AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar XinJiangDaYe / MS.gene08719

Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene08719.t1 MTR_4g059790 96.564 291 10 0 1 291 1 291 0.0 555
MS.gene08719.t1 MTR_4g059840 92.388 289 22 0 1 289 1 289 1.12e-179 497
MS.gene08719.t1 MTR_4g053380 80.919 283 50 3 1 279 2 284 2.30e-144 407
MS.gene08719.t1 MTR_2g093970 58.657 283 106 6 9 285 8 285 3.41e-95 283
MS.gene08719.t1 MTR_8g087450 56.667 210 78 3 22 220 17 224 1.42e-74 230
MS.gene08719.t1 MTR_2g017970 55.000 220 89 3 73 291 68 278 2.83e-73 226
MS.gene08719.t1 MTR_2g017960 53.731 268 113 4 5 272 2 258 5.16e-73 226
MS.gene08719.t1 MTR_2g093980 52.703 222 95 4 4 221 2 217 1.04e-70 220
MS.gene08719.t1 MTR_2g017950 43.871 310 125 11 1 283 1 288 3.09e-67 211
MS.gene08719.t1 MTR_8g087460 51.020 245 91 9 2 220 1 242 2.49e-66 210
MS.gene08719.t1 MTR_4g059780 55.330 197 79 3 30 222 48 239 2.77e-66 209
MS.gene08719.t1 MTR_8g087470 51.240 242 92 8 2 220 4 242 4.52e-66 209
MS.gene08719.t1 MTR_4g059720 49.767 215 75 5 7 221 8 189 2.67e-58 187
MS.gene08719.t1 MTR_2g093990 54.362 149 67 1 73 221 41 188 2.25e-50 167
MS.gene08719.t1 MTR_7g101080 44.304 158 86 2 65 221 32 188 2.25e-38 136
MS.gene08719.t1 MTR_2g090765 44.231 156 86 1 66 221 31 185 9.05e-30 113
MS.gene08719.t1 MTR_7g075453 32.778 180 116 2 66 245 177 351 2.80e-19 87.4
MS.gene08719.t1 MTR_5g098060 31.148 183 114 5 72 252 47 219 5.47e-17 79.3
MS.gene08719.t1 MTR_2g437700 30.539 167 103 5 72 234 194 351 1.98e-12 67.4
MS.gene08719.t1 MTR_5g098420 28.962 183 118 6 40 221 167 338 3.46e-12 66.6
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene08719.t1 AT5G03170 47.904 167 86 1 66 231 29 195 1.76e-47 159
MS.gene08719.t1 AT5G60490 54.000 150 67 2 73 221 39 187 5.08e-47 158
MS.gene08719.t1 AT2G20520 35.294 238 132 5 52 286 19 237 5.32e-29 111
MS.gene08719.t1 AT5G44130 37.000 200 114 7 72 268 35 225 3.64e-28 109
MS.gene08719.t1 AT1G03870 33.803 213 130 6 72 283 38 240 1.20e-25 102
MS.gene08719.t1 AT3G60900 29.444 180 122 2 66 245 183 357 9.47e-16 77.4
MS.gene08719.t1 AT2G04780 30.263 152 100 3 72 221 45 192 4.96e-13 67.8
MS.gene08719.t1 AT2G04780 30.263 152 100 3 72 221 45 192 4.96e-13 67.8
MS.gene08719.t1 AT2G45470 28.105 153 105 2 73 225 189 336 7.03e-11 62.8

Find 67 sgRNAs with CRISPR-Local

Find 77 sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
