AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar zhongmu-4 / Msa0217800

Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
Msa0217800 MtrunA17_Chr2g0319791 85.246 122 18 0 2 123 337 458 7.06e-74 226
Msa0217800 MtrunA17_Chr2g0319761 85.246 122 18 0 2 123 337 458 2.01e-73 225
Msa0217800 MtrunA17_Chr2g0319751 87.705 122 15 0 2 123 814 935 4.18e-72 231
Msa0217800 MtrunA17_Chr2g0319751 82.787 122 21 0 2 123 313 434 3.36e-68 220
Msa0217800 MtrunA17_Chr2g0319801 71.311 122 35 0 2 123 337 458 3.44e-63 199
Msa0217800 MtrunA17_Chr2g0319731 70.492 122 36 0 2 123 354 475 3.68e-62 196
Msa0217800 MtrunA17_Chr2g0319711 90.426 94 9 0 30 123 2 95 3.28e-58 174
Msa0217800 MtrunA17_Chr4g0040691 66.393 122 39 2 2 123 339 458 1.04e-53 174
Msa0217800 MtrunA17_Chr4g0040711 64.754 122 41 2 2 123 339 458 7.15e-53 172
Msa0217800 MtrunA17_Chr2g0283041 61.475 122 46 1 2 123 336 456 4.83e-46 154
Msa0217800 MtrunA17_Chr2g0319771 80.000 90 18 0 22 111 11 100 7.96e-46 145
Msa0217800 MtrunA17_Chr2g0321331 61.157 121 29 1 2 122 164 266 9.02e-45 146
Msa0217800 MtrunA17_Chr4g0029131 40.984 122 70 2 2 122 338 458 1.42e-28 108
Msa0217800 MtrunA17_Chr1g0196851 40.984 122 70 2 2 122 378 498 3.03e-28 107
Msa0217800 MtrunA17_Chr4g0029151 39.837 123 72 2 2 123 346 467 4.32e-28 106
Msa0217800 MtrunA17_Chr1g0196881 37.755 98 59 2 26 122 1 97 9.26e-19 75.1
Msa0217800 MtrunA17_Chr4g0029161 38.235 102 61 2 22 122 330 430 1.47e-18 79.7
Msa0217800 MtrunA17_Chr2g0278721 37.288 118 70 3 4 121 862 975 6.34e-17 75.5
Msa0217800 MtrunA17_Chr2g0278721 31.034 116 76 3 4 119 351 462 1.19e-11 60.5
Msa0217800 MtrunA17_Chr4g0069611 34.483 116 72 3 4 119 346 457 9.70e-15 68.9
Msa0217800 MtrunA17_Chr8g0377921 36.364 99 60 3 4 101 345 441 6.77e-14 66.6
Msa0217800 MtrunA17_Chr7g0241801 35.714 112 66 4 4 115 316 421 9.69e-14 66.2
Msa0217800 MtrunA17_Chr5g0432731 37.864 103 62 2 4 105 177 278 1.00e-13 65.9
Msa0217800 MtrunA17_Chr8g0377941 35.246 122 75 4 4 123 343 462 1.26e-13 65.9
Msa0217800 MtrunA17_Chr7g0241781 36.283 113 64 5 4 115 316 421 1.72e-13 65.5
Msa0217800 MtrunA17_Chr3g0079711 33.607 122 74 3 4 121 72 190 3.74e-13 62.8
Msa0217800 MtrunA17_Chr7g0218791 44.444 81 43 2 4 84 335 413 6.37e-13 63.9
Msa0217800 MtrunA17_Chr3g0092031 32.479 117 75 3 4 120 83 195 9.35e-13 62.0
Msa0217800 MtrunA17_Chr3g0122001 31.667 120 79 3 4 122 356 473 1.16e-12 63.2
Msa0217800 MtrunA17_Chr6g0459311 35.165 91 56 2 4 92 355 444 2.39e-12 62.4
Msa0217800 MtrunA17_Chr3g0079731 36.082 97 59 2 4 100 364 457 3.61e-12 61.6
Msa0217800 MtrunA17_Chr5g0403641 35.417 96 60 2 4 98 385 479 4.97e-12 61.2
Msa0217800 MtrunA17_Chr6g0464881 31.405 121 78 4 4 123 339 455 7.47e-12 60.8
Msa0217800 MtrunA17_Chr8g0367221 37.000 100 59 3 4 103 1139 1234 1.11e-11 60.5
Msa0217800 MtrunA17_Chr8g0367221 30.000 120 80 3 4 123 1629 1744 1.79e-11 60.1
Msa0217800 MtrunA17_Chr6g0464921 34.694 98 60 3 4 101 340 433 1.20e-11 60.5
Msa0217800 MtrunA17_Chr8g0336651 36.458 96 57 3 4 99 1128 1219 1.57e-11 60.1
