MGI_4.31 - dbSNP Load Detail

SNP Data in MGI

Provider
Version

NCBI dbSNP dbSNP Home
Build 128

Description

MGI loads mouse SNP data from dbSNP in conjunction with new dbSNP build releases. MGI loads mouse Reference SNPs (rs) and their corresponding submitted SNP assays (ss), where at least one ss assay of a Reference SNP has strains defined for the alleles submitted.
MGI does not load the following:
- SNPs (rs and ss) that have no submitted assays with defined strain/allele relationships.
- Submitted SNP (ss) strain alleles where the value of the strain allele is "N" (N= Allele determination failed for that strain).
- SNPs (rs) where all submitted SNP strain alleles have value "N".
- SNPs (rs and ss) that map to more than one chromosome in the C57BL/6J genome.
- SNPs (rs and ss) that map to more than two locations on the same chromosome in the C57BL/6J genome.
- SNPs (rs and ss) that are unmapped in the C57BL/6J genome.

dbSNP Build Statistics | dbSNP Reference SNPs not loaded (300+ Mb)

Statistics

All values are for data loaded into MGI.
Note: Some values for number of SNPs in MGI may differ from Provider values. See Description above for statement on SNP loads.

Total Assays (ss) 11,126,108

Total RefSNPs (rs) 10,089,692

Assays per RefSNP (ss/rs) 1.1027

Total Strains with SNP data 86

Assays (ss) per Submitter

PERLEGEN 8,096,767

ABI 2,509,161

WI 339,292

ROCHEBIO 86,684

CRAMUS 69,959

TWGNF 20,991

WIMOUSESNPS 1,992

KOKORO_BIOLOGY_GROUP 802

ERO 388

MITCCR 38

MATINLAB-MDACC 33

TIZUMI 1

Total Assays 11,126,108

RefSNPs (rs) per Strain by Chromosome

Strain Chr 1 Chr 2 Chr 3 Chr 4 Chr 5 Chr 6 Chr 7 Chr 8 Chr 9 Chr 10 Chr 11 Chr 12 Chr 13 Chr 14 Chr 15 Chr 16 Chr 17 Chr 18 Chr 19 Chr X Chr Y All Chromosomes Strain

All Strains 896,638 686,870 669,204 621,016 600,332 630,881 589,954 544,325 471,267 476,561 382,371 507,888 507,588 481,696 435,984 353,168 326,893 339,983 267,392 298,288 1,393 10,089,692 All Strains

A/J 804,263 603,394 598,804 542,708 545,648 563,411 532,543 486,180 426,329 424,827 327,302 451,456 455,050 431,882 393,710 314,434 291,293 306,449 241,797 267,074 1,291 9,009,845 A/J

DBA/2J 781,506 556,259 574,867 545,680 521,603 549,801 502,516 465,557 413,385 423,257 319,807 439,902 446,790 414,157 375,637 305,495 283,661 299,447 228,208 257,772 1,257 8,706,564 DBA/2J

129S1/SvImJ 689,924 513,641 519,308 479,886 463,077 502,555 429,965 407,621 359,141 393,691 266,510 391,568 400,467 350,908 330,943 279,193 241,567 263,760 211,927 234,025 1,199 7,730,876 129S1/SvImJ

BALB/cByJ 665,837 486,623 468,410 439,915 444,398 486,679 417,363 387,238 337,634 373,349 231,820 375,116 382,162 329,552 315,621 269,660 218,364 243,178 204,865 220,351 1,182 7,299,317 BALB/cByJ

AKR/J 642,804 473,044 467,578 435,590 444,012 484,383 415,483 387,539 343,380 370,826 227,257 369,176 376,883 333,114 318,462 264,079 221,157 240,286 198,916 224,642 1,025 7,239,636 AKR/J

C3H/HeJ 656,507 465,372 453,246 442,582 445,094 483,159 408,706 379,642 330,628 365,477 237,802 368,763 372,903 325,020 313,280 261,592 218,711 233,094 197,696 220,891 1,154 7,181,319 C3H/HeJ

NZW/LacJ 648,421 470,990 470,303 449,258 438,945 472,741 393,537 375,766 334,863 373,156 233,211 369,486 376,680 320,781 312,989 264,942 219,670 239,389 195,064 219,523 1,201 7,180,916 NZW/LacJ

BTBR T<+> tf/J 654,482 471,203 471,722 421,995 436,240 481,914 404,305 376,334 330,702 370,325 220,603 373,318 377,215 325,676 305,045 265,859 219,889 239,214 201,307 218,183 1,142 7,166,673 BTBR T<+> tf/J

