AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar XinJiangDaYe / MS.gene53280


Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene53280.t1 MTR_3g005710 98.901 273 3 0 1 273 26 298 0.0 571
MS.gene53280.t1 MTR_8g080660 45.000 240 118 5 47 272 58 297 1.28e-68 214
MS.gene53280.t1 MTR_3g085270 46.977 215 109 4 51 260 60 274 1.62e-66 209
MS.gene53280.t1 MTR_4g485570 42.791 215 119 2 52 262 68 282 2.47e-58 188
MS.gene53280.t1 MTR_4g485560 42.925 212 117 2 55 262 21 232 3.54e-56 181
MS.gene53280.t1 MTR_7g029100 45.588 204 94 3 59 261 79 266 1.87e-55 180
MS.gene53280.t1 MTR_4g094895 38.839 224 131 4 41 258 60 283 8.84e-51 169
MS.gene53280.t1 MTR_4g102900 36.797 231 136 6 49 273 71 297 5.57e-42 146
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene53280.t1 AT4G09990 70.293 239 67 3 36 273 48 283 2.96e-128 366
MS.gene53280.t1 AT1G33800 67.886 246 77 2 28 273 47 290 6.04e-128 365
MS.gene53280.t1 AT1G09610 65.079 252 80 4 27 273 34 282 4.18e-122 350
MS.gene53280.t1 AT1G71690 58.889 270 93 6 9 273 39 295 1.92e-111 323
MS.gene53280.t1 AT1G67330 50.935 214 101 3 53 262 65 278 6.92e-74 228
MS.gene53280.t1 AT1G27930 49.528 212 104 2 53 261 62 273 8.42e-72 222
MS.gene53280.t1 AT5G67210 37.838 259 153 5 6 258 34 290 6.47e-53 175
MS.gene53280.t1 AT2G15440 37.054 224 131 5 58 272 81 303 1.05e-50 169
MS.gene53280.t1 AT3G50220 40.376 213 121 4 52 258 85 297 8.34e-50 167
MS.gene53280.t1 AT4G24910 34.536 194 120 4 74 260 104 297 2.23e-29 113

