rs239090741 SNP Detail

Summary

• ID
  rs239090741
• 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
  

Genome Location and Flanking Sequence

• Location
  Chr5:87842058 (GRCm39)
• SNP Orientation to the Genome
  forward

• SNP Reference Flanking Sequence

                                              TGAAACGCTG CAATCTTTTG
  ACTCCATGTA CATATAGTCA AAAGTACAAA TAAACAGCAG TATGTGAATA ATATATGAGC
  TTAAACAAAT TTTAGATCTC TACAGAAGAA AATTTTGTTA CCAAAATCTA ATAAGATTGG
  CAGATTTAAT TGTGGTTTAG TCGAGCTTAA TATCCTGTGT CAGAATTCCA AATATACCAA
  W
  TAAATCATTG TTCTTGTAAT TATCTGACAT CAACATGCAA TTCCTTTTAC CTAGTTAACC
  AGTTATATCA GAACTAACTG TAACTAGGCA GTAGGCGCTG GGAATTAGAT TTAAATGAAG
  ATCTGCAGGT GATTTTGTTT TATAGCTAAC CCTATGAATC ATCTATTATA TAATGAGCTA
  TGTATGTATT CTTTCAATCT                                            
  
  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	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	LP/J	MA/MyJ	MOLF/EiJ	NOD/ShiLtJ	NON/ShiLtJ	NZB/BlNJ	NZO/HlLtJ	NZW/LacJ	PL/J	PWK/PhJ	QSi3/Ianm	QSi5/Ianm	RIIIS/J	SJL/J	SPRET/EiJ	ST/bJ	SWR/J	WSB/EiJ	ZALENDE/EiJ
ss365777278	MGP_WTSI_5_88123224	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	T	T	T	T	T	T	T	A	T	T	T	T	T	T	T	T	T	A	T	T	T	T	T	A	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	LP/J	MA/MyJ	MOLF/EiJ	NOD/ShiLtJ	NON/ShiLtJ	NZB/BlNJ	NZO/HlLtJ	NZW/LacJ	PL/J	PWK/PhJ	QSi3/Ianm	QSi5/Ianm	RIIIS/J	SJL/J	SPRET/EiJ	ST/bJ	SWR/J	WSB/EiJ	ZALENDE/EiJ
rs239090741					SNP	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	T	T	T	A	T	T	T	T	T	T	T	T	T	A	T	T	T	T	T	A	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
ss365777278	MGP_WTSI_5_88123224	SC_MOUSE_GENOMES	SC_MOUSE_GENOMES	f	SNP	A/T

Gene/Marker
Associations
and
Function
Classes

MGI genes/markers associated with the SNP

Location: Chr5:87842058 () rs orientation: forward

Symbol	Name	Function Class
Csn2	casein beta	within coordinates
D5Mit12	DNA segment, Chr 5, Massachusetts Institute of Technology 12	221 bp distal
D5Mit16	DNA segment, Chr 5, Massachusetts Institute of Technology 16	181 bp distal
D5Mit16.1	DNA segment, Chr 5, Massachusetts Institute of Technology 16.1	24 bp distal
D5Mit16.2	DNA segment, Chr 5, Massachusetts Institute of Technology 16.2	336 bp distal
Tssr1529	transcription start site region 1529	355 bp upstream
Tssr46883	transcription start site region 46883	302 bp upstream
Tssr46884	transcription start site region 46884	315 bp upstream
Tssr46885	transcription start site region 46885	343 bp upstream
Tssr46886	transcription start site region 46886	371 bp upstream
Tssr46887	transcription start site region 46887	388 bp upstream
Tssr46888	transcription start site region 46888	457 bp upstream
Tssr46889	transcription start site region 46889	506 bp upstream
Tssr46890	transcription start site region 46890	521 bp upstream
Tssr46891	transcription start site region 46891	565 bp upstream
Tssr46892	transcription start site region 46892	569 bp upstream
Tssr46893	transcription start site region 46893	597 bp upstream
Tssr46894	transcription start site region 46894	644 bp upstream
Tssr46895	transcription start site region 46895	667 bp upstream
Tssr46896	transcription start site region 46896	762 bp upstream
Tssr51613	transcription start site region 51613	1520 bp upstream
Tssr51614	transcription start site region 51614	1457 bp upstream
Tssr51615	transcription start site region 51615	1401 bp upstream
Tssr51616	transcription start site region 51616	1367 bp upstream
Tssr51617	transcription start site region 51617	1358 bp upstream
Tssr51618	transcription start site region 51618	331 bp downstream
Tssr51619	transcription start site region 51619	369 bp downstream
Tssr51620	transcription start site region 51620	378 bp downstream
Tssr51621	transcription start site region 51621	387 bp downstream
Tssr51622	transcription start site region 51622	425 bp downstream
Tssr51623	transcription start site region 51623	450 bp downstream
Tssr51624	transcription start site region 51624	468 bp downstream
Tssr51625	transcription start site region 51625	474 bp downstream
Tssr51626	transcription start site region 51626	484 bp downstream
Tssr51627	transcription start site region 51627	499 bp downstream
Tssr51628	transcription start site region 51628	540 bp downstream
Tssr51629	transcription start site region 51629	632 bp downstream
Tssr51630	transcription start site region 51630	726 bp downstream
Tssr51631	transcription start site region 51631	775 bp downstream
Tssr51632	transcription start site region 51632	1069 bp downstream
Tssr51633	transcription start site region 51633	1854 bp downstream
Tssr51634	transcription start site region 51634	1976 bp downstream