annotate chasm_webservice/test-data/polyphen2_snp.txt @ 5:b9de63c72559 draft

Uploaded
author saketkc
date Mon, 14 Apr 2014 19:16:11 -0400
parents
children
Ignore whitespace changes - Everywhere: Within whitespace: At end of lines:
rev   line source
5
b9de63c72559 Uploaded
saketkc
parents:
diff changeset
1 #snp_pos str gene transcript ccid ccds cciden refa type ntpos nt1 nt2 flanks trv cpg jxdon jxacc exon cexon jxc dgn cdnpos frame cdn1 cdn2 aa1 aa2 aapos spmap spacc spname refs_acc dbrsid dbobsrvd dbavHet dbavHetSE dbRmPaPt comments
b9de63c72559 Uploaded
saketkc
parents:
diff changeset
2 chr22:30421786 + MTMR3 uc003agu.3 ? CCDS13871.1 1 A/T missense 142629 A T AC 1 0 -2313 -168 20/20 18/18 ? 0 1170 1 AAC ATC N I 1170 1 Q13615-2 MTMR3_HUMAN NP_694690 rs75623810 A/T 0.016564 0.089485 A>A>A
b9de63c72559 Uploaded
saketkc
parents:
diff changeset
3 chr22:30421786 + MTMR3 uc003agv.3 16552 CCDS13870.1 1 A/T missense 142629 A T AC 1 0 -3099 -168 20/20 18/18 ? 0 1198 1 AAC ATC N I 1198 1 Q13615 MTMR3_HUMAN NP_066576 rs75623810 A/T 0.016564 0.089485 A>A>A
b9de63c72559 Uploaded
saketkc
parents:
diff changeset
4 chr22:30421786 + MTMR3 uc003agw.3 ? CCDS46682.1 1 A/T missense 142629 A T AC 1 0 -3099 -168 19/19 17/17 ? 0 1161 1 AAC ATC N I 1161 1 Q13615-3 MTMR3_HUMAN NP_694691 rs75623810 A/T 0.016564 0.089485 A>A>A
b9de63c72559 Uploaded
saketkc
parents:
diff changeset
5 chr22:29446079 + ZNRF3 uc003aeg.2 16531 CCDS42999.1 1 A/G missense 166190 A G CC 0 2 +858 -895 8/9 7/8 ? 0 537 1 CAC CGC H R 637 1 Q9ULT6 ZNRF3_HUMAN NP_115549 rs62641746 A/G 0.030762 0.120144 A>A>A
b9de63c72559 Uploaded
saketkc
parents:
diff changeset
6 chr22:29446079 + ZNRF3 uc003aeh.1 ? CCDS42999.1 0.982 A/G missense 63040 A G CC 0 2 -1599 -895 7/7 7/7 ? 0 537 1 CAC CGC H R 637 1 Q9ULT6 ZNRF3_HUMAN NP_115549 rs62641746 A/G 0.030762 0.120144 A>A>A
b9de63c72559 Uploaded
saketkc
parents:
diff changeset
7 chr22:40814500 - MKL1 uc003ayv.1 ? CCDS14003.1 1 T/A missense 44939 A T CG 1 0 +123 -889 9/12 9/12 ? 0 648 0 AGC TGC S C 648 1 Q969V6 MKL1_HUMAN NP_065882 ? ? ? ? ?
b9de63c72559 Uploaded
saketkc
parents:
diff changeset
8 chr22:40814500 - MKL1 uc003ayv.1 ? CCDS14003.1 1 T/G missense 44939 A C CG 1 2 +123 -889 9/12 9/12 ? 0 648 0 AGC CGC S R 648 1 Q969V6 MKL1_HUMAN NP_065882 ? ? ? ? ?
b9de63c72559 Uploaded
saketkc
parents:
diff changeset
9 chr22:40814500 - MKL1 uc003ayw.1 16752 CCDS14003.1 1 T/A missense 218191 A T CG 1 0 +123 -889 12/15 9/12 ? 0 648 0 AGC TGC S C 648 1 Q969V6 MKL1_HUMAN NP_065882 ? ? ? ? ?
b9de63c72559 Uploaded
saketkc
parents:
diff changeset
10 chr22:40814500 - MKL1 uc003ayw.1 16752 CCDS14003.1 1 T/G missense 218191 A C CG 1 2 +123 -889 12/15 9/12 ? 0 648 0 AGC CGC S R 648 1 Q969V6 MKL1_HUMAN NP_065882 ? ? ? ? ?