Msa0217800 MtrunA17_Chr4g0014061 30.233 129 80 3 3 123 346 472 1.62e-11 60.1
Msa0217800 MtrunA17_Chr8g0336691 37.500 96 56 3 4 99 1264 1355 2.56e-11 59.3
Msa0217800 MtrunA17_Chr8g0336691 36.458 96 57 3 4 99 797 888 8.26e-11 58.2
Msa0217800 MtrunA17_Chr8g0335161 35.165 91 56 2 4 92 350 439 3.05e-11 59.3
Msa0217800 MtrunA17_Chr8g0335141 32.967 91 58 2 4 92 352 441 5.11e-11 58.5
Msa0217800 MtrunA17_Chr6g0486251 34.066 91 57 2 4 92 348 437 5.35e-11 58.5
Msa0217800 MtrunA17_Chr6g0486201 34.066 91 57 2 4 92 348 437 5.35e-11 58.5
Msa0217800 MtrunA17_Chr5g0414321 33.898 118 74 4 4 119 336 451 6.75e-11 58.2
Msa0217800 MtrunA17_Chr6g0466841 33.621 116 73 3 4 119 349 460 7.89e-11 57.8
Msa0217800 MtrunA17_Chr6g0464861 32.323 99 63 3 3 101 337 431 8.25e-11 57.8
Msa0217800 MtrunA17_Chr7g0250001 31.633 98 63 3 4 101 332 425 8.67e-11 57.8
Msa0217800 MtrunA17_Chr6g0464841 32.323 99 63 3 3 101 338 432 9.45e-11 57.8
Msa0217800 MtrunA17_Chr5g0414331 31.667 120 78 3 4 123 338 453 9.76e-11 57.8
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
Msa0217800 AT5G53990.1 47.107 121 62 2 3 123 323 441 1.34e-31 116
Msa0217800 AT5G54010.1 45.455 121 64 2 3 123 329 447 7.28e-31 114
Msa0217800 AT4G27570.1 44.628 121 65 2 3 123 329 447 1.40e-30 113
Msa0217800 AT1G64910.1 42.975 121 67 2 3 123 323 441 1.35e-29 110
Msa0217800 AT2G22930.1 43.802 121 66 2 3 123 323 441 1.94e-29 110
Msa0217800 AT4G27560.1 42.975 121 67 2 3 123 329 447 1.97e-29 110
Msa0217800 AT4G09500.1 42.149 121 68 2 3 123 298 416 2.55e-29 109
Msa0217800 AT4G09500.2 42.149 121 68 2 3 123 323 441 3.26e-29 109
Msa0217800 AT1G64920.1 41.322 121 69 2 3 123 327 445 4.37e-29 109
Msa0217800 AT3G29630.2 41.176 119 69 1 3 121 299 416 6.85e-28 105
Msa0217800 AT3G29630.1 41.176 119 69 1 3 121 325 442 8.58e-28 105
Msa0217800 AT1G50580.1 41.880 117 66 2 3 119 324 438 4.68e-26 101
Msa0217800 AT5G54060.1 40.496 121 70 2 3 123 348 466 4.87e-22 90.1
Msa0217800 AT2G31750.2 39.796 98 57 2 4 101 337 432 2.20e-16 74.3
Msa0217800 AT2G31750.1 39.796 98 57 2 4 101 337 432 3.77e-16 73.6
Msa0217800 AT2G22930.2 38.372 86 52 1 38 123 205 289 2.61e-15 70.5
Msa0217800 AT4G36770.1 39.796 98 54 3 2 99 347 439 1.31e-14 69.3
Msa0217800 AT1G05675.1 40.625 96 53 3 4 99 337 428 2.86e-14 68.2
Msa0217800 AT1G05680.1 39.583 96 54 3 4 99 337 428 4.26e-14 67.8
Msa0217800 AT2G43840.1 34.545 110 69 2 4 113 330 436 7.62e-14 67.0
Msa0217800 AT2G43840.2 34.545 110 69 2 4 113 330 436 7.62e-14 67.0
Msa0217800 AT5G65550.1 36.842 95 57 3 4 97 347 439 2.88e-13 65.5
Msa0217800 AT4G15550.1 35.644 101 58 4 4 101 355 451 3.83e-13 65.1
Msa0217800 AT5G49690.1 34.343 99 61 3 4 102 340 434 2.95e-12 62.4
Msa0217800 AT1G05560.1 31.818 110 70 3 4 113 337 441 7.29e-12 61.2
Msa0217800 AT1G05560.2 31.818 110 70 3 4 113 387 491 1.63e-11 60.5
Msa0217800 AT2G30150.1 35.556 90 56 2 4 92 317 405 9.14e-11 58.2
Msa0217800 AT2G30150.2 35.556 90 56 2 4 92 333 421 9.20e-11 58.2

