes	ENSMUSG00000097515	Ensembl, ENTREZGENE
Ensembl Transcript	ENSMUST00000181305	ENTREZGENE
MGD	MGI:1923852	ENTREZGENE
NCBI Gene	76602	ENTREZGENE
PhenoGen	1700040D17Rik	PhenoGen
RNAcentral	URS0000CCE063	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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