rs244054553 SNP Detail

Summary

• ID
  rs244054553
• 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
  Chr4:107112399 (GRCm39)
• SNP Orientation to the Genome
  forward

• SNP Reference Flanking Sequence

                                              GAGAACATTT CCCTAGATGG
  TAACTCTTTT ATTTATTTTG GTTTTTTGAG AGCAGGTCTA TTCTAGCCCA GGAAAACCTT
  AAACTCACTT CTAATCCTCC AGCCTTGACC TACACAGTAT ATGGGGCATC ACCCCTGACT
  TGTAATTTTT TTGAAAATGT ATTATGCTCC CTTATACATT ATTTATCCAC ATGAGATATA
  Y
  ATCCTGTATT TACCTGTTTT GAGACATTCA CACCAATTTT GATAGTAAAA CTAGAAAATA
  TAAAAACACC ACAATTTTGT CAACCTTTTG CAGGGGATGT ACATCTTTAA TGTATGCATA
  ACTGGAGGGG GCACTGGAAG TTTTAAAAAA TGTTTATTAC ATTTATTCAT TTGGAGGAGC
  ATGCTTATGA GTTGGTTTTT                                            
  
  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	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
ss362755101	MGP_WTSI_4_106927807	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	C	T	T	C	T	T	T	T	C	T	T	T	T	C	C	T	T	T	T	T	T	C	T	T	T	T	T	T	T	C	T	T	T	T
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
rs244054553					SNP	T	T	T	T	T	T	T	T	T	T	T	T	T	T	T	T	T	T	T	C	T	T	C	T	T	T	T	C	T	T	T	T	C	C	T	T	T	T	T	T	C	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
ss362755101	MGP_WTSI_4_106927807	SC_MOUSE_GENOMES	SC_MOUSE_GENOMES	f	SNP	C/T

Gene/Marker
Associations
and
Function
Classes

MGI genes/markers associated with the SNP

Location: Chr4:107112399 () rs orientation: forward

Symbol	Name	Function Class
Cpgi14538	CpG island 14538	988 bp distal
Ift25	intraflagellar transport 25	within coordinates
Lrrc42	leucine rich repeat containing 42	1670 bp upstream
Rr398372	regulatory region 398372	1458 bp downstream
Rr596957	regulatory region 596957	1681 bp distal
Rr596958	regulatory region 596958	1920 bp distal
Rr596959	regulatory region 596959	1267 bp distal
Rr596960	regulatory region 596960	1403 bp distal
Rr596961	regulatory region 596961	414 bp distal
Tssr1253	transcription start site region 1253	1960 bp downstream
Tssr38232	transcription start site region 38232	1922 bp downstream
Tssr38233	transcription start site region 38233	1300 bp downstream
Tssr38234	transcription start site region 38234	1284 bp downstream
Tssr38235	transcription start site region 38235	1263 bp downstream
Tssr38236	transcription start site region 38236	1916 bp upstream
Tssr42677	transcription start site region 42677	1846 bp upstream
Tssr42678	transcription start site region 42678	1825 bp upstream
Tssr42679	transcription start site region 42679	1796 bp upstream
Tssr42680	transcription start site region 42680	1711 bp upstream
Tssr42681	transcription start site region 42681	1678 bp upstream