AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa ssp. caerulea / MsaG027508

Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsaG027508 MtrunA17_Chr1g0203051 55.039 129 58 0 117 245 493 621 2.07e-42 155
MsaG027508 MtrunA17_Chr1g0203051 44.286 140 43 2 14 118 20 159 2.49e-25 106
MsaG027508 MtrunA17_Chr2g0308841 41.558 154 90 0 104 257 73 226 2.64e-34 126
MsaG027508 MtrunA17_Chr2g0287651 37.324 142 89 0 117 258 491 632 2.13e-22 98.2
MsaG027508 MtrunA17_Chr5g0448511 37.121 132 82 1 130 261 270 400 1.29e-19 89.7
MsaG027508 MtrunA17_Chr5g0448761 33.099 142 94 1 130 271 498 638 9.25e-18 84.3
MsaG027508 MtrunA17_Chr3g0118611 32.530 166 103 4 130 291 374 534 2.58e-16 80.1
MsaG027508 MtrunA17_Chr1g0203721 36.806 144 89 2 117 260 484 625 9.92e-15 75.5
MsaG027508 MtrunA17_Chr6g0458391 32.653 147 97 2 112 258 621 765 2.04e-14 74.3
MsaG027508 MtrunA17_Chr5g0440451 30.000 130 90 1 130 259 477 605 3.96e-13 70.5
MsaG027508 MtrunA17_Chr1g0202341 34.483 116 75 1 143 258 495 609 1.04e-12 68.9
MsaG027508 MtrunA17_Chr2g0287061 32.143 140 93 2 135 273 578 716 9.39e-12 66.2
MsaG027508 MtrunA17_Chr1g0207551 33.803 142 89 4 118 258 452 589 3.73e-11 64.3
MsaG027508 MtrunA17_Chr2g0324011 22.979 235 163 4 40 261 342 571 7.34e-11 63.2
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsaG027508 AT2G27110.2 33.775 151 87 4 131 272 453 599 9.38e-18 84.7
MsaG027508 AT2G27110.1 33.775 151 87 4 131 272 453 599 9.38e-18 84.7
MsaG027508 AT2G27110.3 33.775 151 87 4 131 272 308 454 1.45e-17 84.3
MsaG027508 AT4G38180.1 34.848 132 85 1 130 261 507 637 2.21e-16 80.9
MsaG027508 AT4G38170.1 32.394 142 95 1 117 258 259 399 1.84e-15 77.8
MsaG027508 AT3G06250.2 33.858 127 83 1 135 261 582 707 1.33e-11 66.2
MsaG027508 AT3G06250.1 33.858 127 83 1 135 261 582 707 1.33e-11 66.2
MsaG027508 AT3G06250.3 33.858 127 83 1 135 261 582 707 1.33e-11 66.2
MsaG027508 AT5G18960.2 34.646 127 82 1 135 261 606 731 4.04e-11 64.7
MsaG027508 AT5G18960.1 34.646 127 82 1 135 261 606 731 4.04e-11 64.7

