rs254023044 SNP Detail

Summary

• ID
  rs254023044
• Variation Type
  SNP
• Alleles
  A/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
  Chr19:11798472 (GRCm39)
• SNP Orientation to the Genome
  forward

• SNP Reference Flanking Sequence

                                              TGCATTAGAT AAGGCCACCA
  TAGGATACAT AGCATGGAAC AGCTTTTTGT TAGTGGTCAC TGGTCATTTT AATTTGCTCA
  GTTTTTCTGT ATACTCCCAA GGTAGTACCT TCCATGACTG AATGGTACCA GCTCTGTTAA
  AAAGTTATTA TACAGAACAA GTTTTCTTCC CTATTACTTC TTGCCTTAAT CCAGACACTT
  W
  AAAAAAAAAA AAAAAACATA AGTCAGAGCT TAAGAGATAG CTCAGTCAGT AAAGTGCTTC
  CTCCACAAAT ATGAGGACCG GAGTTCAATT CCCAGAACTT ATAATAATAA TAATAATAAT
  AATAATGATA ATAATAATAA TAATCAAACA CAGTGGCACA TACTGGTAAT TCCAGAACTG
  GGAAAGTAGA AACAGTGGAT                                            
  
  W = A/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	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/HeJ	C57BL/6J	C57BL/6NJ	C57BL/10J	C57BL/10SnJ	C57BR/cdJ	C57L/J	C58/J	CAST/EiJ	CBA/J	CZECHII/EiJ	DBA/1J	DBA/2J	FVB/NJ	I/LnJ	JF1/MsJ	KK/HlJ	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	SPRET/EiJ	ST/bJ	SWR/J	WSB/EiJ
ss401759400	MGP_WTSI_19_11895598	EVA_MGPV3	EVA_MGPV3	f	SNP	A	A	T	A	A	T	T	A	A	A	A	A	A	A	A	A	A	A	A	A	A	A	A	A	A	A	A	A	A	T	T	A	A	A	T	A	A	A	A	A	T	A	A	T	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/HeJ	C57BL/6J	C57BL/6NJ	C57BL/10J	C57BL/10SnJ	C57BR/cdJ	C57L/J	C58/J	CAST/EiJ	CBA/J	CZECHII/EiJ	DBA/1J	DBA/2J	FVB/NJ	I/LnJ	JF1/MsJ	KK/HlJ	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	SPRET/EiJ	ST/bJ	SWR/J	WSB/EiJ
rs254023044					SNP	A	A	T	A	A	T	T	A	A	A	A	A	A	A	A	A	A	A	A	A	A	A	A	A	A	A	A	A	A	T	T	A	A	A	T	A	A	A	A	A	T	A	A	T	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
ss401759400	MGP_WTSI_19_11895598	SC_MOUSE_GENOMES	SC_MOUSE_GENOMES	f	SNP	A/T

Gene/Marker
Associations
and
Function
Classes

MGI genes/markers associated with the SNP

Location: Chr19:11798472 () rs orientation: forward

Symbol	Name	Transcript	Protein	Function Class	Allele	Residue	Codon Position	AA Position
Cpgi10634	CpG island 10634			1712 bp distal
Cpgi10635	CpG island 10635			964 bp distal
Gm41810	predicted gene, 41810			within coordinates
Gm59062	predicted gene, 59062			within coordinates
Rr544384	regulatory region 544384			1676 bp distal
Rr544385	regulatory region 544385			1050 bp distal
Rr544386	regulatory region 544386			569 bp distal
Rr544387	regulatory region 544387			632 bp distal
Stx3	syntaxin 3			mRNA-UTR
				Noncoding-Transcript-Variant
Tssr155287	transcription start site region 155287			373 bp upstream
Tssr155288	transcription start site region 155288			714 bp upstream