rs229665540 SNP Detail

Summary

• ID
  rs229665540
• 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
  Chr4:117729929 (GRCm39)
• SNP Orientation to the Genome
  forward

• SNP Reference Flanking Sequence

                                              GTCGCGGCCT CCTGATCAGA
  TCTACAGGCC CGGAGGTCAG AGTGCTAGAT TTCCTGGGAG ACCGATGGTT GCTCTGGACC
  AGAGCCACGC CCACCAAGCC CTTCCGGCTG ACATCGATAC CCCGCCCCTT TCTGCCAAAG
  TCCCCACACC AGAATTGTGC TGTCTTTTGG TGGCCTACTA TGAGCAGACC CTTCAGGGTG
  Y
  GGGGTCCTTG CCTCTTCTGG GGGAAGCCTG GCTGTGGGAA TCGGCCCTTA GCCCCTCCCC
  TCCTAAGAGT CGGTCACCTG GGAAACCATC CGTGCCCTGG GATCAGCCCT CGAAAGAGGC
  CCTGCCCCTG CCCGCAGTGG CTAAGCACCC TGTGCTTATC CCAGGGCACC TTTCTGCCTC
  TGAGGGAGAA GAGCTGAGAA                                            
  
  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	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
ss362979136	MGP_WTSI_4_117545337	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	C	T	T	T	C	C	T	T	T	T	T	T	T	T	T	T	T	C	T	T	T	T	T	T	T	T	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	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
rs229665540					SNP	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	C	C	T	T	T	T	T	T	T	T	T	T	T	C	T	T	T	T	T	T	T	T	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
ss362979136	MGP_WTSI_4_117545337	SC_MOUSE_GENOMES	SC_MOUSE_GENOMES	f	SNP	C/T

Gene/Marker
Associations
and
Function
Classes

MGI genes/markers associated with the SNP

Location: Chr4:117729929 () rs orientation: forward

Symbol	Name	Function Class
B4galt2	UDP-Gal:betaGlcNAc beta 1,4- galactosyltransferase, polypeptide 2	282 bp downstream
Ccdc24	coiled-coil domain containing 24	121 bp upstream
Gm40233	predicted gene, 40233	1789 bp upstream
Rr598243	regulatory region 598243	1731 bp distal
Rr598244	regulatory region 598244	within coordinates
Tssr42995	transcription start site region 42995	1415 bp upstream
Tssr42996	transcription start site region 42996	1397 bp upstream
Tssr42997	transcription start site region 42997	694 bp upstream
Tssr42998	transcription start site region 42998	172 bp upstream
Tssr42999	transcription start site region 42999	139 bp upstream
Tssr43000	transcription start site region 43000	118 bp upstream
Tssr43001	transcription start site region 43001	12 bp downstream