AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa ssp. caerulea / MsaG028764

Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsaG028764 MtrunA17_Chr5g0436661 98.919 185 0 2 1 184 1 184 1.05e-135 376
MsaG028764 MtrunA17_Chr7g0238431 69.841 63 19 0 33 95 8 70 8.19e-28 103
MsaG028764 MtrunA17_Chr8g0392991 64.789 71 25 0 25 95 88 158 1.59e-26 103
MsaG028764 MtrunA17_Chr4g0043891 61.765 68 26 0 33 100 8 75 6.60e-26 99.8
MsaG028764 MtrunA17_Chr1g0153171 65.152 66 23 0 33 98 90 155 7.09e-26 99.4
MsaG028764 MtrunA17_Chr5g0405351 59.459 74 26 2 33 105 30 100 1.17e-24 97.4
MsaG028764 MtrunA17_Chr4g0031341 57.576 66 28 0 33 98 25 90 9.96e-24 94.4
MsaG028764 MtrunA17_Chr8g0385441 69.091 55 17 0 44 98 93 147 3.15e-20 82.8
MsaG028764 MtrunA17_Chr3g0125111 67.273 55 18 0 44 98 91 145 7.58e-20 81.6
MsaG028764 MtrunA17_Chr7g0223471 45.161 62 34 0 33 94 47 108 1.51e-15 73.6
MsaG028764 MtrunA17_Chr2g0283141 45.312 64 35 0 33 96 55 118 2.03e-15 73.2
MsaG028764 MtrunA17_Chr1g0212511 43.333 60 34 0 33 92 85 144 7.73e-12 62.0
MsaG028764 MtrunA17_Chr7g0222981 31.193 109 60 2 33 127 68 175 7.33e-11 58.5
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsaG028764 AT3G11260.1 58.011 181 61 5 14 184 7 182 5.13e-61 187
MsaG028764 AT5G05770.1 65.487 113 31 3 4 110 2 112 9.45e-41 134
MsaG028764 AT3G18010.1 71.429 63 18 0 33 95 76 138 7.54e-27 104
MsaG028764 AT2G28610.1 65.079 63 22 0 33 95 8 70 6.19e-26 100
MsaG028764 AT5G59340.1 57.333 75 27 1 21 95 7 76 2.72e-25 98.6
MsaG028764 AT1G46480.2 63.492 63 23 0 33 95 90 152 1.19e-24 95.5
MsaG028764 AT1G46480.1 63.492 63 23 0 33 95 90 152 7.04e-24 94.7
MsaG028764 AT2G17950.1 66.667 63 20 1 33 94 38 100 9.60e-24 95.1
MsaG028764 AT2G01500.1 67.273 55 18 0 33 87 61 115 1.13e-21 89.4
MsaG028764 AT2G33880.1 45.161 62 34 0 33 94 55 116 5.77e-15 72.0
MsaG028764 AT2G33880.2 45.161 62 34 0 33 94 55 116 6.57e-15 72.0
MsaG028764 AT5G45980.1 46.774 62 33 0 33 94 55 116 1.72e-14 70.5
MsaG028764 AT4G35550.1 42.623 61 35 0 33 93 99 159 5.73e-12 63.2
MsaG028764 AT1G20700.2 35.556 90 55 2 19 106 20 108 5.82e-12 60.8
MsaG028764 AT1G20700.1 35.556 90 55 2 19 106 82 170 1.19e-11 61.2
MsaG028764 AT1G20700.3 38.667 75 45 1 19 93 82 155 1.23e-11 61.2

