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rs239616843 SNP Detail
Summary
  • ID
    rs239616843
  • Variation Type
    SNP
  • Alleles
    A/C/G
Genome Location and Flanking Sequence
  • Location
    Chr6:49023967 (GRCm39)
  • SNP Orientation to the Genome
    forward
  • SNP Reference Flanking Sequence
                                                TAGGAAGAGG AATTCCAGTC
    TCTCTGTAAA ACCTAACCGA AGCTATGCCC GTGTACTTAC ATCAAGTGCT TTTAATTTCT
    TATAAAAATA AGGCACATTT GTGAATACAG AACCTATTAA AACTCTTGCA GATACCTCAC
    CATGACATTA AATGAGTCCT AAGGGAAGAG TATGCATTTC ATGTGCAAAT CGTTTAAACC
    V
    AATAGCCTTC ATCTATAAAT TAGGAACTGG CTGGATTGCC CCTCTGTGGA GCTCTTTCAC
    TTTAAGCAGC TGTGAGCAGT TGTTACCTGT ATGCAAGCAG AAAGTTGCTT CATCGGGTTT
    TGCATCAAGG CCGGCACCAG CTCCCTTTCA GGAGCGTCCA GCCTGTTCTC TTCGCAGAGC
    AACCTTTAAC CTTTCAGAAA                                            
    
    V = A/C/G
    

    Note: Sequence in lower case indicates low-complexity or repetitive sequence
    BLAST SNP flanking sequence against the mouse Genome
SNP Assays
and
SNP Consensus
Strain alleles of submitted assays, and consensus values for this SNP
Legend
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
ss368235211 MGP_WTSI_6_48997032 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 C G G G G G G G G G G G G G G G G G C G G G G G G G A 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
rs239616843 SNP 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 G G G G G G G G G G G G G C G G G G G G G A 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
ss368235211 MGP_WTSI_6_48997032 SC_MOUSE_GENOMES SC_MOUSE_GENOMES f SNP A/C/G
Gene/Marker
Associations
and
Function
Classes
MGI genes/markers associated with the SNP
Location: Chr6:49023967 () rs orientation: forward
Symbol Name Transcript Protein Function
Class
Allele Residue Codon
Position
AA
Position
D6Dcr8 DNA Segment, Chr 6, Derry C. Roopenian 8 583 bp distal
D6Mit142 DNA segment, Chr 6, Massachusetts Institute of Technology 142 595 bp distal
Gm56981 predicted gene, 56981 within coordinates
Gpnmb glycoprotein (transmembrane) nmb Intron
Tssr56319 transcription start site region 56319 1716 bp downstream
Tssr56320 transcription start site region 56320 1676 bp downstream
Tssr56321 transcription start site region 56321 1662 bp downstream
Tssr56322 transcription start site region 56322 1644 bp downstream
Tssr56323 transcription start site region 56323 1608 bp downstream
Tssr56324 transcription start site region 56324 1578 bp downstream
Tssr56325 transcription start site region 56325 1422 bp downstream
Tssr56326 transcription start site region 56326 1407 bp downstream
Tssr56327 transcription start site region 56327 1353 bp downstream
Tssr56328 transcription start site region 56328 1275 bp downstream
Tssr56329 transcription start site region 56329 1199 bp downstream
Tssr56330 transcription start site region 56330 1028 bp downstream
Tssr56331 transcription start site region 56331 983 bp downstream
Tssr56332 transcription start site region 56332 910 bp downstream
Tssr56333 transcription start site region 56333 872 bp downstream
Tssr56334 transcription start site region 56334 862 bp downstream
Tssr56335 transcription start site region 56335 842 bp downstream
Tssr56336 transcription start site region 56336 815 bp downstream
Tssr56337 transcription start site region 56337 792 bp downstream
Tssr56338 transcription start site region 56338 776 bp downstream
Tssr56339 transcription start site region 56339 762 bp downstream
Tssr56340 transcription start site region 56340 572 bp downstream
Tssr56341 transcription start site region 56341 312 bp downstream
Tssr56342 transcription start site region 56342 280 bp downstream
Tssr56343 transcription start site region 56343 259 bp upstream
Tssr56344 transcription start site region 56344 273 bp upstream
Tssr56345 transcription start site region 56345 291 bp upstream
Tssr56346 transcription start site region 56346 328 bp upstream
Tssr56347 transcription start site region 56347 366 bp upstream
Tssr56348 transcription start site region 56348 392 bp upstream
Tssr56349 transcription start site region 56349 715 bp upstream
Tssr56350 transcription start site region 56350 742 bp upstream
Tssr56351 transcription start site region 56351 772 bp upstream
Tssr56352 transcription start site region 56352 785 bp upstream
Tssr56353 transcription start site region 56353 854 bp upstream
Tssr56354 transcription start site region 56354 869 bp upstream
Tssr56355 transcription start site region 56355 894 bp upstream
Tssr56356 transcription start site region 56356 912 bp upstream
Tssr56357 transcription start site region 56357 924 bp upstream
Tssr56358 transcription start site region 56358 942 bp upstream
Tssr56359 transcription start site region 56359 957 bp upstream
Tssr56360 transcription start site region 56360 994 bp upstream
Tssr60846 transcription start site region 60846 1641 bp upstream
Tssr60847 transcription start site region 60847 1558 bp upstream
Tssr60848 transcription start site region 60848 625 bp upstream
Tssr60849 transcription start site region 60849 296 bp downstream
Tssr60850 transcription start site region 60850 351 bp downstream
Tssr60851 transcription start site region 60851 821 bp downstream
Tssr60852 transcription start site region 60852 864 bp downstream
Tssr60853 transcription start site region 60853 874 bp downstream
Tssr60854 transcription start site region 60854 893 bp downstream
Tssr60855 transcription start site region 60855 926 bp downstream
Tssr60856 transcription start site region 60856 964 bp downstream
Tssr60857 transcription start site region 60857 993 bp downstream

Contributing Projects:
Mouse Genome Database (MGD), Gene Expression Database (GXD), Mouse Models of Human Cancer database (MMHCdb) (formerly Mouse Tumor Biology (MTB)), Gene Ontology (GO)
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last database update
03/18/2025
MGI 6.24
The Jackson Laboratory