rs253630490 SNP Detail

Summary

• ID
  rs253630490
• 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
  ChrX:55499041 (GRCm39)
• SNP Orientation to the Genome
  forward

• SNP Reference Flanking Sequence

                                              TCACACATAG AGTGGTCTCT
  GGCGGACTCT TGTTCACACC ATTCCTCCTA AGCCAGATTC CCTCTTTTAC ACCTTGTTCT
  TTGCCCATGA AATCTTCTGA ACTTCTAGAC CACAGGCAAG TGCTGCCTCG CTGTTTTTAC
  TTGCATCACC ATTTTTGGTC TTATTTCTGA GAAAACATAA TATATATCAA TCATGTAGAA
  Y
  ATATACACAG GATATCTACA AACAATATAG AAAACATTTG CAGATATATA TGTGATCTTC
  ACATTGTATT AAAATTGTAT ACTCATTGAA GCTCAAGAGT CTAACTTGTG TACAGCACAT
  TGCTAGAAAT ACTCTGTATC ATTATCATCA TTATCGCCAT CATCAGTGTT GTAGGAGACT
  CAAACTCAGC GCCTCACAGG                                            
  
  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	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
ss403511842	MGP_WTSI_X_53706858	EVA_MGPV3	EVA_MGPV3	f	SNP	C	C	C	C	C	C	C	C	C	C	C	C	C	C	C	C	C	C	C	T	C	C	T	C	C	C	C	T	C	C	C	C	C	C	C	C	C	C	C	T	C	C	C	C	C	C	C	C	C	C	C	C
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	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
rs253630490					SNP	C	C	C	C	C	C	C	C	C	C	C	C	C	C	C	C	C	C	C	T	C	C	T	C	C	C	C	T	C	C	C	C	C	C	C	C	C	C	C	T	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
ss403511842	MGP_WTSI_X_53706858	SC_MOUSE_GENOMES	SC_MOUSE_GENOMES	f	SNP	C/T

Gene/Marker
Associations
and
Function
Classes

MGI genes/markers associated with the SNP

Location: ChrX:55499041 () rs orientation: forward

Symbol	Name	Function Class
Cpgi22728	CpG island 22728	1548 bp proximal
Gm61797	predicted gene, 61797	within coordinates
Ints6l	integrator complex subunit 6 like	1176 bp upstream
Rr406100	regulatory region 406100	1016 bp upstream
Tssr160984	transcription start site region 160984	1133 bp upstream
Tssr160985	transcription start site region 160985	1155 bp upstream
Tssr160986	transcription start site region 160986	1170 bp upstream
Tssr160987	transcription start site region 160987	1190 bp upstream
Tssr160988	transcription start site region 160988	1238 bp upstream
Tssr160989	transcription start site region 160989	1778 bp upstream