rs239214677 SNP Detail

Summary

• ID
  rs239214677
• 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
  Chr5:45826681 (GRCm39)
• SNP Orientation to the Genome
  forward

• SNP Reference Flanking Sequence

                                              TTATGTTTCC CAAGTCATCA
  AGCAACACAC CAAGTAAGTT TCCCGGTTTT GGAGTGGTAT GTCCTATGTC CCAGGTGAGG
  CATTTAGAAA TAATTTTATA TATCCAGCAC GCGATCTTAG TCAAGACCCC CAAATTCCTT
  TTATACTGTC TGCGTTCTCC TCTGCTTAGC AGAGTTGTTA GGCAGATTTG TCAAGCACAT
  Y
  CGTCACGCTG GAGCATCTCC AAGCGGCTGC AGCCTAAACT GACCCTGCCT TTCTCTTCCC
  AGTCCCCCAG ACTGTCTCAT CGCGGACGGG CAGTTCCCGC CCGGACCCAC GGGGTCCGAA
  GGACTGCGGA GGCCCTCGTC CAGGACGCCC TCGGAAAGTT TGACATCCCC AAGCCCCGGG
  CGGGCTCCGT ACGACATCTC                                            
  
  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
ss364768172	MGP_WTSI_5_46060578	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	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	T	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	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
rs239214677					SNP	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	C	C	C	C	C	C	C	C	C	C	C	C	C	C	C	T	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
ss364768172	MGP_WTSI_5_46060578	SC_MOUSE_GENOMES	SC_MOUSE_GENOMES	f	SNP	C/T

Gene/Marker
Associations
and
Function
Classes

MGI genes/markers associated with the SNP

Location: Chr5:45826681 () rs orientation: forward

Symbol	Name	Function Class
1600023N17Rik	RIKEN cDNA 1600023N17 gene	within coordinates
Cpgi15841	CpG island 15841	within coordinates
Ncapg	non-SMC condensin I complex, subunit G	580 bp upstream
Rr367838	regulatory region 367838	243 bp upstream
Rr611093	regulatory region 611093	712 bp distal
Rr611094	regulatory region 611094	828 bp distal
Rr611095	regulatory region 611095	423 bp distal
Rr611096	regulatory region 611096	90 bp proximal
Rr611097	regulatory region 611097	331 bp proximal
Tssr46141	transcription start site region 46141	545 bp upstream
Tssr46142	transcription start site region 46142	568 bp upstream
Tssr46143	transcription start site region 46143	665 bp upstream
Tssr46144	transcription start site region 46144	894 bp upstream