Find 16 sgRNAs with CRISPR-Local

Find 16 sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
TCATTCTTGCATTCATGATA+TGG 0.306881 2_1:+64764187 None:intergenic
ATGGATGATGAGAATGAAGT+TGG 0.453273 2_1:-64764069 Msa0217800:CDS
ATTCTTGAACACCCTTCTGT+TGG 0.454707 2_1:-64764300 Msa0217800:CDS
CTTGCATTCATGATATGGTC+AGG 0.468145 2_1:+64764192 None:intergenic
GTTGAGAAAGGTGATGAAGA+TGG 0.473698 2_1:-64764135 Msa0217800:CDS
GTTGGTGTAGAAGTTGAGAA+AGG 0.554703 2_1:-64764147 Msa0217800:CDS
TGGAGCTGCTTCTATAACTG+AGG 0.565923 2_1:-64764259 Msa0217800:CDS
AATGATGAGTGAAAAGATGA+AGG 0.586314 2_1:-64764169 Msa0217800:CDS
GTTATGAAACATCCAACAGA+AGG 0.588945 2_1:+64764288 None:intergenic
ATGAGTGAAAAGATGAAGGT+TGG 0.593081 2_1:-64764165 Msa0217800:CDS
GGATGTTTCATAACACATTG+TGG 0.601065 2_1:-64764279 Msa0217800:CDS
ACTTGTTAACACGTGTCTGT+TGG 0.626198 2_1:-64764235 Msa0217800:CDS
GGAGCTGCTTCTATAACTGA+GGG 0.647559 2_1:-64764258 Msa0217800:CDS
CAAAGCTGTGAAGATTGTGA+TGG 0.655994 2_1:-64764088 Msa0217800:CDS
TTATGAAACATCCAACAGAA+GGG 0.698749 2_1:+64764289 None:intergenic
ATATGGTCAGGATCTACACG+TGG 0.742139 2_1:+64764204 None:intergenic

