rs238281635 SNP Detail

Summary

• ID
  rs238281635
• 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 | Alliance Variant
  

Genome Location and Flanking Sequence

• Location
  Chr11:96242517 (GRCm39)
• SNP Orientation to the Genome
  forward

• SNP Reference Flanking Sequence

                                              ATCAATTAAA GCAAATAATG
  CCTGTGTTTT CCACTAGGCC TAGACTAGCG ATTGGCGGAG ACCGGTCCCG TGACCATGAA
  TTCCCTGCAA TTTCGGCGGA GTCCTGGGTT TAATAGAGAG AGTCCCCATA CGCTTGTATT
  TATCAGCAAT ATACAATTAT AAAGGCCTAA ATTTAAAAAA AAAAGAGAGA GAGCGAAATC
  Y
  CCCCCCCCCC GCGAAATTGC TCCATTGCAT AAACCTGGGG GGGGCGGGAG AGGGGGGTCC
  CTCTGATTCT CCCTCCTGAC GCCCCCCCCA GCAGGCCCCC TCCCCCACCA TTGAAAGCCA
  TGAATTTTGA ATTTGAGAGG GAGATTGGGT TTATAAACAG CCAGCCATCG CTCGCCGAGT
  GTCTGACTTC CTTCCCCGCT                                            
  
  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	C57BL/6J	C57BL/6NJ	C57BL/10J	C57BL/10SnJ	C57BR/cdJ	C57L/J	C58/J	CBA/J	CE/J	CZECHII/EiJ	DBA/2J	FVB/NJ	JF1/MsJ	LP/J	MA/MyJ	MOLF/EiJ	NON/ShiLtJ	NZB/BlNJ	PL/J	QSi3/Ianm	QSi5/Ianm	RF/J	RIIIS/J	SEA/GnJ	SJL/J	SM/J	SPRET/EiJ	ST/bJ	SWR/J	WSB/EiJ	ZALENDE/EiJ
ss384367036	MGP_WTSI_11_96213005	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	C	T	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	C57BL/6J	C57BL/6NJ	C57BL/10J	C57BL/10SnJ	C57BR/cdJ	C57L/J	C58/J	CBA/J	CE/J	CZECHII/EiJ	DBA/2J	FVB/NJ	JF1/MsJ	LP/J	MA/MyJ	MOLF/EiJ	NON/ShiLtJ	NZB/BlNJ	PL/J	QSi3/Ianm	QSi5/Ianm	RF/J	RIIIS/J	SEA/GnJ	SJL/J	SM/J	SPRET/EiJ	ST/bJ	SWR/J	WSB/EiJ	ZALENDE/EiJ
rs238281635					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	C	T	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
ss384367036	MGP_WTSI_11_96213005	SC_MOUSE_GENOMES	SC_MOUSE_GENOMES	f	SNP	C/T

Gene/Marker
Associations
and
Function
Classes

MGI genes/markers associated with the SNP

Location: Chr11:96242517 () rs orientation: forward

Symbol	Name	Function Class
Cpgi3656	CpG island 3656	321 bp proximal
Cpgi3657	CpG island 3657	977 bp proximal
Hoxb2	homeobox B2	mRNA-UTR
Hoxb3os	homeobox B3 and homeobox B2, opposite strand	within coordinates
Rr141	regulatory region 141	1243 bp distal
Rr454	regulatory region 454	1471 bp distal
Rr455383	regulatory region 455383	1616 bp distal
Rr455384	regulatory region 455384	1223 bp distal
Rr455385	regulatory region 455385	50 bp distal
Tssr104519	transcription start site region 104519	56 bp downstream
Tssr104520	transcription start site region 104520	178 bp upstream
Tssr104521	transcription start site region 104521	207 bp upstream
Tssr104522	transcription start site region 104522	259 bp upstream
Tssr104523	transcription start site region 104523	283 bp upstream
Tssr104524	transcription start site region 104524	363 bp upstream
Tssr104525	transcription start site region 104525	429 bp upstream
Tssr104526	transcription start site region 104526	1173 bp upstream
Tssr104527	transcription start site region 104527	1195 bp upstream
Tssr104528	transcription start site region 104528	1384 bp upstream
Tssr104529	transcription start site region 104529	1436 bp upstream
Tssr104530	transcription start site region 104530	1464 bp upstream
Tssr104531	transcription start site region 104531	1633 bp upstream
Tssr110331	transcription start site region 110331	1564 bp upstream
Tssr110332	transcription start site region 110332	1492 bp upstream