rs221963606 SNP Detail

Summary

• ID
  rs221963606
• 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
  Chr6:52136118 (GRCm39)
• SNP Orientation to the Genome
  forward

• SNP Reference Flanking Sequence

                                              GTGCGCAGAG GATTGACTGG
  GAGGAACCAT GGTGAATGTG CTGGGGACCA AAGCAAGAAA AGAAACTTCT GTCCTCATCC
  AAAGGGTCTT AGAGCCCTCT TCCCTGATTC CTGCCGGCCA ATAGCATGGC AATGGGAGCT
  TCTGTAATTC GACCCCAGGG TCCCGGGATT CGGGGGTGGG GGTGGGGGTG GGGGGGGCTA
  Y
  GAACCCAGCT CTCTGGGAAA GGCCGGGTGT CCACTCTCTT CTCTGCCCTC TCTCCTTCTC
  TGTCGCTTTG CTCTTGGTAG CCCTGCAAAA TCGGGGCAAC TCTGCTACTG GAGTTTAAGG
  AGTAGAAGGC AAAGGAGATT GTTGACGCCA GCAGACGTGG CTGACTGGCG TGAGGGCCGA
  GCCTGAGCTG CAGGCCATCT                                            
  
  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	A/J	AKR/J	B10.RIII-H2 H2-T18/(71NS)SnJ	BALB/cByJ	BALB/cJ	BTBR T<+> Itpr3/J	BUB/BnJ	C3H/HeJ	C57BL/6J	C57BL/6NJ	C57BL/10J	C57BL/10SnJ	C57BR/cdJ	C58/J	CAST/EiJ	CBA/J	CE/J	CZECHII/EiJ	DBA/1J	DBA/2J	FVB/NJ	I/LnJ	JF1/MsJ	KK/HlJ	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
ss368308160	MGP_WTSI_6_52109137	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	T	C	C	C	C
SNP Consensus Information
SNP					Consensus Type	129P2/OlaHsd	129S1/SvImJ	A/J	AKR/J	B10.RIII-H2 H2-T18/(71NS)SnJ	BALB/cByJ	BALB/cJ	BTBR T<+> Itpr3/J	BUB/BnJ	C3H/HeJ	C57BL/6J	C57BL/6NJ	C57BL/10J	C57BL/10SnJ	C57BR/cdJ	C58/J	CAST/EiJ	CBA/J	CE/J	CZECHII/EiJ	DBA/1J	DBA/2J	FVB/NJ	I/LnJ	JF1/MsJ	KK/HlJ	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
rs221963606					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	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
ss368308160	MGP_WTSI_6_52109137	SC_MOUSE_GENOMES	SC_MOUSE_GENOMES	f	SNP	C/T

Gene/Marker
Associations
and
Function
Classes

MGI genes/markers associated with the SNP

Location: Chr6:52136118 () rs orientation: forward

Symbol	Name	Function Class
Cpgi17410	CpG island 17410	within coordinates
Cpgi17411	CpG island 17411	1450 bp proximal
Gm56050	predicted gene, 56050	582 bp downstream
Gm56051	predicted gene, 56051	1904 bp upstream
Hotairm1	Hoxa transcript antisense RNA, myeloid-specific 1	within coordinates
Hotairm2	Hoxa transcript antisense RNA, myeloid-specific 2	609 bp downstream
Hoxa1	homeobox A1	819 bp upstream
Rr448	regulatory region 448	1994 bp proximal
Rr630346	regulatory region 630346	331 bp distal
Tssr56499	transcription start site region 56499	715 bp downstream
Tssr56500	transcription start site region 56500	682 bp downstream
Tssr56501	transcription start site region 56501	654 bp downstream
Tssr60974	transcription start site region 60974	814 bp upstream