rs249935478 SNP Detail

Summary

• ID
  rs249935478
• 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
  

Genome Location and Flanking Sequence

• Location
  Chr6:4540248 (GRCm39)
• SNP Orientation to the Genome
  forward

• SNP Reference Flanking Sequence

                                              TTCAATTTTT CTGTAGACTT
  TTACCTATAT AAAAGAGTAT ATGTTTTATA TAATATGCTC TAAGTTAGAA TAAAGTTTTA
  AGTGTAAAAT TACTGTATAC CTACCCAATT CTCTATACAT ACACAGACAT ACACACAAGA
  TGCATACACA CAACATACAG AAACACACAC CACACACATA CAAGATATGC AAACACACCA
  Y
  ACACACATAC ACACACCATA CACTCACCTT GAAAAGAATA TGTATCCAAA CATATTTGAA
  ACTTATCCTA AAGAAGTTAT CATTCCCTGA AAGACATCCT TGACACTGTC TGTCTACAGT
  GAACGTCTTA ATCAGGAACC CCTATCTTCA GAAAGTGTTG GCTGCCGAGA AATGGCTTTC
  CTAGACCCCG ATGCTTAGAT                                            
  
  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	129S5/SvEvBrd	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
ss367230156	MGP_WTSI_6_4490248	EVA_MGPV3	EVA_MGPV3	f	SNP	T	T	T	T	T	T	T	T	T	T	T	T	T	T	T	T	T	T	T	T	T	T	T	T	T	T	T	T	T	T	T	T	T	T	T	T	T	T	T	T	T	T	T	T	T	T	T	T	C	T	T	T	T
SNP Consensus Information
SNP					Consensus Type	129P2/OlaHsd	129S1/SvImJ	129S5/SvEvBrd	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
rs249935478					SNP	T	T	T	T	T	T	T	T	T	T	T	T	T	T	T	T	T	T	T	T	T	T	T	T	T	T	T	T	T	T	T	T	T	T	T	T	T	T	T	T	T	T	T	T	T	T	T	T	C	T	T	T	T

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
ss367230156	MGP_WTSI_6_4490248	SC_MOUSE_GENOMES	SC_MOUSE_GENOMES	f	SNP	C/T

Gene/Marker
Associations
and
Function
Classes

MGI genes/markers associated with the SNP

Location: Chr6:4540248 () rs orientation: forward

Symbol	Name	Function Class
Col1a2	collagen, type I, alpha 2	within coordinates
Tssr1770	transcription start site region 1770	1580 bp downstream
Tssr54730	transcription start site region 54730	1603 bp downstream
Tssr54731	transcription start site region 54731	1558 bp downstream
Tssr54732	transcription start site region 54732	1471 bp downstream
Tssr54733	transcription start site region 54733	774 bp downstream
Tssr54734	transcription start site region 54734	757 bp downstream
Tssr54735	transcription start site region 54735	746 bp downstream
Tssr54736	transcription start site region 54736	720 bp downstream
Tssr54737	transcription start site region 54737	703 bp downstream
Tssr54738	transcription start site region 54738	660 bp downstream
Tssr54739	transcription start site region 54739	648 bp downstream
Tssr54740	transcription start site region 54740	571 bp downstream
Tssr54741	transcription start site region 54741	232 bp downstream
Tssr54742	transcription start site region 54742	280 bp upstream
Tssr54743	transcription start site region 54743	295 bp upstream
Tssr54744	transcription start site region 54744	326 bp upstream
Tssr54745	transcription start site region 54745	338 bp upstream
Tssr54746	transcription start site region 54746	351 bp upstream
Tssr54747	transcription start site region 54747	382 bp upstream
Tssr54748	transcription start site region 54748	426 bp upstream
Tssr54749	transcription start site region 54749	595 bp upstream
Tssr54750	transcription start site region 54750	608 bp upstream
Tssr54751	transcription start site region 54751	616 bp upstream
Tssr54752	transcription start site region 54752	659 bp upstream
Tssr54753	transcription start site region 54753	681 bp upstream
Tssr54754	transcription start site region 54754	790 bp upstream
Tssr54755	transcription start site region 54755	1189 bp upstream
Tssr59718	transcription start site region 59718	473 bp downstream
Tssr59719	transcription start site region 59719	541 bp downstream