AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar XinJiangDaYe / MS.gene24422

Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene24422.t1 MTR_1g019240 93.491 169 9 2 2 169 100 267 1.23e-111 318
MS.gene24422.t1 MTR_1g019890 87.069 116 13 2 48 162 1 115 4.20e-67 201
MS.gene24422.t1 MTR_5g017040 73.810 84 17 2 2 83 120 200 1.52e-30 113
MS.gene24422.t1 MTR_7g099540 59.211 76 20 1 2 77 267 331 1.40e-20 87.8
MS.gene24422.t1 MTR_1g084980 57.895 76 32 0 2 77 477 552 1.42e-20 88.2
MS.gene24422.t1 MTR_1g069155 59.211 76 20 1 2 77 332 396 1.93e-20 87.4
MS.gene24422.t1 MTR_7g099540 57.895 76 27 1 2 77 267 337 2.21e-20 87.4
MS.gene24422.t1 MTR_3g449770 65.079 63 20 1 2 64 324 384 5.26e-19 83.6
MS.gene24422.t1 MTR_7g111320 57.333 75 28 1 2 72 447 521 6.90e-17 77.4
MS.gene24422.t1 MTR_7g110810 66.667 48 16 0 2 49 217 264 1.82e-15 73.2
MS.gene24422.t1 MTR_4g131160 62.963 54 19 1 2 54 211 264 1.19e-14 70.9
MS.gene24422.t1 MTR_4g131160 62.963 54 19 1 2 54 214 267 1.30e-14 70.9
MS.gene24422.t1 MTR_5g005110 45.161 62 34 0 3 64 240 301 4.45e-14 68.9
MS.gene24422.t1 MTR_3g103030 45.161 62 34 0 3 64 245 306 2.42e-13 66.6
MS.gene24422.t1 MTR_1g106470 41.935 62 36 0 3 64 212 273 6.46e-13 65.1
MS.gene24422.t1 MTR_1g080890 58.333 48 20 0 2 49 208 255 1.25e-12 64.7
MS.gene24422.t1 MTR_1g106460 41.935 62 36 0 3 64 254 315 1.42e-12 64.7
MS.gene24422.t1 MTR_1g106480 53.061 49 23 0 1 49 83 131 1.58e-12 62.4
MS.gene24422.t1 MTR_1g018090 42.373 59 34 0 3 61 290 348 2.87e-11 60.8
MS.gene24422.t1 MTR_7g017320 34.328 134 70 6 2 123 59 186 5.27e-11 60.1
MS.gene24422.t1 MTR_7g017320 34.328 134 70 6 2 123 59 186 7.04e-11 59.7
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene24422.t1 AT4G36930 82.540 63 11 0 2 64 206 268 1.87e-29 111
MS.gene24422.t1 AT5G67110 76.471 68 16 0 2 69 102 169 1.22e-27 103
MS.gene24422.t1 AT1G09530 61.972 71 19 1 2 72 352 414 3.15e-21 89.7
MS.gene24422.t1 AT1G09530 61.972 71 19 1 2 72 352 414 3.15e-21 89.7
MS.gene24422.t1 AT1G09530 61.972 71 19 1 2 72 352 414 3.15e-21 89.7
MS.gene24422.t1 AT1G09530 61.972 71 19 1 2 72 352 414 3.15e-21 89.7
MS.gene24422.t1 AT1G09530 61.972 71 19 1 2 72 352 414 3.15e-21 89.7
MS.gene24422.t1 AT1G09530 61.972 71 19 1 2 72 352 414 3.15e-21 89.7
MS.gene24422.t1 AT2G20180 70.833 48 14 0 2 49 222 269 9.30e-18 79.7
MS.gene24422.t1 AT2G20180 70.833 48 14 0 2 49 222 269 9.30e-18 79.7