KK/HlJ 643,345 451,695 460,200 440,743 435,004 477,032 400,294 381,583 337,617 371,252 229,893 374,330 377,042 328,448 311,421 264,178 220,662 234,321 200,128 226,162 1,224 7,166,574 KK/HlJ

FVB/NJ 651,422 477,376 458,404 448,251 429,575 476,831 406,095 385,274 332,163 362,833 229,389 373,620 373,187 321,506 307,639 258,609 212,224 238,302 198,870 221,908 1,103 7,164,581 FVB/NJ

NOD/ShiLtJ 643,489 467,861 463,288 450,456 425,927 480,370 405,070 383,995 331,679 364,594 229,603 369,688 375,680 319,328 309,284 246,759 213,961 236,428 199,974 227,628 1,066 7,146,128 NOD/ShiLtJ

WSB/EiJ 652,589 472,805 458,943 443,708 418,917 468,106 396,862 382,054 335,772 371,386 221,620 369,947 380,398 323,110 307,467 256,902 216,284 236,048 196,192 222,367 1,033 7,132,510 WSB/EiJ

CAST/EiJ 634,108 449,248 447,299 417,367 427,614 455,133 389,470 374,154 329,982 362,698 192,754 355,887 368,183 307,228 294,871 253,589 205,458 229,843 192,382 219,576 1,159 6,908,003 CAST/EiJ

MOLF/EiJ 626,142 458,705 445,157 431,383 407,014 464,662 390,610 374,765 318,322 346,144 214,987 362,659 362,103 312,324 296,725 242,228 202,789 227,381 187,405 208,477 1,173 6,881,155 MOLF/EiJ

PWD/PhJ 624,779 448,707 435,026 410,848 402,848 443,736 385,953 374,635 314,451 347,601 225,926 353,348 357,213 304,730 292,194 245,074 198,383 217,461 192,517 215,575 1,180 6,792,185 PWD/PhJ

C57BL/6J 226,855 187,255 179,973 161,225 149,189 130,110 167,470 143,772 123,938 79,177 134,629 116,559 110,002 148,313 113,837 80,492 101,789 88,514 58,741 60,390 28 2,562,258 C57BL/6J

129X1/SvJ 164,432 135,341 129,650 120,289 112,267 89,905 124,518 102,847 89,874 51,144 96,513 83,881 78,805 108,920 84,889 53,983 72,028 65,394 40,260 29,519 54 1,834,513 129X1/SvJ

CZECHII/EiJ 19,197 18,137 16,549 15,192 15,660 15,500 13,213 12,227 12,813 13,751 12,864 11,962 11,920 11,242 10,844 10,210 9,127 10,162 6,439 6,110 6 253,125 CZECHII/EiJ

SPRET/EiJ 8,692 5,202 3,265 3,232 12,728 4,623 9,124 3,630 4,412 2,220 6,634 2,417 2,121 2,484 2,755 3,375 3,914 3,095 3,058 2,668 9 89,658 SPRET/EiJ

NZB/BlNJ 8,620 4,798 2,762 2,918 13,486 4,436 8,801 3,520 3,610 1,731 6,775 1,965 1,586 2,482 2,297 3,245 3,594 3,181 2,317 2,407 6 84,537 NZB/BlNJ

MRL/MpJ 7,904 4,664 2,153 2,162 12,446 3,931 8,599 3,122 3,186 2,064 6,153 1,459 1,331 2,031 2,208 2,912 3,124 3,178 2,554 1,867 0 77,048 MRL/MpJ

B10.D2-Hc<0> H2<d> H2-T18<c>/oSnJ 7,647 4,424 2,029 2,160 12,592 3,681 8,103 2,378 3,533 1,726 5,953 1,720 1,231 1,718 2,281 2,801 3,134 3,258 2,325 1,929 0 74,623 B10.D2-Hc<0> H2<d> H2-T18<c>/oSnJ

BALB/cJ 7,180 4,673 2,152 2,112 11,511 3,695 8,037 2,610 3,415 2,057 5,809 1,582 1,253 2,092 2,255 2,943 3,230 3,142 2,215 2,255 0 74,218 BALB/cJ

A/HeJ 7,357 4,242 2,046 2,181 12,455 3,698 8,323 2,827 3,083 1,170 5,875 1,703 1,168 1,666 2,165 2,701 2,820 2,953 2,281 2,049 0 72,763 A/HeJ

129/Sv 5,344 4,715 2,890 2,409 5,841 4,541 8,423 3,295 4,154 2,380 3,132 2,107 1,834 2,284 2,378 3,046 3,505 930 2,485 2,448 4 68,145 129/Sv