AACATTCAGTTCCACCTTTC+CGG 0.262448 4.2:+43850640 None:intergenic
ATCTGATGATGTATCTTTAT+CGG 0.286537 4.2:+43850412 None:intergenic
CCGGATGACAGCGCCTTTGC+AGG 0.296032 4.2:-43850803 MS.gene08719:CDS
GCTGTATCGGTTGAAGGTTC+TGG 0.299723 4.2:+43850449 None:intergenic
CCAACTCAATTCACAACTAT+TGG 0.341146 4.2:-43850858 MS.gene08719:CDS
TCAACAGTGCCTGCGGTGTC+AGG 0.354935 4.2:+43850956 None:intergenic
CGTCTTGCTATTTACAAAGT+TGG 0.358413 4.2:-43850539 MS.gene08719:CDS
ACATTCAGTTCCACCTTTCC+GGG 0.360231 4.2:+43850641 None:intergenic
AATGAAGGTACCAATGGTTT+AGG 0.368336 4.2:+43851004 None:intergenic
CCTGCAAAGGCGCTGTCATC+CGG 0.387064 4.2:+43850803 None:intergenic
AACCCTGTGAGAACACTTGC+TGG 0.387148 4.2:-43850671 MS.gene08719:CDS
TGGCAAAGTGCTTCTTCCTA+TGG 0.388422 4.2:-43850519 MS.gene08719:CDS
GCCTTTGCTGTATCGGTTGA+AGG 0.393378 4.2:+43850443 None:intergenic
GCAGCTGGTGTGGTTGGAGC+TGG 0.431548 4.2:+43851031 None:intergenic
GGCTCTATCAAGATTGTGTA+TGG 0.434280 4.2:-43850353 MS.gene08719:CDS
GCTGGTAGTGTAGGTTGTAT+AGG 0.438970 4.2:+43851049 None:intergenic
TGTATGCCTTCGCCTTTCTC+AGG 0.442653 4.2:+43850921 None:intergenic
TTTAGGCGCCTTTGCTGTAT+CGG 0.457045 4.2:+43850436 None:intergenic
AATCCAACTGAAAACAAGTC+TGG 0.463708 4.2:-43850374 MS.gene08719:CDS
GTCCATCGGAAAGAGAGTTA+AGG 0.464359 4.2:+43850765 None:intergenic
GGAGCTGCAGCTGGTGTGGT+TGG 0.478200 4.2:+43851025 None:intergenic
GATGTATCTTTATCGGCTTT+AGG 0.486485 4.2:+43850419 None:intergenic
GTGGTTGGAGCTGGTAGTGT+AGG 0.493589 4.2:+43851040 None:intergenic
TTCCTTAACTCTCTTTCCGA+TGG 0.505029 4.2:-43850767 MS.gene08719:CDS
TGTTTCTAAGGCACCGGGGA+AGG 0.505049 4.2:-43850486 MS.gene08719:CDS
GCCTTTGCAGGACTCAAAGC+AGG 0.505794 4.2:-43850791 MS.gene08719:CDS
CAACAGTGCCTGCGGTGTCA+GGG 0.508035 4.2:+43850957 None:intergenic
CCAATAGTTGTGAATTGAGT+TGG 0.509984 4.2:+43850858 None:intergenic
GCTCCAGCAAGTGTTCTCAC+AGG 0.519482 4.2:+43850668 None:intergenic
GGAAGTGTGAACATATCGAC+AGG 0.523735 4.2:-43850605 MS.gene08719:CDS
CTAGGTGACTCTGGTAATGA+AGG 0.531327 4.2:+43850989 None:intergenic
AGTGCCTGCGGTGTCAGGGG+TGG 0.531927 4.2:+43850961 None:intergenic
GCAGGCACTGTTGACATTGT+CGG 0.533562 4.2:-43850947 MS.gene08719:CDS
GAAGTGAACACAACAATCAA+TGG 0.536466 4.2:-43850581 MS.gene08719:CDS
TGGATTAACGATTCTTGCAC+CGG 0.540187 4.2:-43850822 MS.gene08719:CDS
AGCTGCAGCTCCTAAACCAT+TGG 0.544279 4.2:-43851014 MS.gene08719:CDS
GTGGAATCACTAGGTGACTC+TGG 0.548332 4.2:+43850980 None:intergenic