Find 73 sgRNAs with CRISPR-Local

Find sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
TCCCAATGTGTTTACATAAT+CGG 0.282947 5:-46360151 None:intergenic
ATTTAAATGTCAACCGTTCT+TGG 0.283454 5:+46358297 None:intergenic
CCCAATGTGTTTACATAATC+GGG 0.288280 5:-46360150 None:intergenic
GCGGATTATGCATCTTCTTT+TGG 0.297889 5:-46358524 MsaT027508.1:CDS
CCTCTGAACCTTCCGCATTA+AGG 0.302211 5:+46360120 None:intergenic
CGTTCCATCACAAGACATTC+TGG 0.328402 5:+46358191 None:intergenic
CTATGTTGAGTTTGCAAAAC+GGG 0.340511 5:+46358497 None:intergenic
GCCTAATGATTCCAATGTTT+CGG 0.342935 5:+46357983 None:intergenic
GGTCAGTGTTTAAGCAGTTT+AGG 0.345467 5:-46358439 MsaT027508.1:CDS
AGGGTATTTGAAAACATTAT+AGG 0.357557 5:+46358352 None:intergenic
TGCAAAAGATTCGAGACATT+TGG 0.377751 5:-46358269 MsaT027508.1:CDS
TTCAAAGGATGTAAAAGTTT+AGG 0.378708 5:-46357928 None:intergenic
GATTCCATCTTTAGCACGTT+TGG 0.386420 5:+46358163 None:intergenic
TTTGTCATAGAGAAGGTTAC+AGG 0.397074 5:-46359672 MsaT027508.1:CDS
TATACACAAAACCATGGAAA+TGG 0.430787 5:-46358018 MsaT027508.1:CDS
TAAGCAGTTTAGGCCCGTAT+TGG 0.451250 5:-46358429 MsaT027508.1:CDS
GACATGTACAGTTCGTTGTA+TGG 0.455744 5:-46359914 MsaT027508.1:CDS
ACCCTAGGGATGATATTCAT+TGG 0.456636 5:-46358334 MsaT027508.1:CDS
AACTAGTAGGTGTGGTTGCA+TGG 0.492607 5:-46359608 MsaT027508.1:CDS
CATGGACAATAGCTCTTGTT+CGG 0.498690 5:-46359972 MsaT027508.1:CDS
GAGAGCAGAAGCCAACTAGT+AGG 0.503280 5:-46359621 MsaT027508.1:CDS
CCGACTAGATCTCTCCAATA+CGG 0.511443 5:+46358415 None:intergenic
AAACATTGGAATCATTAGGC+AGG 0.520704 5:-46357980 MsaT027508.1:CDS
CCTTAAAATTAATTCTGTCA+AGG 0.525060 5:+46359849 None:intergenic
ATTGCCCGTGGTCGGTTCAA+AGG 0.530290 5:-46357943 MsaT027508.1:CDS
TGGACCAAACGTGCTAAAGA+TGG 0.531683 5:-46358167 MsaT027508.1:CDS
TCTATGTTGAGTTTGCAAAA+CGG 0.532019 5:+46358496 None:intergenic
ACATCCTTTGAACCGACCAC+GGG 0.536495 5:+46357939 None:intergenic
TGCGGAAGGTTCAGAGGTAG+AGG 0.537083 5:-46360114 MsaT027508.1:intron
ACCTTTGTTTGTCATAGAGA+AGG 0.542041 5:-46359679 MsaT027508.1:CDS
TGTTAGATACAGAGAAATTG+AGG 0.546396 5:-46358546 MsaT027508.1:CDS
TCCACACTTCAACACGGCAT+TGG 0.549156 5:+46358052 None:intergenic
ACATGTACAGTTCGTTGTAT+GGG 0.550841 5:-46359913 MsaT027508.1:CDS
ATGCAACCACACCTACTAGT+TGG 0.551707 5:+46359610 None:intergenic
CCCCGATTATGTAAACACAT+TGG 0.555220 5:+46360149 None:intergenic
TACATCCTTTGAACCGACCA+CGG 0.559904 5:+46357938 None:intergenic