Find 67 sgRNAs with CRISPR-Local

Find 77 sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
CCTTGCAACTTCTTGGTCTT+TGG 0.164120 3.2:-619520 MS.gene53280:CDS
AAAATCACCTTGCAACTTCT+TGG 0.221414 3.2:-619527 MS.gene53280:CDS
AAATGTGGATTAGCACTTAA+AGG 0.223364 3.2:-619277 MS.gene53280:CDS
AGTGATGAACTAATGAAAAT+TGG 0.261741 3.2:-619346 MS.gene53280:CDS
AAATCAATTTCATGGACAAT+AGG 0.306327 3.2:+618973 None:intergenic
ATTGCTAGGAATAGAGAAAA+TGG 0.307486 3.2:-619142 MS.gene53280:CDS
TTTGTGCATGTTGGTGTTAT+AGG 0.311759 3.2:+619655 None:intergenic
CCAACGTTGGGAACTTTGAT+TGG 0.316396 3.2:+619407 None:intergenic
ACCAAGTCATAGGGCACGTT+TGG 0.318589 3.2:-619002 MS.gene53280:CDS
TCCATGTCTTGTCTTCTTCC+AGG 0.323320 3.2:+619440 None:intergenic
GGGTACTTCGATGGCGCGCC+GGG 0.332994 3.2:-619196 MS.gene53280:CDS
TTGTGCATGTTGGTGTTATA+GGG 0.335274 3.2:+619656 None:intergenic
AACTTCTTGGTCTTTGGATT+AGG 0.336773 3.2:-619514 MS.gene53280:CDS
ACTTCAATATACCAAGTCAT+AGG 0.375565 3.2:-619012 MS.gene53280:CDS
ATACAGCTGGTTTGATTGCT+AGG 0.379409 3.2:-619156 MS.gene53280:CDS
AATCAATTTCATGGACAATA+GGG 0.382464 3.2:+618974 None:intergenic
TGTTTGTTCATGATGTTGAT+AGG 0.396580 3.2:-619108 MS.gene53280:CDS
TGGTTGAGAAAATGAGAAAA+TGG 0.432620 3.2:+619765 None:intergenic
ATGAGTGCTATTTATACAGC+TGG 0.441985 3.2:-619169 MS.gene53280:CDS
TCTCTTGAATTGTTTGTTGA+GGG 0.447760 3.2:+619578 None:intergenic
CTTGTCTTCTTCCAGGAAAA+CGG 0.456850 3.2:+619447 None:intergenic
TGCATAATGGATTAATGCAT+TGG 0.464703 3.2:+619615 None:intergenic
TTCTTTGTGAAGGTTATTTG+AGG 0.465004 3.2:-619057 MS.gene53280:CDS
CCAAGTCATAGGGCACGTTT+GGG 0.466887 3.2:-619001 MS.gene53280:CDS
TCTTTGTGAAGGTTATTTGA+GGG 0.475343 3.2:-619056 MS.gene53280:CDS
GGGGTACTTCGATGGCGCGC+CGG 0.481478 3.2:-619197 MS.gene53280:CDS
CCCAAACGTGCCCTATGACT+TGG 0.483562 3.2:+619001 None:intergenic
ATCATGGTGGATGCACCAAC+GGG 0.492498 3.2:-619217 MS.gene53280:CDS
ATCTCTTGAATTGTTTGTTG+AGG 0.496296 3.2:+619577 None:intergenic
CATGATATGATTCCAACGTT+GGG 0.499455 3.2:+619395 None:intergenic
GGGAACAAGAAGGAAGGATT+AGG 0.499937 3.2:-619036 MS.gene53280:CDS
TGAAATTTATGATGTGGAAT+GGG 0.503077 3.2:-619245 MS.gene53280:CDS
TCCACATCATAAATTTCACT+TGG 0.503817 3.2:+619250 None:intergenic
TCCAAGTGAAATTTATGATG+TGG 0.511674 3.2:-619251 MS.gene53280:CDS
GTGAAATTTATGATGTGGAA+TGG 0.519138 3.2:-619246 MS.gene53280:CDS
GCACCAACGGGGTACTTCGA+TGG 0.521410 3.2:-619205 MS.gene53280:CDS
TGTGGAATGGGATGTGATCA+TGG 0.525871 3.2:-619233 MS.gene53280:CDS
CATCATTGAACTACGGTGGC+CGG 0.528792 3.2:-619471 MS.gene53280:CDS
ATTAATGCATTGGCTAATGA+TGG 0.530150 3.2:+619625 None:intergenic
CTTCTTCCAGGAAAACGGTC+CGG 0.530964 3.2:+619452 None:intergenic
GTGTTTGAAGTTGTGGTGAG+TGG 0.533171 3.2:+619745 None:intergenic
ACATGATATGATTCCAACGT+TGG 0.536855 3.2:+619394 None:intergenic
ATTTGAGGGAACAAGAAGGA+AGG 0.541340 3.2:-619042 MS.gene53280:CDS
ACTTCGATGGCGCGCCGGGG+AGG 0.549464 3.2:-619192 MS.gene53280:CDS
GAAAATTGGAATGGAACAAG+AGG 0.553174 3.2:-619332 MS.gene53280:CDS
GTTGTTGGTGTTTGAAGTTG+TGG 0.560811 3.2:+619738 None:intergenic
TCCTGGAAGAAGACAAGACA+TGG 0.567326 3.2:-619441 MS.gene53280:CDS
GTTGGTGTTATAGGGAGTGA+AGG 0.571518 3.2:+619664 None:intergenic
TGAACTAATGAAAATTGGAA+TGG 0.575241 3.2:-619341 MS.gene53280:CDS
AATGCATTGGCTAATGATGG+AGG 0.575854 3.2:+619628 None:intergenic
CCAATCAAAGTTCCCAACGT+TGG 0.578373 3.2:-619407 MS.gene53280:CDS
CTCTTGAATTGTTTGTTGAG+GGG 0.579049 3.2:+619579 None:intergenic
ATGCATTGGCTAATGATGGA+GGG 0.579142 3.2:+619629 None:intergenic
CTTCAATATACCAAGTCATA+GGG 0.581013 3.2:-619011 MS.gene53280:CDS
GGTTATTTGAGGGAACAAGA+AGG 0.586352 3.2:-619046 MS.gene53280:CDS
TGATGTTGATAGGAAAGTTG+AGG 0.590781 3.2:-619098 MS.gene53280:CDS
GATCATGGTGGATGCACCAA+CGG 0.605400 3.2:-619218 MS.gene53280:CDS
TTGGTGTTATAGGGAGTGAA+GGG 0.609114 3.2:+619665 None:intergenic
CCAAAGACCAAGAAGTTGCA+AGG 0.614426 3.2:+619520 None:intergenic
GCGCCATCGAAGTACCCCGT+TGG 0.633771 3.2:+619202 None:intergenic
TAAATAGCACTCATCCTCCC+CGG 0.635229 3.2:+619178 None:intergenic
ATGTGGACATCATTGAACTA+CGG 0.637354 3.2:-619478 MS.gene53280:CDS
TAGGTCATGATAGTCTCATG+TGG 0.666366 3.2:-619495 MS.gene53280:CDS
TGGACATCATTGAACTACGG+TGG 0.678674 3.2:-619475 MS.gene53280:CDS
GGTACTTCGATGGCGCGCCG+GGG 0.680331 3.2:-619195 MS.gene53280:CDS
GGAATGGGATGTGATCATGG+TGG 0.725748 3.2:-619230 MS.gene53280:CDS
TCATGGTGGATGCACCAACG+GGG 0.763267 3.2:-619216 MS.gene53280:CDS