NZW/Lac 4,255 4,440 1,983 1,791 5,178 3,602 7,981 3,086 3,082 1,278 3,180 1,718 1,167 1,677 2,113 2,831 3,267 469 2,458 1,934 0 57,490 NZW/Lac

SM/J 2,666 3,759 1,620 1,669 4,084 3,689 4,596 2,334 2,713 1,066 1,712 1,123 1,330 1,542 1,386 1,232 2,148 380 955 881 5 40,890 SM/J

LP/J 2,587 3,684 1,609 1,521 4,112 3,571 4,360 2,244 2,584 841 1,826 1,113 1,189 1,431 1,626 1,176 2,069 381 980 790 6 39,700 LP/J

LG/J 2,379 3,649 1,253 1,656 3,426 3,085 3,645 2,263 2,607 838 1,718 1,091 1,088 1,353 1,384 1,253 1,836 366 988 784 5 36,667 LG/J

FVB 1,516 2,586 870 803 3,261 2,929 3,149 927 1,950 286 939 551 674 771 1,135 771 1,557 0 575 285 0 25,535 FVB

PERA 1,549 2,536 890 783 3,055 2,801 3,359 905 1,975 302 794 598 696 717 1,069 781 1,566 0 542 300 0 25,218 PERA

BUB 1,421 2,574 880 719 3,270 2,907 3,129 958 1,942 275 783 594 735 723 1,178 767 1,583 0 463 296 0 25,197 BUB

MOLF 871 945 904 279 919 2,388 2,855 557 1,982 285 772 586 619 580 1,069 384 1,111 0 261 195 0 17,562 MOLF

MSM 329 797 504 153 0 305 2,042 327 1,216 262 639 400 513 361 758 465 680 0 258 0 0 10,009 MSM

DBA/1J 671 690 587 594 543 480 513 497 466 349 476 402 406 435 382 325 363 1,143 223 331 5 9,881 DBA/1J

CBA/J 716 711 618 625 579 530 547 521 476 368 610 427 427 452 397 341 394 369 232 356 6 9,702 CBA/J

SWR/J 682 710 597 645 584 518 541 538 476 379 531 420 435 469 407 347 398 366 228 367 6 9,644 SWR/J

MSM/Ms 590 646 545 566 507 446 502 498 447 335 461 383 384 407 367 312 349 1,115 216 324 5 9,405 MSM/Ms

BUB/BnJ 685 692 597 618 575 526 530 508 480 360 492 418 420 441 402 339 374 354 230 349 6 9,396 BUB/BnJ

JF1/Ms 574 644 539 564 527 458 495 479 434 344 464 390 390 416 362 305 347 1,110 214 323 6 9,385 JF1/Ms

SEA/GnJ 690 692 605 612 576 512 532 507 466 355 501 414 407 449 391 327 377 355 230 348 5 9,351 SEA/GnJ

C57BR/cdJ 678 690 605 612 578 508 526 514 474 365 495 421 406 447 386 336 380 353 227 341 5 9,347 C57BR/cdJ

RIIIS/J 684 705 594 610 571 513 516 513 469 365 495 417 406 444 394 334 381 341 229 351 5 9,337 RIIIS/J

C57BL/10J 676 693 600 622 570 504 521 510 470 364 492 429 407 437 394 332 375 355 225 344 6 9,326 C57BL/10J

SJL/J 678 698 610 605 565 503 516 510 475 353 487 410 422 449 384 326 373 354 230 349 6 9,303 SJL/J

C58/J 674 690 585 609 566 509 529 509 463 364 479 422 409 444 387 331 375 356 231 336 5 9,273 C58/J

PERA/EiJ 669 690 594 614 553 514 524 514 463 354 485 418 416 440 384 333 368 356 227 346 7 9,269 PERA/EiJ

C57L/J 661 682 588 600 560 517 518 509 475 366 492 420 420 444 378 320 373 351 228 349 4 9,255 C57L/J

CE/J 676 692 585 600 566 513 523 501 468 359 484 417 410 443 386 326 370 352 230 341 5 9,247 CE/J

DDK/Pas 671 699 597 611 573 509 521 503 461 356 478 411 415 442 392 335 368 333 229 333 5 9,242 DDK/Pas

MA/MyJ 636 693 587 584 558 506 524 504 456 364 492 409 416 446 395 339 382 355 232 347 5 9,230 MA/MyJ

C57BLKS/J 655 687 588 596 562 507 523 488 470 351 489 413 411 436 379 335 369 352 230 342 4 9,187 C57BLKS/J

PL/J 659 691 591 606 560 499 517 480 456 362 483 410 410 428 378 331 363 353 229 349 6 9,161 PL/J

I/LnJ 633 683 586 605 557 514 527 491 457 357 481 422 418 425 383 331 364 346 223 329 4 9,136 I/LnJ

