rs254092942 SNP Detail

Summary

• ID
  rs254092942
• Variation Type
  SNP
• Alleles
  C/T

• Created in dbSNP Build
  137
• Last Updated in dbSNP Build
  137
• Additional Resources
  JBrowse Genome Browser | Ensembl SNPView | UCSC Browser | Alliance Variant
  

Genome Location and Flanking Sequence

• Location
  Chr14:59679678 (GRCm39)
• SNP Orientation to the Genome
  forward

• SNP Reference Flanking Sequence

                                              GCGATGCTAT GCGGGCTGGC
  TTTATGGAAC AGGGTATTAT TTAAGGAGGG TGTTGGAGTT TGGGAAGAGC AAGACACTGT
  ACTTTCCTCT TTCCAGTTTT CTCTTGGGGA AAAAAAAGTA GAAAAGGAAG TAGAAAGCAT
  TCTTTTTTTT TTTATTATTT GAAAGAAGCT GCCAGATCTG AAAATCTAGC CTGTTAGAGA
  Y
  AAATATTTTG TGATTCACTT ATAACAGTTT TGATAAACTT AACACCAGTA TCTTCACTTT
  TTATTTTATT TCAAGGTTGA ATAACTTAAG TTATTCAAGG TTAATTGGTT TGTTTTTTTG
  TTTGTTTGTT TGTTTTTTTG TTTTGTGTGT GTGTGTGTGT GTGTGTGTGT GTTCTTTGTG
  GGTTGGTTTT TTTTTTTTTT                                            
  
  Y = C/T
  

  
  Note: Sequence in lower case indicates low-complexity or repetitive sequence

  ---

SNP Assays
and
SNP Consensus

Strain alleles of submitted assays, and consensus values for this SNP

Assay ID	Submitter SNP ID	Submitter Handle	Population	ss orientation	Variation Type	129P2/OlaHsd	129S1/SvImJ	A/J	AKR/J	B10.RIII-H2 H2-T18/(71NS)SnJ	BALB/cByJ	BALB/cJ	BTBR T<+> Itpr3/J	BUB/BnJ	C3H/HeH	C3H/HeJ	C57BL/6J	C57BL/6NJ	C57BL/10J	C57BL/10SnJ	C57BR/cdJ	C57L/J	C58/J	CAST/EiJ	CBA/J	CE/J	CZECHII/EiJ	DBA/1J	DBA/2J	FVB/NJ	I/LnJ	JF1/MsJ	KK/HlJ	LEWES/EiJ	LG/J	LP/J	MA/MyJ	MOLF/EiJ	NOD/ShiLtJ	NON/ShiLtJ	NZB/BlNJ	NZO/HlLtJ	NZW/LacJ	PL/J	PWK/PhJ	QSi3/Ianm	QSi5/Ianm	RF/J	RIIIS/J	SEA/GnJ	SJL/J	SM/J	SPRET/EiJ	ST/bJ	SWR/J	WSB/EiJ	ZALENDE/EiJ
ss391227508	MGP_WTSI_14_60061066	EVA_MGPV3	EVA_MGPV3	f	SNP	C	C	C	C	C	C	C	C	C	C	C	C	C	C	C	C	C	C	T	C	C	C	C	C	C	C	C	C	C	C	C	C	C	C	C	C	C	C	C	C	C	C	C	C	C	C	C	C	C	C	C	C
SNP Consensus Information
SNP					Consensus Type	129P2/OlaHsd	129S1/SvImJ	A/J	AKR/J	B10.RIII-H2 H2-T18/(71NS)SnJ	BALB/cByJ	BALB/cJ	BTBR T<+> Itpr3/J	BUB/BnJ	C3H/HeH	C3H/HeJ	C57BL/6J	C57BL/6NJ	C57BL/10J	C57BL/10SnJ	C57BR/cdJ	C57L/J	C58/J	CAST/EiJ	CBA/J	CE/J	CZECHII/EiJ	DBA/1J	DBA/2J	FVB/NJ	I/LnJ	JF1/MsJ	KK/HlJ	LEWES/EiJ	LG/J	LP/J	MA/MyJ	MOLF/EiJ	NOD/ShiLtJ	NON/ShiLtJ	NZB/BlNJ	NZO/HlLtJ	NZW/LacJ	PL/J	PWK/PhJ	QSi3/Ianm	QSi5/Ianm	RF/J	RIIIS/J	SEA/GnJ	SJL/J	SM/J	SPRET/EiJ	ST/bJ	SWR/J	WSB/EiJ	ZALENDE/EiJ
rs254092942					SNP	C	C	C	C	C	C	C	C	C	C	C	C	C	C	C	C	C	C	T	C	C	C	C	C	C	C	C	C	C	C	C	C	C	C	C	C	C	C	C	C	C	C	C	C	C	C	C	C	C	C	C	C

Additional submitted assays for this SNP, where the strain of origin for observed alleles is not specified by the submitter

Assay ID	Submitter SNP ID	Submitter Handle	Population	ss orientation	Variation Type	Alleles
ss391227508	MGP_WTSI_14_60061066	SC_MOUSE_GENOMES	SC_MOUSE_GENOMES	f	SNP	C/T

Gene/Marker
Associations
and
Function
Classes

MGI genes/markers associated with the SNP

Location: Chr14:59679678 () rs orientation: forward

Symbol	Name	Transcript	Protein	Function Class	Allele	Residue	Codon Position	AA Position
Cab39l	calcium binding protein 39-like			Intron
				Noncoding-Transcript-Variant
Cpgi6560	CpG island 6560			898 bp distal
Gm45935	predicted gene, 45935			1349 bp upstream
Rr404137	regulatory region 404137			1171 bp downstream
Rr493049	regulatory region 493049			1365 bp distal
Rr493050	regulatory region 493050			1238 bp distal
Rr493051	regulatory region 493051			463 bp distal
Setdb2	SET domain, bifurcated 2			1349 bp upstream
Tssr125903	transcription start site region 125903			1647 bp downstream
Tssr125904	transcription start site region 125904			1233 bp downstream
Tssr129008	transcription start site region 129008			1342 bp upstream
Tssr129009	transcription start site region 129009			1132 bp upstream
Tssr129010	transcription start site region 129010			1121 bp upstream
Tssr129011	transcription start site region 129011			922 bp upstream
Tssr129012	transcription start site region 129012			919 bp upstream
Tssr129013	transcription start site region 129013			912 bp upstream