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
!!! TGATTTTTTTTGAAGAACTT+TGG + chr3.2:619223-619242 None:intergenic 20.0%
! AGTGATGAACTAATGAAAAT+TGG - chr3.2:619417-619436 MS.gene53280:CDS 25.0%
! TGAAATTTATGATGTGGAAT+GGG - chr3.2:619518-619537 MS.gene53280:CDS 25.0%
! TGAACTAATGAAAATTGGAA+TGG - chr3.2:619422-619441 MS.gene53280:CDS 25.0%
!! TTTCTTGTGATGAGATTTTT+GGG + chr3.2:619053-619072 None:intergenic 25.0%
!!! AATCCACATTTTGAAAATCT+TGG + chr3.2:619477-619496 None:intergenic 25.0%
!!! ATCCACATTTTGAAAATCTT+GGG + chr3.2:619476-619495 None:intergenic 25.0%
!!! TGATTTTTGTTGTTGCATAA+TGG + chr3.2:619164-619183 None:intergenic 25.0%
ACTTCAATATACCAAGTCAT+AGG - chr3.2:619751-619770 MS.gene53280:CDS 30.0%
ATTGCTAGGAATAGAGAAAA+TGG - chr3.2:619621-619640 MS.gene53280:CDS 30.0%
CTTCAATATACCAAGTCATA+GGG - chr3.2:619752-619771 MS.gene53280:CDS 30.0%
GTGAAATTTATGATGTGGAA+TGG - chr3.2:619517-619536 MS.gene53280:CDS 30.0%
TCCAAGTGAAATTTATGATG+TGG - chr3.2:619512-619531 MS.gene53280:CDS 30.0%
TCCACATCATAAATTTCACT+TGG + chr3.2:619516-619535 None:intergenic 30.0%
TCTTTGTGAAGGTTATTTGA+GGG - chr3.2:619707-619726 MS.gene53280:CDS 30.0%
TGGTTGAGAAAATGAGAAAA+TGG + chr3.2:619001-619020 None:intergenic 30.0%
TGTTTGTTCATGATGTTGAT+AGG - chr3.2:619655-619674 MS.gene53280:CDS 30.0%
TTCTTTGTGAAGGTTATTTG+AGG - chr3.2:619706-619725 MS.gene53280:CDS 30.0%
! AGTTGAGGATCAATTTTCAA+AGG - chr3.2:619680-619699 MS.gene53280:CDS 30.0%
! ATCTCTTGAATTGTTTGTTG+AGG + chr3.2:619189-619208 None:intergenic 30.0%
! GTTTCTTGTGATGAGATTTT+TGG + chr3.2:619054-619073 None:intergenic 30.0%
! TCTCTTGAATTGTTTGTTGA+GGG + chr3.2:619188-619207 None:intergenic 30.0%
!! AAATGTGGATTAGCACTTAA+AGG - chr3.2:619486-619505 MS.gene53280:CDS 30.0%
!! ATTAATGCATTGGCTAATGA+TGG + chr3.2:619141-619160 None:intergenic 30.0%
!! TGCATAATGGATTAATGCAT+TGG + chr3.2:619151-619170 None:intergenic 30.0%
AAAATCACCTTGCAACTTCT+TGG - chr3.2:619236-619255 MS.gene53280:CDS 35.0%
ACATGATATGATTCCAACGT+TGG + chr3.2:619372-619391 None:intergenic 35.0%
ATGTGGACATCATTGAACTA+CGG - chr3.2:619285-619304 MS.gene53280:CDS 35.0%
CATGATATGATTCCAACGTT+GGG + chr3.2:619371-619390 None:intergenic 35.0%
GAAAATTGGAATGGAACAAG+AGG - chr3.2:619431-619450 MS.gene53280:CDS 35.0%
! AACTTCTTGGTCTTTGGATT+AGG - chr3.2:619249-619268 MS.gene53280:CDS 35.0%
! CTCTTGAATTGTTTGTTGAG+GGG + chr3.2:619187-619206 None:intergenic 35.0%
! GACCCAAGATTTTCAAAATG+TGG - chr3.2:619471-619490 MS.gene53280:CDS 35.0%
! TCAAAGGCTTTTCTTTGTGA+AGG - chr3.2:619696-619715 MS.gene53280:CDS 35.0%
! TGATGTTGATAGGAAAGTTG+AGG - chr3.2:619665-619684 MS.gene53280:CDS 35.0%
!! ATGAGTGCTATTTATACAGC+TGG - chr3.2:619594-619613 MS.gene53280:CDS 35.0%
!! TTGTGCATGTTGGTGTTATA+GGG + chr3.2:619110-619129 None:intergenic 35.0%
!! TTTGTGCATGTTGGTGTTAT+AGG + chr3.2:619111-619130 None:intergenic 35.0%