MS.gene24422.t1 AT2G20180 70.833 48 14 0 2 49 222 269 9.30e-18 79.7
MS.gene24422.t1 AT2G20180 70.833 48 14 0 2 49 293 340 1.51e-17 79.3
MS.gene24422.t1 AT2G20180 70.833 48 14 0 2 49 293 340 1.51e-17 79.3
MS.gene24422.t1 AT2G20180 70.833 48 14 0 2 49 293 340 1.51e-17 79.3
MS.gene24422.t1 AT2G20180 70.833 48 14 0 2 49 293 340 1.51e-17 79.3
MS.gene24422.t1 AT4G00050 70.833 48 14 0 2 49 120 167 1.72e-17 78.2
MS.gene24422.t1 AT4G00050 70.833 48 14 0 2 49 222 269 2.28e-17 78.6
MS.gene24422.t1 AT4G00050 70.833 48 14 0 2 49 222 269 2.48e-17 78.6
MS.gene24422.t1 AT2G46970 35.583 163 70 6 2 136 216 371 4.48e-17 77.8
MS.gene24422.t1 AT2G46970 35.583 163 70 6 2 136 207 362 4.58e-17 77.8
MS.gene24422.t1 AT2G46970 35.583 163 70 6 2 136 238 393 4.88e-17 77.8
MS.gene24422.t1 AT2G20180 70.213 47 14 0 2 48 293 339 8.74e-17 76.6
MS.gene24422.t1 AT2G24260 66.667 48 16 0 2 49 50 97 7.45e-16 72.8
MS.gene24422.t1 AT2G24260 66.667 48 16 0 2 49 153 200 1.81e-15 72.8
MS.gene24422.t1 AT5G58010 52.055 73 28 2 2 67 114 186 4.62e-15 71.2
MS.gene24422.t1 AT4G30980 62.963 54 19 1 2 54 145 198 5.66e-15 71.2
MS.gene24422.t1 AT4G30980 62.963 54 19 1 2 54 193 246 9.72e-15 70.9
MS.gene24422.t1 AT4G28800 55.556 63 27 1 2 64 264 325 1.10e-14 70.9
MS.gene24422.t1 AT4G28800 63.265 49 18 0 2 50 276 324 4.29e-14 69.3
MS.gene24422.t1 AT1G27740 46.774 62 33 0 3 64 183 244 7.53e-14 67.8
MS.gene24422.t1 AT4G28790 62.500 48 18 0 2 49 286 333 1.02e-13 68.2
MS.gene24422.t1 AT5G67110 72.340 47 13 0 23 69 101 147 1.70e-13 65.5
MS.gene24422.t1 AT4G28790 58.824 51 21 0 2 52 286 336 3.24e-13 66.6
MS.gene24422.t1 AT2G14760 43.750 64 36 0 1 64 264 327 3.73e-13 66.2
MS.gene24422.t1 AT3G59060 50.000 64 29 1 9 72 272 332 5.68e-13 66.2
MS.gene24422.t1 AT2G43010 54.688 64 24 1 9 72 273 331 5.92e-13 65.9
MS.gene24422.t1 AT4G33880 43.548 62 35 0 3 64 282 343 6.33e-13 65.9
MS.gene24422.t1 AT3G59060 50.000 64 29 1 9 72 272 332 6.45e-13 65.9
MS.gene24422.t1 AT3G59060 50.000 64 29 1 9 72 272 332 6.45e-13 65.9
MS.gene24422.t1 AT3G59060 50.000 64 29 1 9 72 272 332 6.45e-13 65.9
MS.gene24422.t1 AT2G43010 54.688 64 24 1 9 72 273 331 6.73e-13 65.9
MS.gene24422.t1 AT2G43010 54.688 64 24 1 9 72 273 331 6.81e-13 65.9
MS.gene24422.t1 AT2G43010 54.688 64 24 1 9 72 280 338 7.40e-13 65.9
MS.gene24422.t1 AT2G43010 54.688 64 24 1 9 72 315 373 8.38e-13 65.5
MS.gene24422.t1 AT3G62090 55.556 54 24 0 2 55 180 233 8.81e-13 65.5
