rs223407630 SNP Detail

Summary

• ID
  rs223407630
• Variation Type
  SNP
• Alleles
  A/C

• 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
  Chr2:74542867 (GRCm39)
• SNP Orientation to the Genome
  forward

• SNP Reference Flanking Sequence

                                              GCCACCCTGC TGGCGCAGGA
  GCTGCCCGCT CCACCGCCTC GGGCAATGGG TGCCACTTCC CCAGCTCCCC GCGTTATTCA
  AGAACCTGGG GATCGCTCTC TGCATCCTCG TCCCTAAAGT ATGTCCCTTG GGGCTCGAGG
  TAGGGTCCTG CTAGGCTCAA AAGTGCATTG GGGACTCCTT CGTGTCTCTC ACCTCACCCC
  M
  CCCCCTCAGA GATCCCTTGA CTTGGAAACC CGCAGATCCC GAGCTCCCCT CCCCCAATCC
  GCCCTGTGAA GAAGAATGTG AAAATGGTTT CTGGACTCCT CAGCTTGGCT GGGGCTGGGG
  GGTGAGGGGT GGGGTCAGTA AAGGTTTCGT ATGGTATAGA ATACCGTGTT TCTGTGGTTT
  GATGGTGGTC AGAACTACCC                                            
  
  M = A/C
  

  
  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/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	KK/HlJ	LG/J	LP/J	MA/MyJ	MOLF/EiJ	NOD/ShiLtJ	NON/ShiLtJ	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
ss354485109	MGP_WTSI_2_74550580	EVA_MGPV3	EVA_MGPV3	f	SNP	A	A	A	A	A	A	A	A	A	A	A	A	A	A	A	A	A	A	C	A	A	C	A	A	A	A	A	A	A	A	C	A	A	A	A	A	C	A	A	A	A	A	A	A	A	A	A	A	A
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/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	KK/HlJ	LG/J	LP/J	MA/MyJ	MOLF/EiJ	NOD/ShiLtJ	NON/ShiLtJ	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
rs223407630					SNP	A	A	A	A	A	A	A	A	A	A	A	A	A	A	A	A	A	A	C	A	A	C	A	A	A	A	A	A	A	A	C	A	A	A	A	A	C	A	A	A	A	A	A	A	A	A	A	A	A

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
ss354485109	MGP_WTSI_2_74550580	SC_MOUSE_GENOMES	SC_MOUSE_GENOMES	f	SNP	A/C

Gene/Marker
Associations
and
Function
Classes

MGI genes/markers associated with the SNP

Location: Chr2:74542867 () rs orientation: forward

Symbol	Name	Function Class
Cpgi11801	CpG island 11801	within coordinates
Gm38462	predicted gene, 38462	465 bp upstream
Hoxd3	homeobox D3	Intron
Hoxd3os1	homeobox D3, opposite strand 1	within coordinates
Igs15	intergenic site 15	within coordinates
Rr559372	regulatory region 559372	586 bp distal
Rr559373	regulatory region 559373	462 bp distal
Rr559374	regulatory region 559374	within coordinates
Tssr18432	transcription start site region 18432	650 bp downstream
Tssr18433	transcription start site region 18433	615 bp downstream
Tssr18434	transcription start site region 18434	584 bp downstream
Tssr18435	transcription start site region 18435	523 bp downstream
Tssr18436	transcription start site region 18436	366 bp downstream
Tssr24624	transcription start site region 24624	1740 bp downstream