GAAACAGAAAAGAAATCCAT+AGG 0.554500 4.2:+43850503 None:intergenic
AGCAAGTGTTCTCACAGGGT+TGG 0.556533 4.2:+43850673 None:intergenic
GAACTGAATGTTGTGAGTTA+CGG 0.564207 4.2:-43850629 MS.gene08719:CDS
CATTGTCGGAATCCTGAGAA+AGG 0.566305 4.2:-43850933 MS.gene08719:CDS
AACTAGTATTGCAAGTGAGA+AGG 0.568425 4.2:+43851126 None:intergenic
CTCCAGCAAGTGTTCTCACA+GGG 0.574947 4.2:+43850669 None:intergenic
GATTCCACCCCTGACACCGC+AGG 0.578533 4.2:-43850965 MS.gene08719:CDS
TGCTGGAGCTAAACCCGGAA+AGG 0.580904 4.2:-43850654 MS.gene08719:CDS
TACATCATCAGATTCGTCGC+AGG 0.582113 4.2:-43850402 MS.gene08719:CDS
GTGTCAGGGGTGGAATCACT+AGG 0.582776 4.2:+43850971 None:intergenic
GGTTGTATAGGAGCAGTAGC+TGG 0.582821 4.2:+43851061 None:intergenic
TCAAGATTGTGTATGGAAAG+TGG 0.583724 4.2:-43850346 MS.gene08719:CDS
TCTGGTAATGAAGGTACCAA+TGG 0.585762 4.2:+43850998 None:intergenic
TATGGAAAGTGGATGTCACT+TGG 0.586667 4.2:-43850335 MS.gene08719:CDS
AACAGTGCCTGCGGTGTCAG+GGG 0.587591 4.2:+43850958 None:intergenic
TCCTGCTTTGAGTCCTGCAA+AGG 0.587782 4.2:+43850790 None:intergenic
ACACTTGCTGGAGCTAAACC+CGG 0.593390 4.2:-43850659 MS.gene08719:CDS
AATGGTTTAGGAGCTGCAGC+TGG 0.597225 4.2:+43851016 None:intergenic
TTTAGGAGCTGCAGCTGGTG+TGG 0.597546 4.2:+43851021 None:intergenic
CGGAATCCTGAGAAAGGCGA+AGG 0.598403 4.2:-43850927 MS.gene08719:CDS
ACCTTCAACCGATACAGCAA+AGG 0.611839 4.2:-43850444 MS.gene08719:CDS
GACAATGTCAACAGTGCCTG+CGG 0.617535 4.2:+43850949 None:intergenic
TGGAGCTAAACCCGGAAAGG+TGG 0.639885 4.2:-43850651 MS.gene08719:CDS
CTGAATGTTGTGAGTTACGG+AGG 0.642257 4.2:-43850626 MS.gene08719:CDS
ATACATAGTCTGAAATAACA+TGG 0.642288 4.2:+43850720 None:intergenic
TAGTTGAGATAAACTAGTGG+TGG 0.696029 4.2:+43851087 None:intergenic
GAAGTGTGAACATATCGACA+GGG 0.704878 4.2:-43850604 MS.gene08719:CDS
AAGTGTGAACATATCGACAG+GGG 0.734548 4.2:-43850603 MS.gene08719:CDS
TGATAGTTGAGATAAACTAG+TGG 0.789490 4.2:+43851084 None:intergenic
TTTCTGTTTCTAAGGCACCG+GGG 0.799733 4.2:-43850490 MS.gene08719:CDS

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
!! ATACATAGTCTGAAATAACA+TGG + chr4.2:43850732-43850751 None:intergenic 25.0%
!! ATCTGATGATGTATCTTTAT+CGG + chr4.2:43851040-43851059 None:intergenic 25.0%
GAAACAGAAAAGAAATCCAT+AGG + chr4.2:43850949-43850968 None:intergenic 30.0%
TGATAGTTGAGATAAACTAG+TGG + chr4.2:43850368-43850387 None:intergenic 30.0%