AACATTGGAATCATTAGGCA+GGG 0.564434 5:-46357979 MsaT027508.1:CDS
CAGCTTCAAGAATATATACA+AGG 0.572234 5:-46358460 MsaT027508.1:CDS
ATCCAATGAATATCATCCCT+AGG 0.577004 5:+46358332 None:intergenic
ACATACGTAGTTACAAATGC+AGG 0.577104 5:+46358104 None:intergenic
GGAGAGTGATGTATGTTCCT+CGG 0.577170 5:-46359951 MsaT027508.1:CDS
CGACTAGATCTCTCCAATAC+GGG 0.579381 5:+46358416 None:intergenic
TCCAATGAATATCATCCCTA+GGG 0.582068 5:+46358333 None:intergenic
TGAAACAGCGGTTGATTGCA+TGG 0.583618 5:-46359876 MsaT027508.1:CDS
CAGAAGCCAACTAGTAGGTG+TGG 0.587238 5:-46359616 MsaT027508.1:CDS
TGAATATATACACAAAACCA+TGG 0.595738 5:-46358024 MsaT027508.1:CDS
CCTTAATGCGGAAGGTTCAG+AGG 0.595778 5:-46360120 MsaT027508.1:CDS
TTGTCATAGAGAAGGTTACA+GGG 0.601328 5:-46359671 MsaT027508.1:CDS
GTTGATGAATTGCCCGTGGT+CGG 0.602393 5:-46357951 MsaT027508.1:CDS
GCCAATGCCGTGTTGAAGTG+TGG 0.608683 5:-46358053 MsaT027508.1:CDS
TCTAGTCGGTGCAAAGTCGA+AGG 0.615809 5:-46358401 MsaT027508.1:CDS
ACCTTCTCTATGACAAACAA+AGG 0.615884 5:+46359678 None:intergenic
GGATGCAACCTTAATGCGGA+AGG 0.616985 5:-46360128 MsaT027508.1:CDS
CGTTGAGCGATGTAAGAGGA+TGG 0.618826 5:-46358075 MsaT027508.1:CDS
TGTTCGTTGAGCGATGTAAG+AGG 0.622081 5:-46358079 MsaT027508.1:CDS
ACCGAAACATTGGAATCATT+AGG 0.622687 5:-46357984 MsaT027508.1:CDS
TTGAAAGTAATGCCGCCGAA+AGG 0.632750 5:-46359648 MsaT027508.1:CDS
TAGTTACAAATGCAGGATCA+CGG 0.636049 5:+46358111 None:intergenic
ACATTGGAATCATTAGGCAG+GGG 0.641772 5:-46357978 MsaT027508.1:CDS
CCAATGTGTTTACATAATCG+GGG 0.641860 5:-46360149 MsaT027508.1:CDS
TATGTTGAGTTTGCAAAACG+GGG 0.643753 5:+46358498 None:intergenic
GTCTTCGACATCTTCATCCG+AGG 0.652680 5:+46359934 None:intergenic
ACTGCCAGAATGTCTTGTGA+TGG 0.666806 5:-46358195 MsaT027508.1:CDS
TCGGGGATGCAACCTTAATG+CGG 0.677096 5:-46360132 MsaT027508.1:CDS
TAGGGTCGGATGAAATCATG+AGG 0.679042 5:-46359823 MsaT027508.1:intron
GTCGAAGGTGATGTGCGCAG+TGG 0.682048 5:-46358386 MsaT027508.1:CDS
AGGATCTCCACACTTCAACA+CGG 0.684367 5:+46358046 None:intergenic
ACATGTAAGATATGTTCACA+AGG 0.686637 5:+46358242 None:intergenic
CCGTATTGGAGAGATCTAGT+CGG 0.690217 5:-46358415 MsaT027508.1:CDS
TGAAGTTGATGAATTGCCCG+TGG 0.692394 5:-46357955 MsaT027508.1:CDS
CAACTTTGACGATGAAACAG+CGG 0.696824 5:-46359888 MsaT027508.1:CDS
AATGTCTTGTGATGGAACGA+TGG 0.705741 5:-46358187 MsaT027508.1:CDS
TAGATACAGAGAAATTGAGG+CGG 0.729517 5:-46358543 MsaT027508.1:CDS

