AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar XinJiangDaYe / MS.gene69620

Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene69620.t1 MTR_5g028690 90.640 203 19 0 1 203 40 242 5.92e-132 370
MS.gene69620.t1 MTR_5g028930 62.312 199 74 1 2 200 423 620 2.11e-78 246
MS.gene69620.t1 MTR_5g028450 55.941 202 88 1 2 203 102 302 1.09e-74 227
MS.gene69620.t1 MTR_5g028190 52.041 196 89 1 2 197 343 533 1.16e-66 213
MS.gene69620.t1 MTR_5g028900 58.580 169 58 2 1 169 1 157 5.89e-62 190
MS.gene69620.t1 MTR_5g028130 48.223 197 97 1 2 198 147 338 9.80e-62 195
MS.gene69620.t1 MTR_5g028110 43.939 198 88 2 1 198 1 175 6.53e-53 167
MS.gene69620.t1 MTR_5g028840 43.216 199 113 0 1 199 1 199 1.53e-51 165
MS.gene69620.t1 MTR_6g017215 47.312 186 93 2 1 186 5 185 1.29e-48 159
MS.gene69620.t1 MTR_3g055310 40.323 186 105 3 2 187 156 335 7.93e-39 136
MS.gene69620.t1 MTR_3g055310 40.323 186 105 3 2 187 219 398 3.26e-38 136
MS.gene69620.t1 MTR_3g055310 40.323 186 105 3 2 187 271 450 7.37e-38 136
MS.gene69620.t1 MTR_3g055310 40.323 186 105 3 2 187 299 478 8.88e-38 136
MS.gene69620.t1 MTR_3g055310 40.323 186 105 3 2 187 297 476 9.91e-38 136
MS.gene69620.t1 MTR_3g055310 40.323 186 105 3 2 187 324 503 1.04e-37 136
MS.gene69620.t1 MTR_5g091220 41.899 179 100 2 2 180 412 586 6.06e-35 130
MS.gene69620.t1 MTR_2g438740 42.568 148 85 0 2 149 377 524 3.19e-33 125
MS.gene69620.t1 MTR_3g455790 40.260 154 92 0 2 155 407 560 5.31e-31 119
MS.gene69620.t1 MTR_2g438760 35.862 145 93 0 2 146 371 515 3.84e-25 102
MS.gene69620.t1 MTR_3g452020 34.010 197 122 4 1 194 231 422 5.21e-25 101
MS.gene69620.t1 MTR_3g452020 34.010 197 122 4 1 194 407 598 9.86e-25 101
MS.gene69620.t1 MTR_2g438400 34.518 197 120 5 2 198 356 543 3.20e-24 99.8
MS.gene69620.t1 MTR_2g438440 36.242 149 94 1 2 150 497 644 1.02e-23 98.6
MS.gene69620.t1 MTR_2g438720 36.111 144 91 1 2 145 503 645 1.19e-22 95.5
MS.gene69620.t1 MTR_2g438700 36.111 144 91 1 2 145 501 643 1.27e-22 95.1
MS.gene69620.t1 MTR_2g438640 36.806 144 90 1 2 145 399 541 2.48e-22 94.4
