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rs239860586 SNP Detail
Summary
  • ID
    rs239860586
  • Variation Type
    SNP
  • Alleles
    C/T
Genome Location and Flanking Sequence
  • Location
    Chr6:49023299 (GRCm39)
  • SNP Orientation to the Genome
    forward
  • SNP Reference Flanking Sequence
                                                GGCTCATTAT TAACAAGGCT
GCTGAATTCT CAGTATATTA CCAGAGGGCC ACGTCAATGG ATGAGTGGGA GAATACAAGC
CCAGCATGTA GACATTAAGC AAAATACACA CACACCCCAC ACACAAATAA CATACACACA
CACCAGACAT ACACATACAT ACTGTACATA CCACACACAT ACACCATGCA TGCCATATAC
Y
TGAAACATAC ATACATACAT ACACACACAC ACACACACAC ACACACACAC ACCACATACC
ACCACCACCA CCTCCAGGAG CCAACTGAGG CTAAATTTTC AAAATCTGCT CCAGTTGAGT
AACTCCTGGA TATCTAAAGG TTTTGTCCTT TCTCAGAGAG CATCCTTTTA TTCAGCATTA
ACAAAGCACA CCCACTGAAC                                            

Y = C/T

    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
ss368235200 MGP_WTSI_6_48996364 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 C T T T T C T T T T T T T T T T T T T T T T T T T T T C T 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
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
rs239860586 SNP T T T T T T T T T T T T T T T T T T T T T C T T T T C T T T T T T T T T T T T T T T T T T T T T C T 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
ss368235200 MGP_WTSI_6_48996364 SC_MOUSE_GENOMES SC_MOUSE_GENOMES f SNP C/T
Gene/Marker
Associations
and
Function
Classes
MGI genes/markers associated with the SNP
Location: Chr6:49023299 () rs orientation: forward
Symbol Name Transcript Protein Function
Class		 Allele Residue Codon
Position		 AA
Position
D6Dcr8 DNA Segment, Chr 6, Derry C. Roopenian 8 within coordinates
D6Mit142 DNA segment, Chr 6, Massachusetts Institute of Technology 142 within coordinates
Gm56981 predicted gene, 56981 within coordinates
Gpnmb glycoprotein (transmembrane) nmb within coordinates
Tssr56319 transcription start site region 56319 1048 bp downstream
Tssr56320 transcription start site region 56320 1008 bp downstream
Tssr56321 transcription start site region 56321 994 bp downstream
Tssr56322 transcription start site region 56322 976 bp downstream
Tssr56323 transcription start site region 56323 940 bp downstream
Tssr56324 transcription start site region 56324 910 bp downstream
Tssr56325 transcription start site region 56325 754 bp downstream
Tssr56326 transcription start site region 56326 739 bp downstream
Tssr56327 transcription start site region 56327 685 bp downstream
Tssr56328 transcription start site region 56328 607 bp downstream
Tssr56329 transcription start site region 56329 531 bp downstream
Tssr56330 transcription start site region 56330 360 bp downstream
Tssr56331 transcription start site region 56331 315 bp downstream
Tssr56332 transcription start site region 56332 242 bp downstream
Tssr56333 transcription start site region 56333 204 bp downstream
Tssr56334 transcription start site region 56334 194 bp downstream
Tssr56335 transcription start site region 56335 174 bp downstream
Tssr56336 transcription start site region 56336 147 bp downstream
Tssr56337 transcription start site region 56337 124 bp downstream
Tssr56338 transcription start site region 56338 108 bp downstream
Tssr56339 transcription start site region 56339 94 bp downstream
Tssr56340 transcription start site region 56340 85 bp upstream
Tssr56341 transcription start site region 56341 345 bp upstream
Tssr56342 transcription start site region 56342 377 bp upstream
Tssr56343 transcription start site region 56343 927 bp upstream
Tssr56344 transcription start site region 56344 941 bp upstream
Tssr56345 transcription start site region 56345 959 bp upstream
Tssr56346 transcription start site region 56346 996 bp upstream
Tssr56347 transcription start site region 56347 1034 bp upstream
Tssr56348 transcription start site region 56348 1060 bp upstream
Tssr56349 transcription start site region 56349 1383 bp upstream
Tssr56350 transcription start site region 56350 1410 bp upstream
Tssr56351 transcription start site region 56351 1440 bp upstream
Tssr56352 transcription start site region 56352 1453 bp upstream
Tssr56353 transcription start site region 56353 1522 bp upstream
Tssr56354 transcription start site region 56354 1537 bp upstream
Tssr56355 transcription start site region 56355 1562 bp upstream
Tssr56356 transcription start site region 56356 1580 bp upstream
Tssr56357 transcription start site region 56357 1592 bp upstream
Tssr56358 transcription start site region 56358 1610 bp upstream
Tssr56359 transcription start site region 56359 1625 bp upstream
Tssr56360 transcription start site region 56360 1662 bp upstream
Tssr60846 transcription start site region 60846 973 bp upstream
Tssr60847 transcription start site region 60847 890 bp upstream
Tssr60848 transcription start site region 60848 within coordinates
Tssr60849 transcription start site region 60849 964 bp downstream
Tssr60850 transcription start site region 60850 1019 bp downstream
Tssr60851 transcription start site region 60851 1489 bp downstream
Tssr60852 transcription start site region 60852 1532 bp downstream
Tssr60853 transcription start site region 60853 1542 bp downstream
Tssr60854 transcription start site region 60854 1561 bp downstream
Tssr60855 transcription start site region 60855 1594 bp downstream
Tssr60856 transcription start site region 60856 1632 bp downstream
Tssr60857 transcription start site region 60857 1661 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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Send questions and comments to User Support. 		last database update
12/17/2024
MGI 6.24 		The Jackson Laboratory