AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa ssp. caerulea / MsaG013604

Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsaG013604 MtrunA17_Chr5g0438991 68.182 242 36 1 21 221 713 954 7.67e-107 329
MsaG013604 MtrunA17_Chr6g0456861 64.754 244 43 2 21 221 516 759 3.32e-101 310
MsaG013604 MtrunA17_Chr3g0133461 81.690 142 17 1 21 153 1029 1170 1.70e-72 239
MsaG013604 MtrunA17_Chr3g0133461 93.103 87 6 0 135 221 1237 1323 7.91e-48 169
MsaG013604 MtrunA17_Chr5g0401991 64.198 162 15 2 42 160 60 221 1.12e-62 195
MsaG013604 MtrunA17_Chr3g0138411 64.744 156 49 1 21 176 900 1049 6.55e-60 203
MsaG013604 MtrunA17_Chr3g0138411 86.207 87 12 0 135 221 1100 1186 3.31e-44 158
MsaG013604 MtrunA17_Chr4g0000031 37.302 126 72 1 21 139 1397 1522 8.32e-26 105
MsaG013604 MtrunA17_Chr4g0000031 32.292 192 87 6 27 216 1528 1678 1.34e-20 90.5
MsaG013604 MtrunA17_Chr0c02g0489811 75.439 57 14 0 86 142 5 61 1.23e-21 85.5
MsaG013604 MtrunA17_Chr6g0456911 71.186 59 16 1 88 145 6 64 1.08e-20 82.8
MsaG013604 MtrunA17_Chr7g0229221 71.930 57 16 0 86 142 5 61 3.65e-20 81.6
MsaG013604 MtrunA17_Chr0c02g0489731 68.421 57 18 0 86 142 5 61 2.31e-18 76.6
MsaG013604 MtrunA17_Chr0c02g0489721 78.049 41 9 0 21 61 6 46 4.27e-18 75.1
MsaG013604 MtrunA17_Chr7g0229231 78.049 41 9 0 21 61 6 46 4.27e-18 75.1
MsaG013604 MtrunA17_Chr0c02g0489821 76.190 42 10 0 21 62 4 45 5.16e-18 75.1
MsaG013604 MtrunA17_Chr6g0456851 55.882 68 30 0 76 143 807 874 1.70e-16 78.2
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsaG013604 AT3G12980.1 28.826 281 121 6 21 222 1364 1644 1.08e-33 128
MsaG013604 AT3G12980.2 28.826 281 121 6 21 222 1283 1563 1.18e-33 128
MsaG013604 AT1G16710.3 37.302 126 72 1 21 139 1367 1492 4.14e-27 109
MsaG013604 AT1G16710.3 32.642 193 86 6 27 216 1498 1649 1.99e-20 90.1
MsaG013604 AT1G16710.10 37.302 126 72 1 21 139 1367 1492 4.14e-27 109