MS.gene69620.t1 MTR_2g438640 36.111 144 91 1 2 145 476 618 7.66e-22 92.8
MS.gene69620.t1 MTR_2g438640 36.111 144 91 1 2 145 502 644 7.96e-22 92.8
MS.gene69620.t1 MTR_2g020510 31.818 176 116 2 10 185 498 669 8.77e-20 87.0
MS.gene69620.t1 MTR_2g020470 34.247 146 96 0 4 149 474 619 1.80e-19 86.3
MS.gene69620.t1 MTR_2g017930 33.511 188 113 4 15 191 468 654 5.04e-18 82.0
MS.gene69620.t1 MTR_5g085360 32.414 145 96 1 2 146 542 684 3.49e-17 79.7
MS.gene69620.t1 MTR_2g020450 31.818 176 115 2 10 185 501 671 1.33e-16 77.8
MS.gene69620.t1 MTR_3g050500 30.864 162 109 2 16 177 547 705 4.36e-16 76.3
MS.gene69620.t1 MTR_3g058570 34.586 133 87 0 17 149 204 336 4.36e-15 73.2
MS.gene69620.t1 MTR_3g051060 26.471 170 122 2 17 186 553 719 4.11e-13 67.8
MS.gene69620.t1 MTR_5g085350 29.586 169 114 2 17 185 544 707 1.58e-12 65.9
MS.gene69620.t1 MTR_5g085350 29.586 169 114 2 17 185 557 720 1.63e-12 65.9
MS.gene69620.t1 MTR_5g085340 29.213 178 121 2 17 194 565 737 2.15e-12 65.5
MS.gene69620.t1 MTR_2g438580 33.735 83 54 1 16 98 2 83 3.75e-11 57.4
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene69620.t1 AT3G18670 41.026 195 109 5 2 195 394 583 1.61e-38 140
MS.gene69620.t1 AT3G18670 41.026 195 109 5 2 195 449 638 2.45e-38 139
MS.gene69620.t1 AT3G54065 42.500 160 82 3 2 154 22 178 2.46e-32 117
MS.gene69620.t1 AT5G04700 36.264 182 111 3 2 182 465 642 5.22e-31 119
MS.gene69620.t1 AT5G35810 37.427 171 97 3 2 166 137 303 1.80e-30 114
MS.gene69620.t1 AT5G04730 34.021 194 123 2 2 195 400 588 2.17e-28 111
MS.gene69620.t1 AT5G04690 35.165 182 111 3 2 182 423 598 3.39e-28 111
MS.gene69620.t1 AT5G04690 35.165 182 111 3 2 182 443 618 3.97e-28 110
MS.gene69620.t1 AT5G04690 35.165 182 111 3 2 182 457 632 4.16e-28 110
MS.gene69620.t1 AT5G04680 32.683 205 121 5 2 195 329 527 2.93e-26 105
MS.gene69620.t1 AT5G04680 32.683 205 121 5 2 195 438 636 4.66e-26 105
MS.gene69620.t1 AT5G04680 32.683 205 121 5 2 195 452 650 5.00e-26 105
MS.gene69620.t1 AT5G04680 32.683 205 121 5 2 195 481 679 5.50e-26 105

