rs253260138 SNP Detail

Summary

• ID
  rs253260138
• Variation Type
  SNP
• Alleles
  G/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
  Chr1:75457436 (GRCm39)
• SNP Orientation to the Genome
  forward

• SNP Reference Flanking Sequence

                                              ATTAGGCTCT TTGAGTTTGA
  ACCGGGCTCT GTATGTTAGT CACTGTGATG TAATGGGCAT GTTAACCTGG GTCTCAGCTT
  TTTCACTTGG ACAAAGACAA CAGTGTTTGT CTCATATAGA CAAGAATTAG TAGGTGGTCA
  AAGAATAATG ACTATCGTAG CGAAGATATG TTTGGATCAC TTAGGATAAG CAGACTAAAA
  K
  AAAATAATAA AAACTCTTAG CATGGTTCCT TACCACAGGG CATATTGCAT GGTGGGGGCG
  AGACCTGGAA TATTCACACT TGTGATACAT ATCAGAGTGG GCTGGATGGT AGTCATACAA
  ATGGAGATCG CCTACAAGGC AGATTCCCAT AAGAATGGTT ACTGTGAAGA GTTGTATGGG
  GGAGGGCGTG GTATGCCTGT                                            
  
  K = G/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
ss350142753	MGP_WTSI_1_75477367	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	G	T	T	G	T	T	T	T	G	T	T	T	T	T	G	T	T	T	T	T	T	G	T	T	T	T	T	T	T	G	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
rs253260138					SNP	T	T	T	T	T	T	T	T	T	T	T	T	T	T	T	T	T	T	T	G	T	T	G	T	T	T	T	G	T	T	T	T	T	G	T	T	T	T	T	T	G	T	T	T	T	T	T	T	G	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
ss350142753	MGP_WTSI_1_75477367	SC_MOUSE_GENOMES	SC_MOUSE_GENOMES	f	SNP	G/T

Gene/Marker
Associations
and
Function
Classes

MGI genes/markers associated with the SNP

Location: Chr1:75457436 () rs orientation: forward

Symbol	Name	Function Class
Chpf	chondroitin polymerizing factor	1485 bp upstream
Rr413452	regulatory region 413452	1202 bp distal
Rr413453	regulatory region 413453	1080 bp distal
Tmem198	transmembrane protein 198	Intron
Tssr7538	transcription start site region 7538	1275 bp downstream
Tssr7539	transcription start site region 7539	1199 bp downstream
Tssr12402	transcription start site region 12402	1668 bp upstream
Tssr12403	transcription start site region 12403	1650 bp upstream
Tssr12404	transcription start site region 12404	1633 bp upstream
Tssr12405	transcription start site region 12405	1624 bp upstream
Tssr12406	transcription start site region 12406	1434 bp upstream
Tssr12407	transcription start site region 12407	1388 bp upstream