b9de63c72559 Uploaded
saketkc
parents:
diff changeset
11 chr22:40814500 - MKL1 uc010gye.1 ? ? ? T/A missense 218191 A T CG 1 0 +123 -889 12/15 9/12 ? 0 648 0 AGC TGC S C 648 1 E7ER32 E7ER32_HUMAN ? ? ? ? ? ?
b9de63c72559 Uploaded
saketkc
parents:
diff changeset
12 chr22:40814500 - MKL1 uc010gye.1 ? ? ? T/G missense 218191 A C CG 1 2 +123 -889 12/15 9/12 ? 0 648 0 AGC CGC S R 648 1 E7ER32 E7ER32_HUMAN ? ? ? ? ? ?
b9de63c72559 Uploaded
saketkc
parents:
diff changeset
13 chr22:40814500 - MKL1 uc010gyf.1 ? ? ? T/A missense 218191 A T CG 1 0 +123 -889 11/14 8/11 ? 0 598 0 AGC TGC S C 598 1 B0QY83 B0QY83_HUMAN NP_065882 ? ? ? ? ?
b9de63c72559 Uploaded
saketkc
parents:
diff changeset
14 chr22:40814500 - MKL1 uc010gyf.1 ? ? ? T/G missense 218191 A C CG 1 2 +123 -889 11/14 8/11 ? 0 598 0 AGC CGC S R 598 1 B0QY83 B0QY83_HUMAN NP_065882 ? ? ? ? ?
b9de63c72559 Uploaded
saketkc
parents:
diff changeset
15 chr22:40815256 - MKL1 uc003ayv.1 ? CCDS14003.1 1 C/T missense 44183 G A CC 0 1 +879 -133 9/12 9/12 ? 0 396 0 GCC ACC A T 396 1 Q969V6 MKL1_HUMAN NP_065882 rs34736200 G/A 0.047299 0.14633 A>A>A
b9de63c72559 Uploaded
saketkc
parents:
diff changeset
16 chr22:40815256 - MKL1 uc003ayw.1 16752 CCDS14003.1 1 C/T missense 217435 G A CC 0 1 +879 -133 12/15 9/12 ? 0 396 0 GCC ACC A T 396 1 Q969V6 MKL1_HUMAN NP_065882 rs34736200 G/A 0.047299 0.14633 A>A>A
b9de63c72559 Uploaded
saketkc
parents:
diff changeset
17 chr22:40815256 - MKL1 uc010gye.1 ? ? ? C/T missense 217435 G A CC 0 1 +879 -133 12/15 9/12 ? 0 396 0 GCC ACC A T 396 1 E7ER32 E7ER32_HUMAN ? rs34736200 G/A 0.047299 0.14633 A>A>A
b9de63c72559 Uploaded
saketkc
parents:
diff changeset
18 chr22:40815256 - MKL1 uc010gyf.1 ? ? ? C/T missense 217435 G A CC 0 1 +879 -133 11/14 8/11 ? 0 346 0 GCC ACC A T 346 1 B0QY83 B0QY83_HUMAN NP_065882 rs34736200 G/A 0.047299 0.14633 A>A>A
b9de63c72559 Uploaded
saketkc
parents:
diff changeset
19 ## Totals:
b9de63c72559 Uploaded
saketkc
parents:
diff changeset
20 ## lines input 4
b9de63c72559 Uploaded
saketkc
parents:
diff changeset
21 ## lines skipped 0
b9de63c72559 Uploaded
saketkc
parents:
diff changeset
22 ## alleles annotated 17
b9de63c72559 Uploaded
saketkc
parents:
diff changeset
23 ## missense 17
b9de63c72559 Uploaded
saketkc
parents:
diff changeset
24 ## nonsense 0
b9de63c72559 Uploaded
saketkc
parents:
diff changeset
25 ## coding-synon 0
b9de63c72559 Uploaded
saketkc
parents:
diff changeset
26 ## intron 0
b9de63c72559 Uploaded
saketkc
parents:
diff changeset
27 ## utr-3 0
b9de63c72559 Uploaded
saketkc
parents:
diff changeset
28 ## utr-5 0