rs253604442 SNP Detail

Summary

• ID
  rs253604442
• 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
  Chr4:63132516 (GRCm39)
• SNP Orientation to the Genome
  forward

• SNP Reference Flanking Sequence

                                              TCAGCGCCCC CCTCTCCGCC
  CCCAGCGGAG ACTTCAAAAG GGCCGGCGTC TGTCGCGGCC TCAGCACCTA TGAGCCACCC
  CCCGCACCCG GAGCTCGAGC TGGAGCCGGA GCACGCGGAG TGGCCGCGGC TGCAGCGCAG
  GGGGACCGGG CCGGTGGCGC AGGCCCGCGC TCCCATGCTC CTCCCGGCGC CGTCGCGCCC
  Y
  GTGCGCCTTT AGGGAAGGGG ACTGCACCCC CGCCCCCGCG CCCGGGGCTG CGGGGACCCA
  TGACCACAGA TGCCGTTAGG CACCCGCCTA AGAACCGACC GGCCAGCGTC ACACTTGGGG
  ACCCAGTAAG TGCCCTGGGA CTCACGGAGC TCTGGGCGTT TGGAGTGCGC AAAGGTGGAT
  GCATGTGCAA TAGAGGGTGC                                            
  
  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	SPRET/EiJ	ST/bJ	SWR/J	WSB/EiJ	ZALENDE/EiJ
ss361730765	MGP_WTSI_4_62875313	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	C	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	SPRET/EiJ	ST/bJ	SWR/J	WSB/EiJ	ZALENDE/EiJ
rs253604442					SNP	T	T	T	T	T	T	T	T	T	T	T	T	T	T	T	T	T	T	T	C	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
ss361730765	MGP_WTSI_4_62875313	SC_MOUSE_GENOMES	SC_MOUSE_GENOMES	f	SNP	C/T

Gene/Marker
Associations
and
Function
Classes

MGI genes/markers associated with the SNP

Location: Chr4:63132516 () rs orientation: forward

Symbol	Name	Function Class
Col27a1	collagen, type XXVII, alpha 1	mRNA-UTR
Cpgi14368	CpG island 14368	within coordinates
Rr593488	regulatory region 593488	335 bp distal
Rr593489	regulatory region 593489	318 bp distal
Rr593490	regulatory region 593490	183 bp proximal
Rr593491	regulatory region 593491	666 bp proximal
Rr593492	regulatory region 593492	1016 bp proximal
Rr593493	regulatory region 593493	1167 bp proximal
Tssr1192	transcription start site region 1192	242 bp downstream
Tssr37533	transcription start site region 37533	178 bp downstream
Tssr37534	transcription start site region 37534	129 bp downstream
Tssr37535	transcription start site region 37535	1123 bp upstream
Tssr37536	transcription start site region 37536	1261 bp upstream
Tssr37537	transcription start site region 37537	1278 bp upstream