rs253888609 SNP Detail

Summary

• ID
  rs253888609
• Variation Type
  SNP
• Alleles
  C/G

• 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
  Chr6:4540423 (GRCm39)
• SNP Orientation to the Genome
  forward

• SNP Reference Flanking Sequence

                                              ACATACAAGA TATGCAAACA
  CACCATACAC ACATACACAC ACCATACACT CACCTTGAAA AGAATATGTA TCCAAACATA
  TTTGAAACTT ATCCTAAAGA AGTTATCATT CCCTGAAAGA CATCCTTGAC ACTGTCTGTC
  TACAGTGAAC GTCTTAATCA GGAACCCCTA TCTTCAGAAA GTGTTGGCTG CCGAGAAATG
  S
  CTTTCCTAGA CCCCGATGCT TAGATATAAG TCAGGTGCAG CTATACTGGT CTGATGTATT
  TTCCTTTTTT CCCATTTTTT TCTATTATAC AGAAAAAGAC AAATGAATGG GGCAAGACAA
  TCATTGAATA CAAAACAAAT AAGCCATCTC GCCTGCCGTT CCTTGACATT GCACCTCTGG
  ACATTGGTGG TGCTGACCAA                                            
  
  S = C/G
  

  
  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
ss367230171	MGP_WTSI_6_4490423	EVA_MGPV3	EVA_MGPV3	f	SNP	G	G	G	G	G	G	G	G	G	G	G	G	G	G	G	G	G	G	G	G	G	G	G	G	G	G	G	G	G	G	G	G	G	G	G	G	G	G	G	G	G	G	G	G	G	G	G	G	C	G	G	G	G
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
rs253888609					SNP	G	G	G	G	G	G	G	G	G	G	G	G	G	G	G	G	G	G	G	G	G	G	G	G	G	G	G	G	G	G	G	G	G	G	G	G	G	G	G	G	G	G	G	G	G	G	G	G	C	G	G	G	G

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
ss367230171	MGP_WTSI_6_4490423	SC_MOUSE_GENOMES	SC_MOUSE_GENOMES	f	SNP	C/G

Gene/Marker
Associations
and
Function
Classes

MGI genes/markers associated with the SNP

Location: Chr6:4540423 () rs orientation: forward

Symbol	Name	Function Class
Col1a2	collagen, type I, alpha 2	within coordinates
Tssr1770	transcription start site region 1770	1755 bp downstream
Tssr54730	transcription start site region 54730	1778 bp downstream
Tssr54731	transcription start site region 54731	1733 bp downstream
Tssr54732	transcription start site region 54732	1646 bp downstream
Tssr54733	transcription start site region 54733	949 bp downstream
Tssr54734	transcription start site region 54734	932 bp downstream
Tssr54735	transcription start site region 54735	921 bp downstream
Tssr54736	transcription start site region 54736	895 bp downstream
Tssr54737	transcription start site region 54737	878 bp downstream
Tssr54738	transcription start site region 54738	835 bp downstream
Tssr54739	transcription start site region 54739	823 bp downstream
Tssr54740	transcription start site region 54740	746 bp downstream
Tssr54741	transcription start site region 54741	407 bp downstream
Tssr54742	transcription start site region 54742	105 bp upstream
Tssr54743	transcription start site region 54743	120 bp upstream
Tssr54744	transcription start site region 54744	151 bp upstream
Tssr54745	transcription start site region 54745	163 bp upstream
Tssr54746	transcription start site region 54746	176 bp upstream
Tssr54747	transcription start site region 54747	207 bp upstream
Tssr54748	transcription start site region 54748	251 bp upstream
Tssr54749	transcription start site region 54749	420 bp upstream
Tssr54750	transcription start site region 54750	433 bp upstream
Tssr54751	transcription start site region 54751	441 bp upstream
Tssr54752	transcription start site region 54752	484 bp upstream
Tssr54753	transcription start site region 54753	506 bp upstream
Tssr54754	transcription start site region 54754	615 bp upstream
Tssr54755	transcription start site region 54755	1014 bp upstream
Tssr59718	transcription start site region 59718	298 bp downstream
Tssr59719	transcription start site region 59719	366 bp downstream