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
TTATGAAACATCCAACAGAA+GGG + chr2_1:64764000-64764019 None:intergenic 30.0%
TCATTCTTGCATTCATGATA+TGG + chr2_1:64764102-64764121 None:intergenic 30.0%
AATGATGAGTGAAAAGATGA+AGG - chr2_1:64764117-64764136 Msa0217800:CDS 30.0%
GTTATGAAACATCCAACAGA+AGG + chr2_1:64764001-64764020 None:intergenic 35.0%
GGATGTTTCATAACACATTG+TGG - chr2_1:64764007-64764026 Msa0217800:CDS 35.0%
ATGAGTGAAAAGATGAAGGT+TGG - chr2_1:64764121-64764140 Msa0217800:CDS 35.0%
ATGGATGATGAGAATGAAGT+TGG - chr2_1:64764217-64764236 Msa0217800:CDS 35.0%
ATTCTTGAACACCCTTCTGT+TGG - chr2_1:64763986-64764005 Msa0217800:CDS 40.0%
! ACTTGTTAACACGTGTCTGT+TGG - chr2_1:64764051-64764070 Msa0217800:CDS 40.0%
CTTGCATTCATGATATGGTC+AGG + chr2_1:64764097-64764116 None:intergenic 40.0%
GTTGGTGTAGAAGTTGAGAA+AGG - chr2_1:64764139-64764158 Msa0217800:CDS 40.0%
GTTGAGAAAGGTGATGAAGA+TGG - chr2_1:64764151-64764170 Msa0217800:CDS 40.0%
CAAAGCTGTGAAGATTGTGA+TGG - chr2_1:64764198-64764217 Msa0217800:CDS 40.0%
TGGAGCTGCTTCTATAACTG+AGG - chr2_1:64764027-64764046 Msa0217800:CDS 45.0%
GGAGCTGCTTCTATAACTGA+GGG - chr2_1:64764028-64764047 Msa0217800:CDS 45.0%
ATATGGTCAGGATCTACACG+TGG + chr2_1:64764085-64764104 None:intergenic 45.0%
Chromosome Type Strat End Strand Name
chr2_1 gene 64763960 64764348 64763960 ID=Msa0217800;Name=Msa0217800
chr2_1 mRNA 64763960 64764348 64763960 ID=Msa0217800-mRNA-1;Parent=Msa0217800;Name=Msa0217800-mRNA-1;_AED=0.43;_eAED=0.44;_QI=0|0|0|1|0|0|2|0|123
chr2_1 exon 64764343 64764348 64764343 ID=Msa0217800-mRNA-1:exon:18045;Parent=Msa0217800-mRNA-1
chr2_1 exon 64763960 64764325 64763960 ID=Msa0217800-mRNA-1:exon:18044;Parent=Msa0217800-mRNA-1
chr2_1 CDS 64764343 64764348 64764343 ID=Msa0217800-mRNA-1:cds;Parent=Msa0217800-mRNA-1
chr2_1 CDS 64763960 64764325 64763960 ID=Msa0217800-mRNA-1:cds;Parent=Msa0217800-mRNA-1
Gene Sequence

>Msa0217800

ATGGAATTGATTCTTGAACACCCTTCTGTTGGATGTTTCATAACACATTGTGGAGCTGCTTCTATAACTGAGGGACTTGTTAACACGTGTCTGTTGGTGTTGTTGCCACGTGTAGATCCTGACCATATCATGAATGCAAGAATGATGAGTGAAAAGATGAAGGTTGGTGTAGAAGTTGAGAAAGGTGATGAAGATGGATTGTTTACAAAAGAAAATGTGTGCAAAGCTGTGAAGATTGTGATGGATGATGAGAATGAAGTTGGAAGAGAAGTGAGAGCTAATCATGCTAAACTGAGAAACTTTTTATTGAGAAGCAATTTAGAATCTTCATGTGTTGATAATTTCTGTCAAAAACTCAACGATTTGCTCTAG
Protein sequence

>Msa0217800

MELILEHPSVGCFITHCGAASITEGLVNTCLLVLLPRVDPDHIMNARMMSEKMKVGVEVEKGDEDGLFTKENVCKAVKIVMDDENEVGREVRANHAKLRNFLLRSNLESSCVDNFCQKLNDLL*