rs238216130 SNP Detail

Summary

• ID
  rs238216130
• 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
  Chr2:97298461 (GRCm39)
• SNP Orientation to the Genome
  forward

• SNP Reference Flanking Sequence

                                              GGTGTATTCT GACATAAATA
  ATCATAAAAT AGCTGTCCCC CTCCCCCAAG GATGTTTGGA AATGAAGAAC TGAGGATCCA
  CAAAGAAAAA GTGTGCTCAT TTTTCTCTGT AAAAGAGAAA GTACGCCAAG GAGATATTTT
  TGGAATGAAA AGTTTGGGGC TTTTTTTAGA AAAGTAAAGA CCTGATATAT ATATATTTTT
  W
  TTTCTTTTGG AATTTCCCAC AAGAGGAGAG GAAATTAATA ATACATCTGC AAAGAAATCC
  CACTGAAGAA AAGTTGACCG TGGAAGAAGG AAGCATTGAT TGGGAAAGAA ATCAGCAGAG
  GACCCTTGGA TCAGTGCCCG TGTTGACTAA AATTGAAGGA TAATTGCAGT TGGATTTTTT
  TTTCTTCACC AACCTCCTTT                                            
  
  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	A/J	AKR/J	B10.RIII-H2 H2-T18/(71NS)SnJ	BTBR T<+> Itpr3/J	C3H/HeH	C3H/HeJ	C57BL/6J	C57BL/6NJ	C57BL/10J	C57BL/10SnJ	C57BR/cdJ	C57L/J	C58/J	CAST/EiJ	CE/J	CZECHII/EiJ	I/LnJ	JF1/MsJ	MA/MyJ	MOLF/EiJ	NON/ShiLtJ	NZB/BlNJ	NZO/HlLtJ	PL/J	PWK/PhJ	RIIIS/J	SPRET/EiJ	ST/bJ	WSB/EiJ	ZALENDE/EiJ
ss354950811	MGP_WTSI_2_97308273	EVA_MGPV3	EVA_MGPV3	f	SNP	T	T	T	A	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
SNP Consensus Information
SNP					Consensus Type	A/J	AKR/J	B10.RIII-H2 H2-T18/(71NS)SnJ	BTBR T<+> Itpr3/J	C3H/HeH	C3H/HeJ	C57BL/6J	C57BL/6NJ	C57BL/10J	C57BL/10SnJ	C57BR/cdJ	C57L/J	C58/J	CAST/EiJ	CE/J	CZECHII/EiJ	I/LnJ	JF1/MsJ	MA/MyJ	MOLF/EiJ	NON/ShiLtJ	NZB/BlNJ	NZO/HlLtJ	PL/J	PWK/PhJ	RIIIS/J	SPRET/EiJ	ST/bJ	WSB/EiJ	ZALENDE/EiJ
rs238216130					SNP	T	T	T	A	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

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
ss354950811	MGP_WTSI_2_97308273	SC_MOUSE_GENOMES	SC_MOUSE_GENOMES	f	SNP	A/T

Gene/Marker
Associations
and
Function
Classes

MGI genes/markers associated with the SNP

Location: Chr2:97298461 () rs orientation: forward

Symbol	Name	Transcript	Protein	Function Class	Allele	Residue	Codon Position	AA Position
Cpgi11965	CpG island 11965			971 bp distal
Gm54117	predicted gene, 54117			within coordinates
Gm75348	predicted gene, 75348			1085 bp downstream
Lrrc4c	leucine rich repeat containing 4C			Intron
				mRNA-UTR
Rr561447	regulatory region 561447			1637 bp distal
Rr561448	regulatory region 561448			449 bp distal
Rr561449	regulatory region 561449			78 bp distal
Rr561450	regulatory region 561450			68 bp proximal
Tssr19016	transcription start site region 19016			1631 bp downstream
Tssr19017	transcription start site region 19017			611 bp downstream
Tssr19018	transcription start site region 19018			557 bp downstream
Tssr19019	transcription start site region 19019			530 bp downstream
Tssr19020	transcription start site region 19020			417 bp downstream