!!! GGATTTCTTTTCTGTTTCTA+AGG - chr4.2:43850951-43850970 MS.gene08719:CDS 30.0%
AACTAGTATTGCAAGTGAGA+AGG + chr4.2:43850326-43850345 None:intergenic 35.0%
AATCCAACTGAAAACAAGTC+TGG - chr4.2:43851075-43851094 MS.gene08719:CDS 35.0%
CCAACTCAATTCACAACTAT+TGG - chr4.2:43850591-43850610 MS.gene08719:CDS 35.0%
CCAATAGTTGTGAATTGAGT+TGG + chr4.2:43850594-43850613 None:intergenic 35.0%
GAACTGAATGTTGTGAGTTA+CGG - chr4.2:43850820-43850839 MS.gene08719:CDS 35.0%
GAAGTGAACACAACAATCAA+TGG - chr4.2:43850868-43850887 MS.gene08719:CDS 35.0%
TAGTTGAGATAAACTAGTGG+TGG + chr4.2:43850365-43850384 None:intergenic 35.0%
TCAAGATTGTGTATGGAAAG+TGG - chr4.2:43851103-43851122 MS.gene08719:CDS 35.0%
! CAACTATTGGCTACAAAAAC+AGG - chr4.2:43850604-43850623 MS.gene08719:CDS 35.0%
!! AATGAAGGTACCAATGGTTT+AGG + chr4.2:43850448-43850467 None:intergenic 35.0%
!! CGTCTTGCTATTTACAAAGT+TGG - chr4.2:43850910-43850929 MS.gene08719:CDS 35.0%
!! GATGTATCTTTATCGGCTTT+AGG + chr4.2:43851033-43851052 None:intergenic 35.0%
AACATTCAGTTCCACCTTTC+CGG + chr4.2:43850812-43850831 None:intergenic 40.0%
AAGTGTGAACATATCGACAG+GGG - chr4.2:43850846-43850865 MS.gene08719:CDS 40.0%
GAAGTGTGAACATATCGACA+GGG - chr4.2:43850845-43850864 MS.gene08719:CDS 40.0%
GGCTCTATCAAGATTGTGTA+TGG - chr4.2:43851096-43851115 MS.gene08719:CDS 40.0%
TATGGAAAGTGGATGTCACT+TGG - chr4.2:43851114-43851133 MS.gene08719:CDS 40.0%
TGGATTAACGATTCTTGCAC+CGG - chr4.2:43850627-43850646 MS.gene08719:CDS 40.0%
TTCCTTAACTCTCTTTCCGA+TGG - chr4.2:43850682-43850701 MS.gene08719:CDS 40.0%
! CTATTGGCTACAAAAACAGG+TGG - chr4.2:43850607-43850626 MS.gene08719:CDS 40.0%
!! TCTGGTAATGAAGGTACCAA+TGG + chr4.2:43850454-43850473 None:intergenic 40.0%
!!! CTTTTCTGTTTCTAAGGCAC+CGG - chr4.2:43850957-43850976 MS.gene08719:CDS 40.0%
!!! TTTTCTGTTTCTAAGGCACC+GGG - chr4.2:43850958-43850977 MS.gene08719:CDS 40.0%
ACATTCAGTTCCACCTTTCC+GGG + chr4.2:43850811-43850830 None:intergenic 45.0%
ACCTTCAACCGATACAGCAA+AGG - chr4.2:43851005-43851024 MS.gene08719:CDS 45.0%
CATTGTCGGAATCCTGAGAA+AGG - chr4.2:43850516-43850535 MS.gene08719:CDS 45.0%
CTGAATGTTGTGAGTTACGG+AGG - chr4.2:43850823-43850842 MS.gene08719:CDS 45.0%
GTCCATCGGAAAGAGAGTTA+AGG + chr4.2:43850687-43850706 None:intergenic 45.0%
TACATCATCAGATTCGTCGC+AGG - chr4.2:43851047-43851066 MS.gene08719:CDS 45.0%
! CAACTCGAGCTTTTGTCCAT+CGG + chr4.2:43850701-43850720 None:intergenic 45.0%
! CTAGGTGACTCTGGTAATGA+AGG + chr4.2:43850463-43850482 None:intergenic 45.0%