Find 42 sgRNAs with CRISPR-Local

Find 45 sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
TGCGCTTAATATGATCTTAA+AGG 0.220298 5.3:+17744564 MS.gene69620:CDS
ATTAAAAGCTGGAGAGAAAT+TGG 0.297808 5.3:+17744222 MS.gene69620:CDS
TCATCACTCTTAGTTATCAT+TGG 0.328549 5.3:+17744424 MS.gene69620:CDS
GGTGGACTCAATCAAGATAC+TGG 0.357252 5.3:+17744325 MS.gene69620:CDS
AGCTCTAGGTGGTCCGTTCT+AGG 0.357637 5.3:+17744598 MS.gene69620:CDS
GATACTATGAGAATGGTAAT+TGG 0.363048 5.3:-17744646 None:intergenic
CATCACTCTTAGTTATCATT+GGG 0.390704 5.3:+17744425 MS.gene69620:CDS
GCGCTTAATATGATCTTAAA+GGG 0.401984 5.3:+17744565 MS.gene69620:CDS
TGCTGCAGTCTTCACAATCC+CGG 0.411369 5.3:+17744303 MS.gene69620:CDS
AGGCCAACCATCAACTTTAT+CGG 0.431468 5.3:-17744493 None:intergenic
GAGACAGCTACATCTTATAT+AGG 0.432337 5.3:+17744250 MS.gene69620:CDS
AATTGTGCATCCGTCTTTGA+AGG 0.456658 5.3:+17744138 MS.gene69620:CDS
ATATGGTAATGCAAGAAGAT+AGG 0.459488 5.3:-17744352 None:intergenic
TGGGACTTATGATTGTAGAT+TGG 0.461738 5.3:-17744696 None:intergenic
GAAGCCTTATGACTTATTCA+CGG 0.511951 5.3:+17744183 MS.gene69620:CDS
CTAGGACCCATCGTGTCCCT+TGG 0.514396 5.3:+17744616 MS.gene69620:CDS
TAGAGAAAAGAAGAAGCATA+AGG 0.515969 5.3:-17744513 None:intergenic
GCTGCAGTCTTCACAATCCC+GGG 0.518933 5.3:+17744304 MS.gene69620:CDS
CATGAGGAGCTATTAAAAGC+TGG 0.524078 5.3:+17744211 MS.gene69620:CDS
CTTGAAATTTATGCAGGCGG+TGG 0.542249 5.3:+17744111 None:intergenic
TTACCATTCTCATAGTATCT+CGG 0.555999 5.3:+17744650 MS.gene69620:CDS
TAACCGAGATACTATGAGAA+TGG 0.560327 5.3:-17744653 None:intergenic
TTGCCGATAAAGTTGATGGT+TGG 0.563672 5.3:+17744490 MS.gene69620:CDS
AGGGGAACCACACCAGCTCT+AGG 0.566371 5.3:+17744584 MS.gene69620:CDS
GTATCTTGATTGAGTCCACC+CGG 0.589738 5.3:-17744322 None:intergenic
AGCTACATCTTATATAGGAG+TGG 0.595267 5.3:+17744255 MS.gene69620:CDS
AACACTACCAAGGGACACGA+TGG 0.602711 5.3:-17744623 None:intergenic
CGGACCACCTAGAGCTGGTG+TGG 0.612178 5.3:-17744591 None:intergenic
CGCTTAATATGATCTTAAAG+GGG 0.612198 5.3:+17744566 MS.gene69620:CDS
TAGAACGGACCACCTAGAGC+TGG 0.620022 5.3:-17744596 None:intergenic
GTGGACTCAATCAAGATACT+GGG 0.621092 5.3:+17744326 MS.gene69620:CDS
TTTCTTGAAATTTATGCAGG+CGG 0.626993 5.3:+17744108 None:intergenic
CATAAAATGCAATCAACATG+TGG 0.632969 5.3:-17744540 None:intergenic
TGGTAATTGGAACACTACCA+AGG 0.642454 5.3:-17744633 None:intergenic
GGACACGATGGGTCCTAGAA+CGG 0.645434 5.3:-17744611 None:intergenic
ACACTACCAAGGGACACGAT+GGG 0.646347 5.3:-17744622 None:intergenic
AATGATAACTAAGAGTGATG+AGG 0.647860 5.3:-17744422 None:intergenic
GGTAATTGGAACACTACCAA+GGG 0.656349 5.3:-17744632 None:intergenic
CTTATTCACGGAAAATCATG+AGG 0.662331 5.3:+17744195 MS.gene69620:CDS
GCAGTCTTCACAATCCCGGG+TGG 0.663739 5.3:+17744307 MS.gene69620:CDS
TATCTTGATTGAGTCCACCC+GGG 0.684403 5.3:-17744321 None:intergenic
GGAACCACACCAGCTCTAGG+TGG 0.727629 5.3:+17744587 MS.gene69620:CDS