MS.gene24422.t1 AT3G62090 55.556 54 24 0 2 55 197 250 1.05e-12 65.1
MS.gene24422.t1 AT4G28815 55.102 49 22 0 2 50 83 131 1.23e-12 63.9
MS.gene24422.t1 AT2G14760 41.935 62 36 0 3 64 253 314 2.54e-12 63.9
MS.gene24422.t1 AT4G28815 55.102 49 22 0 2 50 159 207 2.75e-12 63.5
MS.gene24422.t1 AT5G43175 40.323 62 37 0 3 64 148 209 8.33e-12 61.6
MS.gene24422.t1 AT1G02340 55.319 47 21 0 3 49 137 183 1.52e-11 61.6
MS.gene24422.t1 AT1G02340 55.319 47 21 0 3 49 144 190 1.61e-11 61.6

Find 35 sgRNAs with CRISPR-Local

Find 57 sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
TACATCACCTTGTTAGAATT+TGG 0.111527 1.1:+3808720 None:intergenic
CAACATGCCACAACTGATTA+TGG 0.244370 1.1:-3807479 MS.gene24422:CDS
ATTAATTCTGCAGATGTTAA+TGG 0.295896 1.1:-3807882 MS.gene24422:intron
TTTGACATGCTGCATTGTTC+TGG 0.325901 1.1:+3807683 None:intergenic
TTGCATCCAATGTCGTTATC+AGG 0.395094 1.1:-3807842 MS.gene24422:CDS
GCGAAATATTCATTGTTAGC+AGG 0.465887 1.1:+3807725 None:intergenic
AAGCTGCTTTAAATATTCAA+TGG 0.465998 1.1:+3808541 None:intergenic
AATCTTGATGAGGGTAATAG+TGG 0.470391 1.1:-3807779 MS.gene24422:CDS
TCAAACATGAACCTTAATAG+AGG 0.484571 1.1:+3807595 None:intergenic
ATTATGGATACAACAAGGAT+TGG 0.493878 1.1:-3807463 MS.gene24422:CDS
AATATTCATTGTTAGCAGGC+GGG 0.525894 1.1:+3807729 None:intergenic
TTTAATGAATGGAACAGAGA+AGG 0.528645 1.1:-3808788 None:intergenic
ATATTCATTGTTAGCAGGCG+GGG 0.547212 1.1:+3807730 None:intergenic
AATGAATGGAACAGAGAAGG+AGG 0.550832 1.1:-3808785 None:intergenic
CAGATGTTAATGGTGAGAAA+TGG 0.552941 1.1:-3807872 MS.gene24422:CDS
GCCTACGATGTTTCCTCAGA+CGG 0.570653 1.1:-3807810 MS.gene24422:CDS
GTTTATGACACATCAGAAGA+AGG 0.583034 1.1:+3807433 None:intergenic
AAATATTCATTGTTAGCAGG+CGG 0.584130 1.1:+3807728 None:intergenic
TCAATCTGTAATCATACCCT+CGG 0.590382 1.1:-3807660 MS.gene24422:CDS
TCAGTTGTGGCATGTTGTTG+TGG 0.593873 1.1:+3807485 None:intergenic
TTTAATTCCAAATTCTAACA+AGG 0.599565 1.1:-3808727 MS.gene24422:intron
GGAGTTGTTCAATCTTGATG+AGG 0.602645 1.1:-3807789 MS.gene24422:CDS
AGAGGTTTGAAAACTTGATG+AGG 0.611385 1.1:+3807613 None:intergenic
TGAAGCTAAATTTGTCGCCG+AGG 0.617569 1.1:+3807643 None:intergenic
GAGTTGTTCAATCTTGATGA+GGG 0.619788 1.1:-3807788 MS.gene24422:CDS
GATCCTCCTGATAACGACAT+TGG 0.621566 1.1:+3807836 None:intergenic
GTTGTATCCATAATCAGTTG+TGG 0.626275 1.1:+3807472 None:intergenic
AGATTGAACAACTCCGTCTG+AGG 0.640189 1.1:+3807797 None:intergenic
GAAGCTAAATTTGTCGCCGA+GGG 0.651831 1.1:+3807644 None:intergenic
