rs220411625 SNP Detail

Summary

• ID
  rs220411625
• Variation Type
  SNP
• Alleles
  C/G

• 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
  Chr3:38940660 (GRCm39)
• SNP Orientation to the Genome
  forward

• SNP Reference Flanking Sequence

                                              ACCTCGGGCT TCGACCCGCG
  GCGAGAGCAA AGGCAGCCCG GGCTGCCCGC AGAGGCACGG AGCTGAGAGC TGCGGGAGTG
  GGGAAGCGGA GCCCTGGCAG CCTCCGCTGC AGGGGGAAGG AGCCCGACCC ACAGACCACC
  TTCCAGGCTC GCCCGGAACG AAACCAGAGA AGAGTCTTCG CAGCTAGCTT CGGGCTCTCC
  S
  GGCTGTCTCC AGGGTGCAGG GGCTCTGTGG CCCTTGGCCC TGCGCTTTTT GGCGTCCCGT
  TCCGGGGTAA GTTCTAAAGT TTTTTGGAGA GACGTGAGTG CAGTAAGAGG CTCCTCGGAT
  CTCCGAAATC CAGGCCGCCT CTAGCAACTC CGGTCCGCGT CCAGGACGCT CAGACTTGGG
  ATTTCAATCT AAGAGTCTAG                                            
  
  S = C/G
  

  
  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
ss357622717	MGP_WTSI_3_38785433	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	G	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
rs220411625					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	G	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
ss357622717	MGP_WTSI_3_38785433	SC_MOUSE_GENOMES	SC_MOUSE_GENOMES	f	SNP	C/G

Gene/Marker
Associations
and
Function
Classes

MGI genes/markers associated with the SNP

Location: Chr3:38940660 () rs orientation: forward

Symbol	Name	Function Class
C230034O21Rik	RIKEN cDNA C230034O21 gene	within coordinates
Cpgi13105	CpG island 13105	within coordinates
Fat4	FAT atypical cadherin 4	mRNA-UTR
Gm56780	predicted gene, 56780	63 bp downstream
Gm65329	predicted gene, 65329	965 bp upstream
Rr575717	regulatory region 575717	976 bp distal
Rr575719	regulatory region 575719	812 bp distal
Rr575720	regulatory region 575720	388 bp distal
Rr575721	regulatory region 575721	within coordinates
Rr575722	regulatory region 575722	1251 bp proximal
Rr575723	regulatory region 575723	1372 bp proximal
Rr575724	regulatory region 575724	1521 bp proximal
Rr575725	regulatory region 575725	1738 bp proximal
Rr575726	regulatory region 575726	1781 bp proximal
Tssr28930	transcription start site region 28930	1180 bp downstream
Tssr28931	transcription start site region 28931	809 bp downstream
Tssr28932	transcription start site region 28932	783 bp downstream
Tssr28933	transcription start site region 28933	747 bp downstream
Tssr28934	transcription start site region 28934	657 bp downstream
Tssr28935	transcription start site region 28935	624 bp downstream
Tssr28936	transcription start site region 28936	606 bp downstream