MsaG013604 AT1G16710.10 32.642 193 86 6 27 216 1498 1649 1.99e-20 90.1
MsaG013604 AT1G16710.8 37.302 126 72 1 21 139 1367 1492 4.14e-27 109
MsaG013604 AT1G16710.8 32.642 193 86 6 27 216 1498 1649 1.99e-20 90.1
MsaG013604 AT1G16710.7 37.302 126 72 1 21 139 1367 1492 4.14e-27 109
MsaG013604 AT1G16710.7 32.642 193 86 6 27 216 1498 1649 1.99e-20 90.1
MsaG013604 AT1G16710.1 37.302 126 72 1 21 139 1393 1518 4.52e-27 109
MsaG013604 AT1G16710.1 32.642 193 86 6 27 216 1524 1675 1.94e-20 90.5
MsaG013604 AT1G16710.2 37.302 126 72 1 21 139 1364 1489 4.60e-27 109
MsaG013604 AT1G16710.2 32.642 193 86 6 27 216 1495 1646 2.17e-20 90.1
MsaG013604 AT1G16710.6 37.302 126 72 1 21 139 1328 1453 4.68e-27 109
MsaG013604 AT1G16710.6 32.642 193 86 6 27 216 1459 1610 2.05e-20 90.1
MsaG013604 AT1G16710.4 37.302 126 72 1 21 139 1328 1453 4.68e-27 109
MsaG013604 AT1G16710.4 32.642 193 86 6 27 216 1459 1610 2.05e-20 90.1
MsaG013604 AT1G16710.5 37.302 126 72 1 21 139 1328 1453 4.68e-27 109
MsaG013604 AT1G16710.5 32.642 193 86 6 27 216 1459 1610 2.05e-20 90.1
MsaG013604 AT1G79000.1 38.095 126 71 1 21 139 1384 1509 3.54e-26 107
MsaG013604 AT1G79000.1 33.161 193 85 6 27 216 1515 1666 1.81e-22 96.3
MsaG013604 AT1G79000.3 38.095 126 71 1 21 139 1360 1485 3.67e-26 107
MsaG013604 AT1G79000.3 33.161 193 85 6 27 216 1491 1642 2.08e-22 95.9
MsaG013604 AT1G79000.2 38.095 126 71 1 21 139 1384 1509 4.02e-26 106
MsaG013604 AT1G79000.2 33.161 193 85 6 27 216 1515 1666 2.01e-22 96.3
MsaG013604 AT1G55970.1 35.385 130 77 1 17 139 1156 1285 2.75e-24 101
MsaG013604 AT1G55970.2 35.385 130 77 1 17 139 1142 1271 2.90e-24 101
MsaG013604 AT1G67220.1 30.597 134 85 2 17 142 1075 1208 1.38e-17 82.0
MsaG013604 AT1G67220.1 34.694 98 55 3 125 214 1265 1361 3.43e-11 63.2
MsaG013604 AT1G16710.9 40.385 52 31 0 21 72 1367 1418 5.83e-11 62.4