ATTTGAGGGAACAAGAAGGA+AGG - chr3.2:619721-619740 MS.gene53280:CDS 40.0%
CTTGTCTTCTTCCAGGAAAA+CGG + chr3.2:619319-619338 None:intergenic 40.0%
GGTTATTTGAGGGAACAAGA+AGG - chr3.2:619717-619736 MS.gene53280:CDS 40.0%
TAGGTCATGATAGTCTCATG+TGG - chr3.2:619268-619287 MS.gene53280:CDS 40.0%
! GTTGTTGGTGTTTGAAGTTG+TGG + chr3.2:619028-619047 None:intergenic 40.0%
!! AATGCATTGGCTAATGATGG+AGG + chr3.2:619138-619157 None:intergenic 40.0%
!! ATACAGCTGGTTTGATTGCT+AGG - chr3.2:619607-619626 MS.gene53280:CDS 40.0%
!! ATGCATTGGCTAATGATGGA+GGG + chr3.2:619137-619156 None:intergenic 40.0%
!! TTGGTGTTATAGGGAGTGAA+GGG + chr3.2:619101-619120 None:intergenic 40.0%
!!! TGAGATTTTTGGGTCGTTGT+TGG + chr3.2:619043-619062 None:intergenic 40.0%
CCAAAGACCAAGAAGTTGCA+AGG + chr3.2:619246-619265 None:intergenic 45.0%
CCAACGTTGGGAACTTTGAT+TGG + chr3.2:619359-619378 None:intergenic 45.0%
CCAATCAAAGTTCCCAACGT+TGG - chr3.2:619356-619375 MS.gene53280:CDS 45.0%
GGGAACAAGAAGGAAGGATT+AGG - chr3.2:619727-619746 MS.gene53280:CDS 45.0%
TAAATAGCACTCATCCTCCC+CGG + chr3.2:619588-619607 None:intergenic 45.0%
TCCATGTCTTGTCTTCTTCC+AGG + chr3.2:619326-619345 None:intergenic 45.0%
TCCTGGAAGAAGACAAGACA+TGG - chr3.2:619322-619341 MS.gene53280:CDS 45.0%
TGGACATCATTGAACTACGG+TGG - chr3.2:619288-619307 MS.gene53280:CDS 45.0%
TGTGGAATGGGATGTGATCA+TGG - chr3.2:619530-619549 MS.gene53280:CDS 45.0%
! CCTTGCAACTTCTTGGTCTT+TGG - chr3.2:619243-619262 MS.gene53280:CDS 45.0%
! GTGTTTGAAGTTGTGGTGAG+TGG + chr3.2:619021-619040 None:intergenic 45.0%
!! GTTGGTGTTATAGGGAGTGA+AGG + chr3.2:619102-619121 None:intergenic 45.0%
!!! GGAGGGTTTTTTGTGCATGT+TGG + chr3.2:619120-619139 None:intergenic 45.0%
ACCAAGTCATAGGGCACGTT+TGG - chr3.2:619761-619780 MS.gene53280:CDS 50.0%
CATCATTGAACTACGGTGGC+CGG - chr3.2:619292-619311 MS.gene53280:CDS 50.0%
CCAAGTCATAGGGCACGTTT+GGG - chr3.2:619762-619781 MS.gene53280:CDS 50.0%
CTTCTTCCAGGAAAACGGTC+CGG + chr3.2:619314-619333 None:intergenic 50.0%
GGAATGGGATGTGATCATGG+TGG - chr3.2:619533-619552 MS.gene53280:CDS 50.0%
!! ATCATGGTGGATGCACCAAC+GGG - chr3.2:619546-619565 MS.gene53280:CDS 50.0%
!! GATCATGGTGGATGCACCAA+CGG - chr3.2:619545-619564 MS.gene53280:CDS 50.0%
CCCAAACGTGCCCTATGACT+TGG + chr3.2:619765-619784 None:intergenic 55.0%
!! TCATGGTGGATGCACCAACG+GGG - chr3.2:619547-619566 MS.gene53280:CDS 55.0%
! GCACCAACGGGGTACTTCGA+TGG - chr3.2:619558-619577 MS.gene53280:CDS 60.0%
! GCGCCATCGAAGTACCCCGT+TGG + chr3.2:619564-619583 None:intergenic 65.0%
GGGTACTTCGATGGCGCGCC+GGG - chr3.2:619567-619586 MS.gene53280:CDS 70.0%
GGTACTTCGATGGCGCGCCG+GGG - chr3.2:619568-619587 MS.gene53280:CDS 70.0%
! CGGTGGCCGGACCGTTTTCC+TGG - chr3.2:619305-619324 MS.gene53280:CDS 70.0%
! GGGGTACTTCGATGGCGCGC+CGG - chr3.2:619566-619585 MS.gene53280:CDS 70.0%
ACTTCGATGGCGCGCCGGGG+AGG - chr3.2:619571-619590 MS.gene53280:CDS 75.0%