CTAACAATGAATATTTCGCA+CGG 0.657592 1.1:-3807721 MS.gene24422:CDS
CATCCAATGTCGTTATCAGG+AGG 0.666461 1.1:-3807839 MS.gene24422:CDS
TGTCGTTATCAGGAGGATCG+CGG 0.666590 1.1:-3807832 MS.gene24422:CDS
TCCGTCTGAGGAAACATCGT+AGG 0.687058 1.1:+3807809 None:intergenic
AACTGATTATGGATACAACA+AGG 0.695121 1.1:-3807468 MS.gene24422:CDS
TAAAGCTTCAATGTTAGACG+AGG 0.699347 1.1:-3808564 MS.gene24422:CDS

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
!! ATGTTAAATACTATTATGAA+TGG - chr1.1:3807755-3807774 MS.gene24422:CDS 15.0%
!! TATCTTATGTACATATTATA+AGG + chr1.1:3807936-3807955 None:intergenic 15.0%
!!! AAGATATTTTCAACTTATTT+TGG - chr1.1:3807950-3807969 MS.gene24422:intron 15.0%
!! ACTTATAGCTTATATGAAAA+CGG - chr1.1:3808002-3808021 MS.gene24422:intron 20.0%
!! TTTAATTCCAAATTCTAACA+AGG - chr1.1:3807488-3807507 MS.gene24422:CDS 20.0%
!!! TATTTTACTTCTTATTCTTG+TGG - chr1.1:3807586-3807605 MS.gene24422:intron 20.0%
! AATTTATCCAAAGTGACTAT+AGG - chr1.1:3808267-3808286 MS.gene24422:intron 25.0%
! ACTTATTTACGCTTATTTAC+TGG - chr1.1:3807864-3807883 MS.gene24422:CDS 25.0%
! ATTAATTCTGCAGATGTTAA+TGG - chr1.1:3808333-3808352 MS.gene24422:intron 25.0%
!! AAGCTGCTTTAAATATTCAA+TGG + chr1.1:3807677-3807696 None:intergenic 25.0%
!! AAGTTTTCAAACCTCTATTA+AGG - chr1.1:3808609-3808628 MS.gene24422:intron 25.0%
AAATATTCATTGTTAGCAGG+CGG + chr1.1:3808490-3808509 None:intergenic 30.0%
AACTGATTATGGATACAACA+AGG - chr1.1:3808747-3808766 MS.gene24422:CDS 30.0%
AAGTAACAATTAGTCCATGA+TGG + chr1.1:3808302-3808321 None:intergenic 30.0%
ATTATGGATACAACAAGGAT+TGG - chr1.1:3808752-3808771 MS.gene24422:CDS 30.0%
CTAACAATGAATATTTCGCA+CGG - chr1.1:3808494-3808513 MS.gene24422:intron 30.0%
TAAGCGTAAATAAGTCAATC+CGG + chr1.1:3807859-3807878 None:intergenic 30.0%
TACATCACCTTGTTAGAATT+TGG + chr1.1:3807498-3807517 None:intergenic 30.0%
TCAAACATGAACCTTAATAG+AGG + chr1.1:3808623-3808642 None:intergenic 30.0%
TTGACAATTTGACATGGTTA+AGG + chr1.1:3807803-3807822 None:intergenic 30.0%
! AGTGTTGTTGATGAAACAAA+AGG - chr1.1:3807822-3807841 MS.gene24422:CDS 30.0%
! ATTAGTCCATGATGGAATAA+TGG + chr1.1:3808294-3808313 None:intergenic 30.0%
!! AACTCTTATTTCTGATGTGA+AGG - chr1.1:3808697-3808716 MS.gene24422:intron 30.0%
AATATTCATTGTTAGCAGGC+GGG + chr1.1:3808489-3808508 None:intergenic 35.0%
AATCTTGATGAGGGTAATAG+TGG - chr1.1:3808436-3808455 MS.gene24422:intron 35.0%
AGAGGTTTGAAAACTTGATG+AGG + chr1.1:3808605-3808624 None:intergenic 35.0%
