rs257516554 SNP Detail

Summary

• ID
  rs257516554
• 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
  Chr1:30912375 (GRCm39)
• SNP Orientation to the Genome
  forward

• SNP Reference Flanking Sequence

                                              CTAGTCAAAA GGAGCCGGCC
  CACAGTCCCG GTCCCCAGCA CAAAAGCGCG CGATCCGCAG CCTCAGACAC CCCGGATGCG
  GGGACGGGGA CCGGCCTCGG GCGCGGGTCG GCCTCGGCGG GGACCCTGGC CGGCTGCCAG
  GCTCCGCGAG CGGGCTGCGG CCACCGCGCC GGAGACCCGG GGCCTTGGAA CCCGGAGTAG
  Y
  CCGCGACGCC TGCCCGCGCG GCGGCGACAG AGACCCGGCA CGCTCGCGGG CGAGAGCCGA
  GGCCCGGCGA TCGCGCGGAG GCCGCGCCGT CACCGCCGCT TCGGGCTCGC GGTCCAAACG
  GCGGGGCAGG CTGGGGCGGG GCGGGGCGAG CCGGGGAGGC CGAACGGCCC GGGAATATCA
  GGCGGCCGCT GCGCGAGGTG                                            
  
  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	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/10SnJ	C58/J	CAST/EiJ	CBA/J	CE/J	CZECHII/EiJ	DBA/2J	FVB/NJ	I/LnJ	JF1/MsJ	KK/HlJ	LG/J	LP/J	MA/MyJ	NOD/ShiLtJ	NON/ShiLtJ	NZB/BlNJ	NZO/HlLtJ	NZW/LacJ	PL/J	PWK/PhJ	QSi3/Ianm	QSi5/Ianm	RIIIS/J	SEA/GnJ	SJL/J	SPRET/EiJ	ST/bJ	SWR/J	WSB/EiJ
ss349110493	MGP_WTSI_1_30930139	EVA_MGPV3	EVA_MGPV3	f	SNP	T	T	T	T	T	T	T	T	T	T	T	T	T	T	T	T	T	T	T	T	T	T	T	T	T	T	T	T	T	T	T	T	T	T	T	T	T	T	C	T	T	T
SNP Consensus Information
SNP					Consensus Type	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/10SnJ	C58/J	CAST/EiJ	CBA/J	CE/J	CZECHII/EiJ	DBA/2J	FVB/NJ	I/LnJ	JF1/MsJ	KK/HlJ	LG/J	LP/J	MA/MyJ	NOD/ShiLtJ	NON/ShiLtJ	NZB/BlNJ	NZO/HlLtJ	NZW/LacJ	PL/J	PWK/PhJ	QSi3/Ianm	QSi5/Ianm	RIIIS/J	SEA/GnJ	SJL/J	SPRET/EiJ	ST/bJ	SWR/J	WSB/EiJ
rs257516554					SNP	T	T	T	T	T	T	T	T	T	T	T	T	T	T	T	T	T	T	T	T	T	T	T	T	T	T	T	T	T	T	T	T	T	T	T	T	T	T	C	T	T	T

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
ss349110493	MGP_WTSI_1_30930139	SC_MOUSE_GENOMES	SC_MOUSE_GENOMES	f	SNP	C/T

Gene/Marker
Associations
and
Function
Classes

MGI genes/markers associated with the SNP

Location: Chr1:30912375 () rs orientation: forward

Symbol	Name	Function Class
Cpgi99	CpG island 99	within coordinates
Gm7256	predicted gene 7256	within coordinates
Gm70275	predicted gene, 70275	1638 bp upstream
Phf3	PHD finger protein 3	within coordinates
Rr371054	regulatory region 371054	168 bp upstream
Rr408756	regulatory region 408756	within coordinates
Rr408757	regulatory region 408757	277 bp proximal
Rr408758	regulatory region 408758	1215 bp proximal
Rr408759	regulatory region 408759	1716 bp proximal
Tssr6135	transcription start site region 6135	705 bp upstream
Tssr6136	transcription start site region 6136	1714 bp upstream
Tssr11167	transcription start site region 11167	290 bp downstream
Tssr11168	transcription start site region 11168	543 bp downstream