Find 24 sgRNAs with CRISPR-Local

Find sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
AGTTTAACTTGTTCTGTTGT+TGG 0.328649 5:+68272118 None:intergenic
AGAGCAAGAATGTGTTCTAT+TGG 0.384217 5:-68272003 MsaT028764.1:CDS
GATTCACCAAATGAGTTCAA+TGG 0.392997 5:+68271548 None:intergenic
AGAGTCTCAATCACTCTATC+AGG 0.404414 5:+68271581 None:intergenic
ATGTACAATGGGAGAACAAA+TGG 0.428304 5:-68271462 MsaT028764.1:CDS
AACACCCACCATTGGACTTA+CGG 0.439714 5:-68271439 MsaT028764.1:CDS
GGTTTCAGAATCACAAAGCT+AGG 0.453724 5:-68271982 MsaT028764.1:CDS
TTCTGAATTTGATCAGTGCT+TGG 0.470346 5:+68272061 None:intergenic
AGTGGAAGCAGCAGCAGCAC+TGG 0.493876 5:-68272163 MsaT028764.1:CDS
AATATGGAAGAGAGCATGTC+AGG 0.497698 5:-68272226 MsaT028764.1:CDS
TTTGCATACACATGTACAAT+GGG 0.499345 5:-68271473 MsaT028764.1:CDS
AGTAGTTTCCATGGTAAAAG+TGG 0.503916 5:-68272181 MsaT028764.1:CDS
ACAAATGGAACACCCACCAT+TGG 0.543359 5:-68271447 MsaT028764.1:CDS
TCATCTGGAAGTAGTTTCCA+TGG 0.556114 5:-68272190 MsaT028764.1:CDS
GTTTCAGAATCACAAAGCTA+GGG 0.556495 5:-68271981 MsaT028764.1:CDS
GTATGCATGCAAATGAATGC+AGG 0.569996 5:-68271508 MsaT028764.1:CDS
AGCAGCACTGGCACAAAGTG+TGG 0.575447 5:-68272151 MsaT028764.1:CDS
CTCAACCGTAAGTCCAATGG+TGG 0.576156 5:+68271434 None:intergenic
GTGAATCAGAATCAGAGAAG+TGG 0.590084 5:-68271532 MsaT028764.1:CDS
CTGGCACAAAGTGTGGTCGT+TGG 0.591246 5:-68272144 MsaT028764.1:CDS
AAACTCAACCGTAAGTCCAA+TGG 0.615710 5:+68271431 None:intergenic
GTTTGCATACACATGTACAA+TGG 0.618786 5:-68271474 MsaT028764.1:CDS
TATGCATGCAAATGAATGCA+GGG 0.627141 5:-68271507 MsaT028764.1:CDS
TCAACCGTAAGTCCAATGGT+GGG 0.711399 5:+68271435 None:intergenic

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
Chromosome Type Strat End Strand Name
Chr5 gene 68271424 68272245 68271424 ID=MsaG028764
Chr5 mRNA 68271424 68272245 68271424 ID=MsaT028764.1;Parent=MsaG028764
Chr5 exon 68271424 68271626 68271424 ID=MsaT028764.1.exon2;Parent=MsaT028764.1
Chr5 CDS 68271424 68271626 68271424 ID=cds.MsaT028764.1;Parent=MsaT028764.1
Chr5 exon 68271894 68272245 68271894 ID=MsaT028764.1.exon1;Parent=MsaT028764.1
Chr5 CDS 68271894 68272245 68271894 ID=cds.MsaT028764.1;Parent=MsaT028764.1
Gene Sequence

>MsaT028764.1

ATGGAAGAGAGCATGTCAGGCTTTTGCATGAAATCATCTGGAAGTAGTTTCCATGGTAAAAGTGGAAGCAGCAGCAGCACTGGCACAAAGTGTGGTCGTTGGAATCCAACAACAGAACAAGTTAAACTTCTGACTGAACTTTTCAGAGCAGGGCTCAGAACTCCAAGCACTGATCAAATTCAGAAAATATCCAATCAACTTAGTTTTTATGGTAAGATAGAGAGCAAGAATGTGTTCTATTGGTTTCAGAATCACAAAGCTAGGGAAAGACAAAAACGTCGTAAGGTTTCTTTTGATGATGACAAGGATGTCATAGTTCATAGAGACAACTCTATGAATGCTTCAACACAAAGGTTTGCTGAGATGTACTCAGAACCTGATAGAGTGATTGAGACTCTCGAACTTTTTCCATTGAACTCATTTGGTGAATCAGAATCAGAGAAGTGGAGTATGCATGCAAATGAATGCAGGGAAAATACAATGTTTGCATACACATGTACAATGGGAGAACAAATGGAACACCCACCATTGGACTTACGGTTGAGTTTTGTGTAA
Protein sequence

>MsaT028764.1

MEESMSGFCMKSSGSSFHGKSGSSSSTGTKCGRWNPTTEQVKLLTELFRAGLRTPSTDQIQKISNQLSFYGKIESKNVFYWFQNHKARERQKRRKVSFDDDKDVIVHRDNSMNASTQRFAEMYSEPDRVIETLELFPLNSFGESESEKWSMHANECRENTMFAYTCTMGEQMEHPPLDLRLSFV*