ST/bJ 648 693 578 590 548 499 528 502 461 359 483 417 403 433 385 334 368 342 228 330 6 9,135 ST/bJ

NON/ShiLtJ 639 679 586 596 535 482 504 476 455 342 469 395 391 418 375 332 355 342 217 330 6 8,924 NON/ShiLtJ

ZALENDE/EiJ 623 674 563 567 534 471 502 465 437 344 463 395 384 424 361 325 364 332 229 339 6 8,802 ZALENDE/EiJ

MAI/Pas 599 630 530 554 493 455 492 477 422 328 443 387 376 400 355 306 339 317 210 305 5 8,423 MAI/Pas

PWD/Ph 600 623 525 543 496 423 486 456 429 321 441 383 384 409 340 301 342 309 200 318 5 8,334 PWD/Ph

SEG/Pas 506 544 433 469 417 367 399 383 370 257 382 326 302 349 301 261 282 283 180 265 4 7,080 SEG/Pas

AKR 146 141 103 135 122 134 125 86 91 79 167 92 110 73 81 81 48 94 43 26 0 1,977 AKR

C57BL/6 146 144 109 125 122 133 125 85 94 78 140 92 110 75 84 82 51 94 43 26 0 1,958 C57BL/6

C3H/He 147 141 107 125 120 136 122 86 90 74 146 90 108 76 83 84 51 96 43 25 0 1,950 C3H/He

A 146 143 106 126 122 135 126 85 93 76 141 90 108 76 85 82 48 94 42 22 0 1,946 A

BALB/cBy 146 141 104 124 122 132 125 85 90 74 143 91 108 76 81 79 50 95 43 25 0 1,934 BALB/cBy

129X1/Sv 145 140 102 120 121 130 122 80 89 76 143 91 108 75 83 78 46 93 43 25 0 1,910 129X1/Sv

DBA/2 145 136 105 121 119 131 123 84 88 78 135 86 109 76 80 79 49 90 43 25 0 1,902 DBA/2

SWN/Ms 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 796 0 0 0 796 SWN/Ms

NJL/Ms 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 796 0 0 0 796 NJL/Ms

KJR/Ms 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 796 0 0 0 796 KJR/Ms

HMI/Ms 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 796 0 0 0 796 HMI/Ms

CHD/Ms 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 796 0 0 0 796 CHD/Ms

BLG2/Ms 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 796 0 0 0 796 BLG2/Ms

BFM/2Ms 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 796 0 0 0 796 BFM/2Ms

BALB/cUcsd 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 796 0 0 0 796 BALB/cUcsd

AVZ/Ms 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 796 0 0 0 796 AVZ/Ms

PGN2/Ms 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 732 0 0 0 732 PGN2/Ms

MRL/Mp 44 40 24 21 23 31 37 18 19 3 26 6 9 6 9 9 7 8 7 0 0 347 MRL/Mp

BALB/c 45 40 24 19 24 31 37 18 18 3 25 6 7 6 8 8 8 8 7 0 0 342 BALB/c

129S6/SvEvTac 38 10 11 29 19 6 16 18 5 12 49 8 13 28 9 11 24 19 1 15 0 341 129S6/SvEvTac

B10.D2-H2<d> 44 39 24 17 24 31 37 18 18 3 26 6 7 6 9 8 8 7 7 0 0 339 B10.D2-H2<d>

A/He 45 40 24 19 23 30 36 18 18 3 26 5 6 6 9 8 8 8 7 0 0 339 A/He

129S4/SvJae 0 0 0 0 0 1 0 0 0 0 170 0 0 0 0 0 0 0 0 0 0 171 129S4/SvJae

NZB/BlN 0 0 0 0 0 0 0 0 0 0 0 0 2 0 0 0 0 1 0 0 0 3 NZB/BlN

TSOD 0 1 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 1 TSOD

BALB/cA 0 1 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 1 BALB/cA

Strain Chr 1 Chr 2 Chr 3 Chr 4 Chr 5 Chr 6 Chr 7 Chr 8 Chr 9 Chr 10 Chr 11 Chr 12 Chr 13 Chr 14 Chr 15 Chr 16 Chr 17 Chr 18 Chr 19 Chr X Chr Y All Chromosomes Strain

Contributing Projects: Mouse Genome Database (MGD), Gene Expression Database (GXD), Mouse Tumor Biology (MTB), Gene Ontology (GO), MouseCyc
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