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
!! AGAGAAAAATATTAAATATA+TGG - chr5.3:17744372-17744391 None:intergenic 10.0%
! AAGGAAAACAAAAATGAAGA+TGG + chr5.3:17744157-17744176 MS.gene69620:CDS 25.0%
!!! TTTTTGTTTTCCTTCAAAGA+CGG - chr5.3:17744151-17744170 None:intergenic 25.0%
AATGATAACTAAGAGTGATG+AGG - chr5.3:17744425-17744444 None:intergenic 30.0%
ATTAAAAGCTGGAGAGAAAT+TGG + chr5.3:17744222-17744241 MS.gene69620:CDS 30.0%
CATAAAATGCAATCAACATG+TGG - chr5.3:17744543-17744562 None:intergenic 30.0%
CATCACTCTTAGTTATCATT+GGG + chr5.3:17744425-17744444 MS.gene69620:CDS 30.0%
CGCTTAATATGATCTTAAAG+GGG + chr5.3:17744566-17744585 MS.gene69620:CDS 30.0%
GATACTATGAGAATGGTAAT+TGG - chr5.3:17744649-17744668 None:intergenic 30.0%
GCGCTTAATATGATCTTAAA+GGG + chr5.3:17744565-17744584 MS.gene69620:CDS 30.0%
TCATCACTCTTAGTTATCAT+TGG + chr5.3:17744424-17744443 MS.gene69620:CDS 30.0%
TGCGCTTAATATGATCTTAA+AGG + chr5.3:17744564-17744583 MS.gene69620:CDS 30.0%
TTACCATTCTCATAGTATCT+CGG + chr5.3:17744650-17744669 MS.gene69620:CDS 30.0%
! ATATGGTAATGCAAGAAGAT+AGG - chr5.3:17744355-17744374 None:intergenic 30.0%
! TAGAGAAAAGAAGAAGCATA+AGG - chr5.3:17744516-17744535 None:intergenic 30.0%
! TTTTCCGTGAATAAGTCATA+AGG - chr5.3:17744190-17744209 None:intergenic 30.0%
AGCTACATCTTATATAGGAG+TGG + chr5.3:17744255-17744274 MS.gene69620:CDS 35.0%
CTTATTCACGGAAAATCATG+AGG + chr5.3:17744195-17744214 MS.gene69620:CDS 35.0%
GAGACAGCTACATCTTATAT+AGG + chr5.3:17744250-17744269 MS.gene69620:CDS 35.0%
TAACCGAGATACTATGAGAA+TGG - chr5.3:17744656-17744675 None:intergenic 35.0%
TGGGACTTATGATTGTAGAT+TGG - chr5.3:17744699-17744718 None:intergenic 35.0%
! AGTTTTGCCGATAAAGTTGA+TGG + chr5.3:17744486-17744505 MS.gene69620:CDS 35.0%
! GAAGCCTTATGACTTATTCA+CGG + chr5.3:17744183-17744202 MS.gene69620:CDS 35.0%
AATTGTGCATCCGTCTTTGA+AGG + chr5.3:17744138-17744157 MS.gene69620:CDS 40.0%
AGGCCAACCATCAACTTTAT+CGG - chr5.3:17744496-17744515 None:intergenic 40.0%
CATGAGGAGCTATTAAAAGC+TGG + chr5.3:17744211-17744230 MS.gene69620:CDS 40.0%
GGTAATTGGAACACTACCAA+GGG - chr5.3:17744635-17744654 None:intergenic 40.0%
GTGGACTCAATCAAGATACT+GGG + chr5.3:17744326-17744345 MS.gene69620:CDS 40.0%
TGGTAATTGGAACACTACCA+AGG - chr5.3:17744636-17744655 None:intergenic 40.0%
!! TTGCCGATAAAGTTGATGGT+TGG + chr5.3:17744490-17744509 MS.gene69620:CDS 40.0%
GTATCTTGATTGAGTCCACC+CGG - chr5.3:17744325-17744344 None:intergenic 45.0%
TATCTTGATTGAGTCCACCC+GGG - chr5.3:17744324-17744343 None:intergenic 45.0%
! GGTGGACTCAATCAAGATAC+TGG + chr5.3:17744325-17744344 MS.gene69620:CDS 45.0%
AACACTACCAAGGGACACGA+TGG - chr5.3:17744626-17744645 None:intergenic 50.0%
ACACTACCAAGGGACACGAT+GGG - chr5.3:17744625-17744644 None:intergenic 50.0%
TGCTGCAGTCTTCACAATCC+CGG + chr5.3:17744303-17744322 MS.gene69620:CDS 50.0%
GCTGCAGTCTTCACAATCCC+GGG + chr5.3:17744304-17744323 MS.gene69620:CDS 55.0%
GGACACGATGGGTCCTAGAA+CGG - chr5.3:17744614-17744633 None:intergenic 55.0%
TAGAACGGACCACCTAGAGC+TGG - chr5.3:17744599-17744618 None:intergenic 55.0%
!! AGCTCTAGGTGGTCCGTTCT+AGG + chr5.3:17744598-17744617 MS.gene69620:CDS 55.0%
AGGGGAACCACACCAGCTCT+AGG + chr5.3:17744584-17744603 MS.gene69620:CDS 60.0%
CTAGGACCCATCGTGTCCCT+TGG + chr5.3:17744616-17744635 MS.gene69620:CDS 60.0%
GCAGTCTTCACAATCCCGGG+TGG + chr5.3:17744307-17744326 MS.gene69620:CDS 60.0%
!! GGAACCACACCAGCTCTAGG+TGG + chr5.3:17744587-17744606 MS.gene69620:CDS 60.0%
CGGACCACCTAGAGCTGGTG+TGG - chr5.3:17744594-17744613 None:intergenic 65.0%


