rs220391540 SNP Detail

Summary

• ID
  rs220391540
• Variation Type
  SNP
• Alleles
  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
  Chr5:134340779 (GRCm39)
• SNP Orientation to the Genome
  forward

• SNP Reference Flanking Sequence

                                              AAGGAGCACA TCTGCCGATG
  AAAGAATTCA AACCCAGCTG CCGCCGGACG TGGGGGCGCA CGCCTTTAAT TCCAGCACTT
  GGGAAGCAGA AGAAGGCAGA TTTCTGAGTT CGAGGCCAGC CTGGTCTACA GAGTGAGTTC
  CAGGTCAGCC AAGGGCTACA CAGAGAAACC CTGTCTCGAA AAACCAAAAA AAAAAAAAAA
  C
  ACACACACAC ACAACCAAAC CCAGCGGCCA CCGCACTATA TTGCAGACAC CTGGCAGAGG
  GCCTGCAGAC CTGAACAGGA CCAAACCAGA GTTTACCACC TAAATAGAAA GGAACAAAGG
  CAGAACCTCC CTCCCTCCCC AGAGGTTCAC CATCCATCCC AGCTGTACAA GCAATTGAGA
  GACAGGGGAA TTACCAAATT                                            
  
  C = 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	B10.RIII-H2 H2-T18/(71NS)SnJ	BALB/cByJ	BALB/cJ	BTBR T<+> Itpr3/J	C3H/HeH	C3H/HeJ	C57BL/6J	C57BL/6NJ	C57BL/10J	C57BL/10SnJ	C57BR/cdJ	C57L/J	C58/J	CAST/EiJ	CBA/J	CE/J	DBA/1J	DBA/2J	JF1/MsJ	KK/HlJ	LEWES/EiJ	LP/J	MA/MyJ	NOD/ShiLtJ	NON/ShiLtJ	NZB/BlNJ	NZO/HlLtJ	NZW/LacJ	PL/J	QSi3/Ianm	QSi5/Ianm	RF/J	RIIIS/J	SEA/GnJ	SM/J	SPRET/EiJ	SWR/J
ss366807800	MGP_WTSI_5_134787795	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
SNP Consensus Information
SNP					Consensus Type	129P2/OlaHsd	129S1/SvImJ	B10.RIII-H2 H2-T18/(71NS)SnJ	BALB/cByJ	BALB/cJ	BTBR T<+> Itpr3/J	C3H/HeH	C3H/HeJ	C57BL/6J	C57BL/6NJ	C57BL/10J	C57BL/10SnJ	C57BR/cdJ	C57L/J	C58/J	CAST/EiJ	CBA/J	CE/J	DBA/1J	DBA/2J	JF1/MsJ	KK/HlJ	LEWES/EiJ	LP/J	MA/MyJ	NOD/ShiLtJ	NON/ShiLtJ	NZB/BlNJ	NZO/HlLtJ	NZW/LacJ	PL/J	QSi3/Ianm	QSi5/Ianm	RF/J	RIIIS/J	SEA/GnJ	SM/J	SPRET/EiJ	SWR/J
rs220391540					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

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
ss366807800	MGP_WTSI_5_134787795	SC_MOUSE_GENOMES	SC_MOUSE_GENOMES	f	SNP	A/C

Gene/Marker
Associations
and
Function
Classes

MGI genes/markers associated with the SNP

Location: Chr5:134340779 () rs orientation: forward

Symbol	Name	Transcript	Protein	Function Class	Allele	Residue	Codon Position	AA Position
Cpgi16718	CpG island 16718			1468 bp proximal
Gm71761	predicted gene, 71761			1446 bp downstream
Gtf2i	general transcription factor II I			Intron
				mRNA-UTR
Rr399401	regulatory region 399401			1541 bp upstream
Rr621987	regulatory region 621987			within coordinates
Rr621988	regulatory region 621988			686 bp proximal
Rr621989	regulatory region 621989			1840 bp proximal
Tssr49086	transcription start site region 49086			1721 bp upstream
Tssr49087	transcription start site region 49087			1748 bp upstream
Tssr53628	transcription start site region 53628			620 bp downstream
Tssr53629	transcription start site region 53629			1290 bp downstream
Tssr53630	transcription start site region 53630			1862 bp downstream