rs49988154 SNP Detail

Summary

• ID
  rs49988154
• Variation Type
  SNP
• Alleles
  A/C

• Created in dbSNP Build
  127
• Last Updated in dbSNP Build
  137
• Additional Resources
  JBrowse Genome Browser | Ensembl SNPView | UCSC Browser | Alliance Variant
  

Genome Location and Flanking Sequence

• Location
  Chr17:71159238 (GRCm39)
• SNP Orientation to the Genome
  forward

• SNP Reference Flanking Sequence

                                              TCTACTTTGT GTGCTAATAT
  CCCACCAGAG GACACCCTTC AGTATTTCAA ACAGAAACTA GCCATTAAAT AAACACTCAT
  TCCTATTGGT TTATTTTGCT TGAGAGGGGA GCTCCAAAGA GTTGAACGAA GAATCGAGAA
  TCGTCCCCTC CCCAAATACA AGCCAGATGC TGTTATGGCT GACTTCGAGA CGCGCACGCC
  M
  GCACTTCTGG GTCTAGTTTT CACCTATGCC CGGTTGTTTA AAAAAAAAAA AAAAAAAAAA
  AAAAAAAAAA GCAAAGAAAA GCAACTGTCA CATGTCACAG AAGACTTTCC CCATAGAGGG
  GGGGAAAAAC CCCAAACGTA AATAAGCTGA GCAGCGACGT CACCGCCGGT GTCTGTCTCC
  AGTTTCGGCT TTGTGGCTGT                                            
  
  M = A/C
  

  
  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	129S1/SvImJ	A/J	AKR/J	BALB/cByJ	BTBR T<+> Itpr3/J	C3H/HeJ	CAST/EiJ	DBA/2J	FVB/NJ	KK/HlJ	MOLF/EiJ	NOD/ShiLtJ	NZW/LacJ	PWD/PhJ	WSB/EiJ
ss60272778	NES15767704	PERLEGEN	MM_PANEL2	f	SNP	C	C	C	C	C	C	A	C	C	C	C	C	C	C	C
SNP Consensus Information
SNP					Consensus Type	129S1/SvImJ	A/J	AKR/J	BALB/cByJ	BTBR T<+> Itpr3/J	C3H/HeJ	CAST/EiJ	DBA/2J	FVB/NJ	KK/HlJ	MOLF/EiJ	NOD/ShiLtJ	NZW/LacJ	PWD/PhJ	WSB/EiJ
rs49988154					SNP	C	C	C	C	C	C	A	C	C	C	C	C	C	C	C

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
ss60272778	NES15767704	PERLEGEN	MM_PANEL	f	SNP	A/C

Gene/Marker
Associations
and
Function
Classes

MGI genes/markers associated with the SNP

Location: Chr17:71159238 () rs orientation: forward

Symbol	Name	Transcript	Protein	Function Class	Allele	Residue	Codon Position	AA Position
Gm36856	predicted gene, 36856			1329 bp upstream
Gm56903	predicted gene, 56903			within coordinates
Gm56904	predicted gene, 56904			within coordinates
Rr405418	regulatory region 405418			9 bp upstream
Rr530335	regulatory region 530335			1566 bp distal
Rr530336	regulatory region 530336			1185 bp distal
Rr530337	regulatory region 530337			1131 bp distal
Rr530338	regulatory region 530338			546 bp distal
Rr530339	regulatory region 530339			19 bp distal
Rr530340	regulatory region 530340			24 bp proximal
Rr530341	regulatory region 530341			525 bp proximal
Rr530342	regulatory region 530342			904 bp proximal
Rr530343	regulatory region 530343			1535 bp proximal
Tgif1	TGFB-induced factor homeobox 1			Intron
				mRNA-UTR
Tssr145686	transcription start site region 145686			1523 bp downstream
Tssr145687	transcription start site region 145687			879 bp downstream
Tssr145688	transcription start site region 145688			220 bp downstream
Tssr145689	transcription start site region 145689			162 bp upstream
Tssr145690	transcription start site region 145690			488 bp upstream
Tssr145691	transcription start site region 145691			508 bp upstream
Tssr145692	transcription start site region 145692			552 bp upstream
Tssr145693	transcription start site region 145693			757 bp upstream
Tssr145694	transcription start site region 145694			857 bp upstream
Tssr145695	transcription start site region 145695			1500 bp upstream
Tssr149221	transcription start site region 149221			1885 bp upstream
Tssr149222	transcription start site region 149222			1175 bp upstream
Tssr149223	transcription start site region 149223			1156 bp upstream
Tssr149224	transcription start site region 149224			1125 bp upstream
Tssr149225	transcription start site region 149225			1027 bp upstream
Tssr149226	transcription start site region 149226			1011 bp upstream
Tssr149227	transcription start site region 149227			600 bp upstream
Tssr149228	transcription start site region 149228			505 bp upstream
Tssr149229	transcription start site region 149229			469 bp upstream
Tssr149230	transcription start site region 149230			350 bp upstream
Tssr149231	transcription start site region 149231			within coordinates
Tssr149232	transcription start site region 149232			32 bp downstream
Tssr149233	transcription start site region 149233			552 bp downstream
Tssr149234	transcription start site region 149234			932 bp downstream
Tssr149235	transcription start site region 149235			1229 bp downstream
Tssr149236	transcription start site region 149236			1239 bp downstream
Tssr149237	transcription start site region 149237			1308 bp downstream
Tssr149238	transcription start site region 149238			1399 bp downstream