! GAAGGTTCTGGTGCCAAAAA+TGG + chr4.2:43850991-43851010 None:intergenic 45.0%
! GCTGGTAGTGTAGGTTGTAT+AGG + chr4.2:43850403-43850422 None:intergenic 45.0%
! GGAAGTGTGAACATATCGAC+AGG - chr4.2:43850844-43850863 MS.gene08719:CDS 45.0%
! TGGCAAAGTGCTTCTTCCTA+TGG - chr4.2:43850930-43850949 MS.gene08719:CDS 45.0%
! TTTAGGCGCCTTTGCTGTAT+CGG + chr4.2:43851016-43851035 None:intergenic 45.0%
!! GAGCCAGACTTGTTTTCAGT+TGG + chr4.2:43851081-43851100 None:intergenic 45.0%
!! TTTCTGTTTCTAAGGCACCG+GGG - chr4.2:43850959-43850978 MS.gene08719:CDS 45.0%
AACCCTGTGAGAACACTTGC+TGG - chr4.2:43850778-43850797 MS.gene08719:CDS 50.0%
AATGGTTTAGGAGCTGCAGC+TGG + chr4.2:43850436-43850455 None:intergenic 50.0%
AGCAAGTGTTCTCACAGGGT+TGG + chr4.2:43850779-43850798 None:intergenic 50.0%
AGCTGCAGCTCCTAAACCAT+TGG - chr4.2:43850435-43850454 MS.gene08719:CDS 50.0%
CTCCAGCAAGTGTTCTCACA+GGG + chr4.2:43850783-43850802 None:intergenic 50.0%
GACAATGTCAACAGTGCCTG+CGG + chr4.2:43850503-43850522 None:intergenic 50.0%
GGTTGTATAGGAGCAGTAGC+TGG + chr4.2:43850391-43850410 None:intergenic 50.0%
GTGGAATCACTAGGTGACTC+TGG + chr4.2:43850472-43850491 None:intergenic 50.0%
TGTATGCCTTCGCCTTTCTC+AGG + chr4.2:43850531-43850550 None:intergenic 50.0%
! ACACTTGCTGGAGCTAAACC+CGG - chr4.2:43850790-43850809 MS.gene08719:CDS 50.0%
! GCAGGCACTGTTGACATTGT+CGG - chr4.2:43850502-43850521 MS.gene08719:CDS 50.0%
! TCCTGCTTTGAGTCCTGCAA+AGG + chr4.2:43850662-43850681 None:intergenic 50.0%
!! GCCTTTGCTGTATCGGTTGA+AGG + chr4.2:43851009-43851028 None:intergenic 50.0%
!! GCTGTATCGGTTGAAGGTTC+TGG + chr4.2:43851003-43851022 None:intergenic 50.0%
CGGAATCCTGAGAAAGGCGA+AGG - chr4.2:43850522-43850541 MS.gene08719:CDS 55.0%
GCCAAAAATGGTGCCTTCCC+CGG + chr4.2:43850979-43850998 None:intergenic 55.0%
GCCTTTGCAGGACTCAAAGC+AGG - chr4.2:43850658-43850677 MS.gene08719:CDS 55.0%
GCTCCAGCAAGTGTTCTCAC+AGG + chr4.2:43850784-43850803 None:intergenic 55.0%
GTGTCAGGGGTGGAATCACT+AGG + chr4.2:43850481-43850500 None:intergenic 55.0%
TGCTGGAGCTAAACCCGGAA+AGG - chr4.2:43850795-43850814 MS.gene08719:CDS 55.0%
TGGAGCTAAACCCGGAAAGG+TGG - chr4.2:43850798-43850817 MS.gene08719:CDS 55.0%
TTTAGGAGCTGCAGCTGGTG+TGG + chr4.2:43850431-43850450 None:intergenic 55.0%
! GTGGTTGGAGCTGGTAGTGT+AGG + chr4.2:43850412-43850431 None:intergenic 55.0%
!! TGTTTCTAAGGCACCGGGGA+AGG - chr4.2:43850963-43850982 MS.gene08719:CDS 55.0%