Chromosome Type Strat End Strand Name
chr3.2 gene 618982 619803 618982 ID=MS.gene53280
chr3.2 mRNA 618982 619803 618982 ID=MS.gene53280.t1;Parent=MS.gene53280
chr3.2 exon 618982 619803 618982 ID=MS.gene53280.t1.exon1;Parent=MS.gene53280.t1
chr3.2 CDS 618982 619803 618982 ID=cds.MS.gene53280.t1;Parent=MS.gene53280.t1
Gene Sequence

>MS.gene53280

ATGCTATTCAAATCATCCATTTTCTCATTTTCTCAACCACTCACCACAACTTCAAACACCAACAACGACCCAAAAATCTCATCACAAGAAACAGAAAAAATCACAAAATCTGAATGCCCTTCACTCCCTATAACACCAACATGCACAAAAAACCCTCCATCATTAGCCAATGCATTAATCCATTATGCAACAACAAAAATCACCCCTCAACAAACAATTCAAGAGATCTCAGTCTCAGCCAAAGTTCTTCAAAAAAAATCACCTTGCAACTTCTTGGTCTTTGGATTAGGTCATGATAGTCTCATGTGGACATCATTGAACTACGGTGGCCGGACCGTTTTCCTGGAAGAAGACAAGACATGGATTGAGCAAATCCAATCAAAGTTCCCAACGTTGGAATCATATCATGTTGTGTATGATACAAAAGTACATCAAAGTGATGAACTAATGAAAATTGGAATGGAACAAGAGGATTGTAAAAAAGTTTCTGACCCAAGATTTTCAAAATGTGGATTAGCACTTAAAGGATTTCCAAGTGAAATTTATGATGTGGAATGGGATGTGATCATGGTGGATGCACCAACGGGGTACTTCGATGGCGCGCCGGGGAGGATGAGTGCTATTTATACAGCTGGTTTGATTGCTAGGAATAGAGAAAATGGTGATACTGATGTGTTTGTTCATGATGTTGATAGGAAAGTTGAGGATCAATTTTCAAAGGCTTTTCTTTGTGAAGGTTATTTGAGGGAACAAGAAGGAAGGATTAGGCACTTCAATATACCAAGTCATAGGGCACGTTTGGGTAGACCCTATTGTCCATGA

Protein sequence

>MS.gene53280.t1

MLFKSSIFSFSQPLTTTSNTNNDPKISSQETEKITKSECPSLPITPTCTKNPPSLANALIHYATTKITPQQTIQEISVSAKVLQKKSPCNFLVFGLGHDSLMWTSLNYGGRTVFLEEDKTWIEQIQSKFPTLESYHVVYDTKVHQSDELMKIGMEQEDCKKVSDPRFSKCGLALKGFPSEIYDVEWDVIMVDAPTGYFDGAPGRMSAIYTAGLIARNRENGDTDVFVHDVDRKVEDQFSKAFLCEGYLREQEGRIRHFNIPSHRARLGRPYCP