Chromosome Type Strat End Strand Name
chr5.3 gene 17744121 17744732 17744121 ID=MS.gene69620
chr5.3 mRNA 17744121 17744732 17744121 ID=MS.gene69620.t1;Parent=MS.gene69620
chr5.3 exon 17744121 17744732 17744121 ID=MS.gene69620.t1.exon1;Parent=MS.gene69620.t1
chr5.3 CDS 17744121 17744732 17744121 ID=cds.MS.gene69620.t1;Parent=MS.gene69620.t1
Gene Sequence

>MS.gene69620

ATGCAGGCGGTGGAGAAAATTGTGCATCCGTCTTTGAAGGAAAACAAAAATGAAGATGGTAAGAAGCCTTATGACTTATTCACGGAAAATCATGAGGAGCTATTAAAAGCTGGAGAGAAATTGGCAAAAGAGACAGCTACATCTTATATAGGAGTGGCTTATATCATCATTACTATCATGTTTGCTGCAGTCTTCACAATCCCGGGTGGACTCAATCAAGATACTGGGTCACCTATCTTCTTGCATTACCATATATTTAATATTTTTCTCTTAGCAGATGCATTATCTATCATTGCTGCTGCCTCATCACTCTTAGTTATCATTGGGATTCACACATCAAACTACACTGCAAAAGATTTTCTCAAAGTTTTGCCGATAAAGTTGATGGTTGGCCTTATGCTTCTTCTTTTCTCTATCTGCCACATGTTGATTGCATTTTATGCTGCGCTTAATATGATCTTAAAGGGGAACCACACCAGCTCTAGGTGGTCCGTTCTAGGACCCATCGTGTCCCTTGGTAGTGTTCCAATTACCATTCTCATAGTATCTCGGTTACGCTTCATCTATAAGATTTTCCAATCTACAATCATAAGTCCCATTAGTTCTATTTAA
Protein sequence

>MS.gene69620.t1

MQAVEKIVHPSLKENKNEDGKKPYDLFTENHEELLKAGEKLAKETATSYIGVAYIIITIMFAAVFTIPGGLNQDTGSPIFLHYHIFNIFLLADALSIIAAASSLLVIIGIHTSNYTAKDFLKVLPIKLMVGLMLLLFSICHMLIAFYAALNMILKGNHTSSRWSVLGPIVSLGSVPITILIVSRLRFIYKIFQSTIISPISSI