rs49687639 SNP Detail

Summary

• ID
  rs49687639
• Variation Type
  SNP
• Alleles
  A/C

• Created in dbSNP Build
  127
• Last Updated in dbSNP Build
  138
• Additional Resources
  JBrowse Genome Browser | Ensembl SNPView | UCSC Browser
  

Genome Location and Flanking Sequence

• Location
  Chr14:54411899 (GRCm39)
• SNP Orientation to the Genome
  forward

• SNP Reference Flanking Sequence

                                        CAAAT AGTAGAATTT TTGGAGCAAG
  M
  CACCAGGCAG TAGTCCCTGA AGACA                                      
  
  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	129X1/SvJ	A/J	C3H/HeJ	DBA/2J	KK/HlJ	LG/J	MOLF/EiJ	PWD/PhJ	SM/J
ss62393479	NES17236820	PERLEGEN	MM_PANEL2	f	SNP			A		A		C	A
ss139557161	ENSMUSSNP2738847	ENSEMBL	ENSEMBL_Sanger	f	SNP	A	A		A
ss324635223	CHEV_14_54794117	CHEVERUD	SCREENING_POP	f	SNP						C			A
SNP Consensus Information
SNP					Consensus Type	129X1/SvJ	A/J	C3H/HeJ	DBA/2J	KK/HlJ	LG/J	MOLF/EiJ	PWD/PhJ	SM/J
rs49687639					SNP	A	A	A	A	A	C	C	A	A

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
ss62393479	NES17236820	PERLEGEN	MM_PANEL	f	SNP	A/C

Gene/Marker
Associations
and
Function
Classes

MGI genes/markers associated with the SNP

Location: Chr14:54411899 () rs orientation: forward

Symbol	Name	Function Class
A430107P09Rik	RIKEN cDNA A430107P09 gene	within coordinates
Rr492147	regulatory region 492147	831 bp distal
Rr492148	regulatory region 492148	1912 bp proximal
Tcra	T cell receptor alpha chain	within coordinates
Traj41	T cell receptor alpha joining 41	1829 bp upstream
Traj42	T cell receptor alpha joining 42	1331 bp upstream
Traj43	T cell receptor alpha joining 43	300 bp upstream
Traj44	T cell receptor alpha joining 44	692 bp downstream
Traj45	T cell receptor alpha joining 45	1552 bp downstream
Tssr125558	transcription start site region 125558	908 bp downstream
Tssr125559	transcription start site region 125559	888 bp downstream
Tssr125560	transcription start site region 125560	852 bp downstream
Tssr125561	transcription start site region 125561	838 bp downstream
Tssr125562	transcription start site region 125562	41 bp downstream
Tssr125563	transcription start site region 125563	158 bp upstream
Tssr125564	transcription start site region 125564	423 bp upstream
Tssr125565	transcription start site region 125565	512 bp upstream
Tssr125566	transcription start site region 125566	1532 bp upstream
Tssr125567	transcription start site region 125567	1766 bp upstream
Tssr125568	transcription start site region 125568	1785 bp upstream
Tssr125569	transcription start site region 125569	1811 bp upstream
Tssr125570	transcription start site region 125570	1829 bp upstream