ATAGGTCCATTATTCCATCA+TGG - chr1.1:3808285-3808304 MS.gene24422:intron 35.0%
CAACACTTGACAATTTGACA+TGG + chr1.1:3807809-3807828 None:intergenic 35.0%
CAGATGTTAATGGTGAGAAA+TGG - chr1.1:3808343-3808362 MS.gene24422:intron 35.0%
GAGTTGTTCAATCTTGATGA+GGG - chr1.1:3808427-3808446 MS.gene24422:intron 35.0%
GATGATCCAAATTGAGTCAT+AGG + chr1.1:3808147-3808166 None:intergenic 35.0%
GCGAAATATTCATTGTTAGC+AGG + chr1.1:3808493-3808512 None:intergenic 35.0%
GTTGTATCCATAATCAGTTG+TGG + chr1.1:3808746-3808765 None:intergenic 35.0%
TAAAGCTTCAATGTTAGACG+AGG - chr1.1:3807651-3807670 MS.gene24422:CDS 35.0%
TCAATCTGTAATCATACCCT+CGG - chr1.1:3808555-3808574 MS.gene24422:CDS 35.0%
! GTTGATGAAACAAAAGGCTA+AGG - chr1.1:3807828-3807847 MS.gene24422:CDS 35.0%
! TAATGGACCTATAGTCACTT+TGG + chr1.1:3808277-3808296 None:intergenic 35.0%
!!! CTTATTTTGGTAAGCTCTTC+AGG - chr1.1:3807963-3807982 MS.gene24422:intron 35.0%
ACAAAAGGCTAAGGTTTGTC+CGG - chr1.1:3807837-3807856 MS.gene24422:CDS 40.0%
ACTCGACCTATGACTCAATT+TGG - chr1.1:3808138-3808157 MS.gene24422:intron 40.0%
ATATTCATTGTTAGCAGGCG+GGG + chr1.1:3808488-3808507 None:intergenic 40.0%
ATTGAGTCATAGGTCGAGTT+TGG + chr1.1:3808137-3808156 None:intergenic 40.0%
CAACATGCCACAACTGATTA+TGG - chr1.1:3808736-3808755 MS.gene24422:CDS 40.0%
CTGAGCTTCACAATTAGCTA+AGG - chr1.1:3808177-3808196 MS.gene24422:intron 40.0%
GGAGTTGTTCAATCTTGATG+AGG - chr1.1:3808426-3808445 MS.gene24422:intron 40.0%
TTGCATCCAATGTCGTTATC+AGG - chr1.1:3808373-3808392 MS.gene24422:intron 40.0%
TTTGACATGCTGCATTGTTC+TGG + chr1.1:3808535-3808554 None:intergenic 40.0%
AGATTGAACAACTCCGTCTG+AGG + chr1.1:3808421-3808440 None:intergenic 45.0%
CATAGGTCGAGTTTGGACTT+CGG + chr1.1:3808130-3808149 None:intergenic 45.0%
CATCCAATGTCGTTATCAGG+AGG - chr1.1:3808376-3808395 MS.gene24422:intron 45.0%
GAAGCTAAATTTGTCGCCGA+GGG + chr1.1:3808574-3808593 None:intergenic 45.0%
TCAGTTGTGGCATGTTGTTG+TGG + chr1.1:3808733-3808752 None:intergenic 45.0%
TGAAGCTAAATTTGTCGCCG+AGG + chr1.1:3808575-3808594 None:intergenic 45.0%
! GATCCTCCTGATAACGACAT+TGG + chr1.1:3808382-3808401 None:intergenic 45.0%
GCCTACGATGTTTCCTCAGA+CGG - chr1.1:3808405-3808424 MS.gene24422:intron 50.0%
TCCGTCTGAGGAAACATCGT+AGG + chr1.1:3808409-3808428 None:intergenic 50.0%
TGTCGTTATCAGGAGGATCG+CGG - chr1.1:3808383-3808402 MS.gene24422:intron 50.0%


Chromosome Type Strat End Strand Name