!!! ACCGGGGAAGGCACCATTTT+TGG - chr4.2:43850975-43850994 MS.gene08719:CDS 55.0%
TCAACAGTGCCTGCGGTGTC+AGG + chr4.2:43850496-43850515 None:intergenic 60.0%
! AACAGTGCCTGCGGTGTCAG+GGG + chr4.2:43850494-43850513 None:intergenic 60.0%
! CAACAGTGCCTGCGGTGTCA+GGG + chr4.2:43850495-43850514 None:intergenic 60.0%
!! CCTGCAAAGGCGCTGTCATC+CGG + chr4.2:43850649-43850668 None:intergenic 60.0%
CCGGATGACAGCGCCTTTGC+AGG - chr4.2:43850646-43850665 MS.gene08719:CDS 65.0%
GATTCCACCCCTGACACCGC+AGG - chr4.2:43850484-43850503 MS.gene08719:CDS 65.0%
GCAGCTGGTGTGGTTGGAGC+TGG + chr4.2:43850421-43850440 None:intergenic 65.0%
GGAGCTGCAGCTGGTGTGGT+TGG + chr4.2:43850427-43850446 None:intergenic 65.0%
! AGTGCCTGCGGTGTCAGGGG+TGG + chr4.2:43850491-43850510 None:intergenic 70.0%


Chromosome Type Strat End Strand Name
chr4.2 gene 43850298 43851173 43850298 ID=MS.gene08719
chr4.2 mRNA 43850298 43851173 43850298 ID=MS.gene08719.t1;Parent=MS.gene08719
chr4.2 exon 43850298 43851173 43850298 ID=MS.gene08719.t1.exon1;Parent=MS.gene08719.t1
chr4.2 CDS 43850298 43851173 43850298 ID=cds.MS.gene08719.t1;Parent=MS.gene08719.t1
Gene Sequence

>MS.gene08719

ATGATTAGAAATCAATCTCTCTTGTCCTTCTCACTTGCAATACTAGTTTCTCTCTTGTATTCAACCACCACTAGTTTATCTCAACTATCACCAGCTACTGCTCCTATACAACCTACACTACCAGCTCCAACCACACCAGCTGCAGCTCCTAAACCATTGGTACCTTCATTACCAGAGTCACCTAGTGATTCCACCCCTGACACCGCAGGCACTGTTGACATTGTCGGAATCCTGAGAAAGGCGAAGGCATACAATGTCTTCATTCGACTCATGAAAACAACTCAATTGATCAACCAACTCAATTCACAACTATTGGCTACAAAAACAGGTGGATTAACGATTCTTGCACCGGATGACAGCGCCTTTGCAGGACTCAAAGCAGGATTCCTTAACTCTCTTTCCGATGGACAAAAGCTCGAGTTGTTACAGTTCCATGTTATTTCAGACTATGTATCTAGCTCTAACTTTGATACTCTAACCAACCCTGTGAGAACACTTGCTGGAGCTAAACCCGGAAAGGTGGAACTGAATGTTGTGAGTTACGGAGGAAGTGTGAACATATCGACAGGGGAAGTGAACACAACAATCAATGGCATTATATATACTGATAAACGTCTTGCTATTTACAAAGTTGGCAAAGTGCTTCTTCCTATGGATTTCTTTTCTGTTTCTAAGGCACCGGGGAAGGCACCATTTTTGGCACCAGAACCTTCAACCGATACAGCAAAGGCGCCTAAAGCCGATAAAGATACATCATCAGATTCGTCGCAGGTAATTAATCCAACTGAAAACAAGTCTGGCTCTATCAAGATTGTGTATGGAAAGTGGATGTCACTTGGACTTGTATTAGCTTTCGCGTCGATGATTCAAATCTGA
Protein sequence

>MS.gene08719.t1

MIRNQSLLSFSLAILVSLLYSTTTSLSQLSPATAPIQPTLPAPTTPAAAPKPLVPSLPESPSDSTPDTAGTVDIVGILRKAKAYNVFIRLMKTTQLINQLNSQLLATKTGGLTILAPDDSAFAGLKAGFLNSLSDGQKLELLQFHVISDYVSSSNFDTLTNPVRTLAGAKPGKVELNVVSYGGSVNISTGEVNTTINGIIYTDKRLAIYKVGKVLLPMDFFSVSKAPGKAPFLAPEPSTDTAKAPKADKDTSSDSSQVINPTENKSGSIKIVYGKWMSLGLVLAFASMIQI