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
Chromosome Type Strat End Strand Name
Chr5 gene 46357929 46360168 46357929 ID=MsaG027508
Chr5 mRNA 46357929 46360168 46357929 ID=MsaT027508.1;Parent=MsaG027508
Chr5 exon 46357929 46358591 46357929 ID=MsaT027508.1.exon4;Parent=MsaT027508.1
Chr5 CDS 46357929 46358591 46357929 ID=cds.MsaT027508.1;Parent=MsaT027508.1
Chr5 exon 46359597 46359723 46359597 ID=MsaT027508.1.exon3;Parent=MsaT027508.1
Chr5 CDS 46359597 46359723 46359597 ID=cds.MsaT027508.1;Parent=MsaT027508.1
Chr5 exon 46359824 46359996 46359824 ID=MsaT027508.1.exon2;Parent=MsaT027508.1
Chr5 CDS 46359824 46359996 46359824 ID=cds.MsaT027508.1;Parent=MsaT027508.1
Chr5 exon 46360115 46360168 46360115 ID=MsaT027508.1.exon1;Parent=MsaT027508.1
Chr5 CDS 46360115 46360168 46360115 ID=cds.MsaT027508.1;Parent=MsaT027508.1
Gene Sequence

>MsaT027508.1

ATGTGTTTACATAATCGGGGATGCAACCTTAATGCGGAAGGTTCAGAGGTAGAGGACATGGACAATAGCTCTTGTTCGGAGAGTGATGTATGTTCCTCGGATGAAGATGTCGAAGACATGTACAGTTCGTTGTATGGGTGCAACTTTGACGATGAAACAGCGGTTGATTGCATGGCTGACCTTGACAGAATTAATTTTAAGGAAATAGGGTCGGATGAAATCATGAGGGATGGCGATGTTGTTCAACAAACCTTTGTTTGTCATAGAGAAGGTTACAGGGTTGAAAGTAATGCCGCCGAAAGGAAAAGAGAGCAGAAGCCAACTAGTAGGTGTGGTTGCATGGCAAAAATTCAACATTTTTTGCGGTGGCTGAATTATGTTAGATACAGAGAAATTGAGGCGGATTATGCATCTTCTTTTGGTGACCCCGTTTTGCAAACTCAACATAGAAAATTAGAGAAGTCAGCTTCAAGAATATATACAAGGTCAGTGTTTAAGCAGTTTAGGCCCGTATTGGAGAGATCTAGTCGGTGCAAAGTCGAAGGTGATGTGCGCAGTGGTTCCATTTTTACCTATAATGTTTTCAAATACCCTAGGGATGATATTCATTGGATCGTGACATTTTGCCAAGAACGGTTGACATTTAAATGTTCATGCAAAAGATTCGAGACATTTGGTATTCCTTGTGAACATATCTTACATGTTCTAGTGCATTTGAACATTGTTGTACTGCCAGAATGTCTTGTGATGGAACGATGGACCAAACGTGCTAAAGATGGAATCAATGCTCAAAATGCTAATAGTTCAAGTCACCGTGATCCTGCATTTGTAACTACGTATGTGATGTTCGTTGAGCGATGTAAGAGGATGGCCAATGCCGTGTTGAAGTGTGGAGATCCTGAATATATACACAAAACCATGGAAATGGTTGAAAAACACACCGAAACATTGGAATCATTAGGCAGGGGTGAAGTTGATGAATTGCCCGTGGTCGGTTCAAAGGATGTAAAAGTTTAG
Protein sequence

>MsaT027508.1

MCLHNRGCNLNAEGSEVEDMDNSSCSESDVCSSDEDVEDMYSSLYGCNFDDETAVDCMADLDRINFKEIGSDEIMRDGDVVQQTFVCHREGYRVESNAAERKREQKPTSRCGCMAKIQHFLRWLNYVRYREIEADYASSFGDPVLQTQHRKLEKSASRIYTRSVFKQFRPVLERSSRCKVEGDVRSGSIFTYNVFKYPRDDIHWIVTFCQERLTFKCSCKRFETFGIPCEHILHVLVHLNIVVLPECLVMERWTKRAKDGINAQNANSSSHRDPAFVTTYVMFVERCKRMANAVLKCGDPEYIHKTMEMVEKHTETLESLGRGEVDELPVVGSKDVKV*