chr1.1 gene 3807435 3808802 3807435 ID=MS.gene24422
chr1.1 mRNA 3807435 3808802 3807435 ID=MS.gene24422.t1;Parent=MS.gene24422
chr1.1 exon 3808728 3808802 3808728 ID=MS.gene24422.t1.exon1;Parent=MS.gene24422.t1
chr1.1 CDS 3808728 3808802 3808728 ID=cds.MS.gene24422.t1;Parent=MS.gene24422.t1
chr1.1 exon 3808526 3808591 3808526 ID=MS.gene24422.t1.exon2;Parent=MS.gene24422.t1
chr1.1 CDS 3808526 3808591 3808526 ID=cds.MS.gene24422.t1;Parent=MS.gene24422.t1
chr1.1 exon 3807607 3807891 3807607 ID=MS.gene24422.t1.exon3;Parent=MS.gene24422.t1
chr1.1 CDS 3807607 3807891 3807607 ID=cds.MS.gene24422.t1;Parent=MS.gene24422.t1
chr1.1 exon 3807435 3807518 3807435 ID=MS.gene24422.t1.exon4;Parent=MS.gene24422.t1
chr1.1 CDS 3807435 3807518 3807435 ID=cds.MS.gene24422.t1;Parent=MS.gene24422.t1
Gene Sequence

>MS.gene24422

ATGGAACAGAGAAGGAGGAGTAAGATTAATGAGAAATTGAAAGCTTTACAAAATTTAATTCCAAATTCTAACAAGGTGATGTATTTATGTAAATTTTCTAGCATCTTATCTCTTTTTATACTTTATTTTAATTTATCTTACAAAATATTATTATTTTACTTCTTATTCTTGTGGATGAGTGAGTAATTTTGTGTTTGTTTATTTTTAATAGACAGATAAAGCTTCAATGTTAGACGAGGCCATTGAATATTTAAAGCAGCTTCAGCTTCAAGTGCAAGTGAGTTTTCTTTCACTTAAGATGAACAATGAAACTCTAAAACATGTTAAATACTATTATGAATGGTTTTTTTGTGCAATACATTTGTCCTTAACCATGTCAAATTGTCAAGTGTTGTTGATGAAACAAAAGGCTAAGGTTTGTCCGGATTGACTTATTTACGCTTATTTACTGGTATAAGCACTTGTGAGCGTGTTTCAGAGAGCTTATAGTTAGAAACACCTTATAATATGTACATAAGATATTTTCAACTTATTTTGGTAAGCTCTTCAGGCTAGCTTAAGAAAACAACTTATAGCTTATATGAAAACGGTTTAAATTTATATCATCTTTTGTTATAGAAACAGTTTATATGTGAACACTTATATGTAAGTGTTTATGCATAATCTCATAAACACTTAATCAAATCGTTTATCCGAAGTCCAAACTCGACCTATGACTCAATTTGGATCATCTTCTAGCTTACTGAGCTTCACAATTAGCTAAGGAAGAAATTAAATAAAAGAGCTTCTTGATTCTTTAAATATTTATTTTCTCTGTGAATGTTTCTTGAAAAATTTATCCAAAGTGACTATAGGTCCATTATTCCATCATGGACTAATTGTTACTTTAGTGTTTGTGATTAATTCTGCAGATGTTAATGGTGAGAAATGGTTATAGCTTGCATCCAATGTCGTTATCAGGAGGATCGCGGCCTACGATGTTTCCTCAGACGGAGTTGTTCAATCTTGATGAGGGTAATAGTGGATTTCACAATTCTAACAATGCAATTACCCCGCCTGCTAACAATGAATATTTCGCACGGCAAGCTTTTAGTTTTCCAGAACAATGCAGCATGTCAAATCAATCTGTAATCATACCCTCGGCGACAAATTTAGCTTCATTTGATACCTCATCAAGTTTTCAAACCTCTATTAAGGTTCATGTTTGATACAAAATAATCTTAATGAACAGTTACTTCATTTATTTGTTTATTGAACTTAACAACTCTTATTTCTGATGTGAAGGATGTTTTCAGCCACAACAACATGCCACAACTGATTATGGATACAACAAGGATTGGAAAAACTCCTTCTTCTGATGTGTCATAA
Protein sequence

>MS.gene24422.t1

MEQRRRSKINEKLKALQNLIPNSNKTDKASMLDEAIEYLKQLQLQVQMLMVRNGYSLHPMSLSGGSRPTMFPQTELFNLDEGNSGFHNSNNAITPPANNEYFARQAFSFPEQCSMSNQSVIIPSATNLASFDTSSSFQTSIKDVFSHNNMPQLIMDTTRIGKTPSSDVS