Find 50 sgRNAs with CRISPR-Local

Find sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
CCCTGGTAGGCCATATATTT+TGG 0.151804 3:-57295103 None:intergenic
AGAGTAGATTATTTGAAAAT+AGG 0.198691 3:+57295571 MsaT013604.1:CDS
CACTGAATGCAAGGAAATTC+AGG 0.241855 3:+57295205 MsaT013604.1:CDS
ATTAGGTTGGCCAAAATATA+TGG 0.272286 3:+57295093 MsaT013604.1:intron
GAGTAGATTATTTGAAAATA+GGG 0.292484 3:+57295572 MsaT013604.1:CDS
TGAGTGGACTATTTCGTCTT+GGG 0.354641 3:+57294506 MsaT013604.1:CDS
GTGCGAAATTCGAGTGAATC+GGG 0.405954 3:+57296156 MsaT013604.1:CDS
TGCAACTCGCCATTCTTTGA+TGG 0.413348 3:-57295397 None:intergenic
GACGAAATAGTCCACTCATC+CGG 0.413884 3:-57294501 None:intergenic
CACTCGAATTTCGCACCTAC+TGG 0.416982 3:-57296149 None:intergenic
CGAGTTGCATACACTTTGTC+AGG 0.417455 3:+57295411 MsaT013604.1:CDS
CATATTGCAAGTGAGCTATA+AGG 0.427220 3:-57295133 None:intergenic
TTCTTGATTTGAGAAAAGTT+TGG 0.448986 3:-57296112 None:intergenic
ATCATTATGTTTAGTGTTGG+AGG 0.449050 3:-57295538 None:intergenic
ACGAAATAGTCCACTCATCC+GGG 0.450946 3:-57294500 None:intergenic
GCCAAAATATATGGCCTACC+AGG 0.452024 3:+57295102 MsaT013604.1:CDS
ATGAGTGGACTATTTCGTCT+TGG 0.462896 3:+57294505 MsaT013604.1:CDS
CAAACTGAAACTGAGACTTC+TGG 0.468204 3:-57295614 None:intergenic
TGCCGTGAAGTGATAGTGTC+TGG 0.473473 3:+57295167 MsaT013604.1:CDS
AATATCATTATGTTTAGTGT+TGG 0.474871 3:-57295541 None:intergenic
ATGGGTGTGCATCAGAACTA+TGG 0.476458 3:-57295378 None:intergenic
AGTCCACTCATCCGGGGAGG+TGG 0.477773 3:-57294493 None:intergenic
TTATACTTGCTGCTCACTCT+AGG 0.483492 3:+57296206 MsaT013604.1:CDS
GGTGCGAAATTCGAGTGAAT+CGG 0.490997 3:+57296155 MsaT013604.1:CDS
AGTGTAGCATTCCACGGTGC+AGG 0.496224 3:+57296245 MsaT013604.1:CDS
TCCCAGACACTATCACTTCA+CGG 0.498199 3:-57295169 None:intergenic
CATTATGTTTAGTGTTGGAG+GGG 0.505283 3:-57295536 None:intergenic
GCAACTCGCCATTCTTTGAT+GGG 0.505596 3:-57295396 None:intergenic
ATCGAGGAATACTTGGTAGT+TGG 0.511973 3:-57295652 None:intergenic
TCATTATGTTTAGTGTTGGA+GGG 0.517970 3:-57295537 None:intergenic
CTCTAGGAATTGCAAAGACT+CGG 0.517971 3:+57296222 MsaT013604.1:CDS
TTTCAAATAATCTACTCTCA+AGG 0.542071 3:-57295566 None:intergenic
ACTCCACCTCCCCGGATGAG+TGG 0.547651 3:+57294490 MsaT013604.1:CDS
GAAAGTGACAAAGCAGTCGT+TGG 0.555810 3:+57296463 MsaT013604.1:CDS
GATGCACACCCATCAAAGAA+TGG 0.560620 3:+57295388 MsaT013604.1:CDS
AGGAAATTCAGGAGTGCGAA+AGG 0.562968 3:+57295216 MsaT013604.1:CDS
GAGTGGACTATTTCGTCTTG+GGG 0.570086 3:+57294507 MsaT013604.1:CDS
AAGATTCAGCATTAGTTGCA+CGG 0.579977 3:-57296081 None:intergenic
TGATAGTGTCTGGGAAGCGA+TGG 0.590031 3:+57295177 MsaT013604.1:CDS
AGATGACGACTCCACCTCCC+CGG 0.598094 3:+57294482 None:intergenic
CCAAAATATATGGCCTACCA+GGG 0.605422 3:+57295103 MsaT013604.1:CDS
GCCGTGAAGTGATAGTGTCT+GGG 0.641094 3:+57295168 MsaT013604.1:CDS
ACTCGGAGTGTAGCATTCCA+CGG 0.643411 3:+57296239 MsaT013604.1:CDS
CGAAATAGTCCACTCATCCG+GGG 0.666253 3:-57294499 None:intergenic
TGCGAAATTCGAGTGAATCG+GGG 0.669747 3:+57296157 MsaT013604.1:CDS
AGCTGTTCTCTCATGCCAGT+AGG 0.676221 3:+57296134 MsaT013604.1:CDS
GGAGGGGATATCATCAACAA+CGG 0.699125 3:-57295520 None:intergenic
AATAGTCCACTCATCCGGGG+AGG 0.724403 3:-57294496 None:intergenic
GAAATTCGAGTGAATCGGGG+CGG 0.744166 3:+57296160 MsaT013604.1:CDS
ATAACAGCACACCTGCACCG+TGG 0.748808 3:-57296256 None:intergenic

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
Chromosome Type Strat End Strand Name
Chr3 gene 57294484 57296502 57294484 ID=MsaG013604
Chr3 mRNA 57294484 57296502 57294484 ID=MsaT013604.1;Parent=MsaG013604
Chr3 exon 57294484 57294543 57294484 ID=MsaT013604.1.exon1;Parent=MsaT013604.1
Chr3 CDS 57294484 57294543 57294484 ID=cds.MsaT013604.1;Parent=MsaT013604.1
Chr3 exon 57295098 57295237 57295098 ID=MsaT013604.1.exon2;Parent=MsaT013604.1
Chr3 CDS 57295098 57295237 57295098 ID=cds.MsaT013604.1;Parent=MsaT013604.1
Chr3 exon 57295375 57295432 57295375 ID=MsaT013604.1.exon3;Parent=MsaT013604.1
Chr3 CDS 57295375 57295432 57295375 ID=cds.MsaT013604.1;Parent=MsaT013604.1
Chr3 exon 57295519 57295662 57295519 ID=MsaT013604.1.exon4;Parent=MsaT013604.1
Chr3 CDS 57295519 57295662 57295519 ID=cds.MsaT013604.1;Parent=MsaT013604.1
Chr3 exon 57296040 57296266 57296040 ID=MsaT013604.1.exon5;Parent=MsaT013604.1
Chr3 CDS 57296040 57296266 57296040 ID=cds.MsaT013604.1;Parent=MsaT013604.1
Chr3 exon 57296421 57296502 57296421 ID=MsaT013604.1.exon6;Parent=MsaT013604.1
Chr3 CDS 57296421 57296502 57296421 ID=cds.MsaT013604.1;Parent=MsaT013604.1
Gene Sequence

>MsaT013604.1

ATGACGACTCCACCTCCCCGGATGAGTGGACTATTTCGTCTTGGGGATTTGACTAAGTTCGTTGGCCAAAATATATGGCCTACCAGGGAAAACTTCCTTATAGCTCACTTGCAATATGCGTGCATACACTGCCGTGAAGTGATAGTGTCTGGGAAGCGATGGTTTTGCACTGAATGCAAGGAAATTCAGGAGTGCGAAAGATGCCATAGTTCTGATGCACACCCATCAAAGAATGGCGAGTTGCATACACTTTGTCAGGCCGTTGTTGATGATATCCCCTCCAACACTAAACATAATGATATTGTCCTTGAGAGTAGATTATTTGAAAATAGGGATAACTTTTTGAGCTTCTGCCAGAAGTCTCAGTTTCAGTTTGACACACTCTGTCGTGCCAACTACCAAATGGTGAAACTGCTGAACGTTTTAAAGCATGCATCTCAATGCCGTGCAACTAATGCTGAATCTTGCTCTCATCCAAACTTTTCTCAAATCAAGAAGCTGTTCTCTCATGCCAGTAGGTGCGAAATTCGAGTGAATCGGGGCGGCCAGCAGTGTAAAAAGATATGGTTTATACTTGCTGCTCACTCTAGGAATTGCAAAGACTCGGAGTGTAGCATTCCACGGTGCAGGGATCTAAAGAAGCATGTAGAATCGAAAGCATTGCAGTTTTTGAAAGTGACAAAGCAGTCGTTGGTCAATGAATCTTTGTGA
Protein sequence

>MsaT013604.1

MTTPPPRMSGLFRLGDLTKFVGQNIWPTRENFLIAHLQYACIHCREVIVSGKRWFCTECKEIQECERCHSSDAHPSKNGELHTLCQAVVDDIPSNTKHNDIVLESRLFENRDNFLSFCQKSQFQFDTLCRANYQMVKLLNVLKHASQCRATNAESCSHPNFSQIKKLFSHASRCEIRVNRGGQQCKKIWFILAAHSRNCKDSECSIPRCRDLKKHVESKALQFLKVTKQSLVNESL*