AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar zhongmu-4 / Msa1387270

Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
Msa1387270 MtrunA17_Chr3g0102581 96.429 56 2 0 1 56 19 74 1.27e-32 111
Msa1387270 MtrunA17_Chr3g0102571 81.818 55 10 0 1 55 45 99 1.43e-23 90.9
Msa1387270 MtrunA17_Chr8g0378851 69.811 53 16 0 1 53 45 97 8.86e-23 82.8
Msa1387270 MtrunA17_Chr8g0378831 72.727 55 15 0 1 55 45 99 4.78e-22 86.7
Msa1387270 MtrunA17_Chr3g0141871 64.516 62 21 1 1 62 45 105 5.07e-22 86.3
Msa1387270 MtrunA17_Chr5g0397261 61.111 54 21 0 1 54 54 107 3.35e-19 78.6
Msa1387270 MtrunA17_Chr4g0045841 64.815 54 19 0 1 54 68 121 5.24e-19 78.2
Msa1387270 MtrunA17_Chr8g0348481 57.377 61 26 0 1 61 50 110 6.65e-19 77.8
Msa1387270 MtrunA17_Chr8g0387401 59.259 54 22 0 1 54 65 118 2.71e-18 76.3
Msa1387270 MtrunA17_Chr7g0248461 57.377 61 26 0 1 61 51 111 3.79e-18 75.9
Msa1387270 MtrunA17_Chr4g0030151 66.667 54 18 0 1 54 52 105 7.10e-18 75.1
Msa1387270 MtrunA17_Chr3g0102611 80.952 42 8 0 1 42 45 86 1.60e-17 69.3
Msa1387270 MtrunA17_Chr4g0030231 59.259 54 22 0 1 54 53 106 4.62e-15 67.4
Msa1387270 MtrunA17_Chr3g0096631 45.902 61 33 0 1 61 38 98 1.50e-13 63.2
Msa1387270 MtrunA17_Chr8g0392811 47.273 55 29 0 1 55 130 184 6.71e-13 61.2
Msa1387270 MtrunA17_Chr8g0359091 47.273 55 29 0 1 55 39 93 8.22e-13 60.8
Msa1387270 MtrunA17_Chr5g0443351 46.296 54 29 0 2 55 36 89 1.10e-12 60.5
Msa1387270 MtrunA17_Chr2g0314321 47.273 55 29 0 1 55 38 92 1.67e-12 60.1
Msa1387270 MtrunA17_Chr4g0065851 45.455 55 30 0 1 55 38 92 2.48e-12 59.7
Msa1387270 MtrunA17_Chr2g0287271 45.455 55 30 0 1 55 38 92 2.48e-12 59.7
Msa1387270 MtrunA17_Chr6g0482681 45.455 55 30 0 1 55 102 156 2.88e-11 56.6
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
Msa1387270 AT2G18170.1 75.439 57 14 0 1 57 45 101 1.41e-23 90.9
Msa1387270 AT4G36450.1 78.182 55 12 0 1 55 45 99 2.50e-23 90.1
Msa1387270 AT1G59580.2 70.909 55 16 0 1 55 45 99 3.65e-22 87.4
Msa1387270 AT1G59580.1 70.909 55 16 0 1 55 45 99 3.65e-22 87.4
Msa1387270 AT1G10210.2 72.727 55 15 0 1 55 45 99 1.76e-21 85.5
Msa1387270 AT1G10210.3 72.727 55 15 0 1 55 45 99 1.76e-21 85.5
Msa1387270 AT1G10210.1 72.727 55 15 0 1 55 45 99 1.76e-21 85.5
Msa1387270 AT2G46070.1 66.667 54 18 0 1 54 54 107 1.07e-19 80.5
Msa1387270 AT2G46070.3 66.667 54 18 0 1 54 88 141 1.42e-19 80.5
Msa1387270 AT2G43790.1 62.963 54 20 0 1 54 76 129 1.43e-19 80.1
Msa1387270 AT3G59790.1 61.818 55 21 0 1 55 73 127 2.39e-19 79.7
Msa1387270 AT2G46070.2 66.667 54 18 0 1 54 54 107 2.59e-19 79.0
Msa1387270 AT4G01370.1 57.377 61 26 0 1 61 56 116 1.03e-18 77.8
Msa1387270 AT3G45640.1 62.963 54 20 0 1 54 51 104 3.34e-18 76.3
Msa1387270 AT1G07880.2 60.714 56 22 0 1 56 46 101 1.16e-16 72.0
Msa1387270 AT1G07880.1 60.714 56 22 0 1 56 46 101 1.17e-16 71.2
Msa1387270 AT4G11330.1 56.604 53 23 0 2 54 57 109 1.55e-16 71.6
Msa1387270 AT1G01560.2 57.407 54 23 0 1 54 53 106 1.37e-15 68.9
Msa1387270 AT1G01560.4 57.407 54 23 0 1 54 53 106 2.65e-15 67.8
Msa1387270 AT1G01560.1 57.407 54 23 0 1 54 53 106 2.65e-15 67.8
Msa1387270 AT1G01560.3 57.407 54 23 0 1 54 53 106 2.69e-15 68.2
Msa1387270 AT3G14720.1 50.909 55 27 0 1 55 38 92 2.35e-14 65.9
Msa1387270 AT1G53510.1 50.909 55 27 0 1 55 38 92 3.62e-14 65.1
Msa1387270 AT3G14720.2 50.909 55 27 0 1 55 38 92 4.60e-14 64.7
Msa1387270 AT3G14720.3 50.909 55 27 0 1 55 38 92 4.60e-14 64.7
Msa1387270 AT2G42880.2 49.091 55 28 0 1 55 38 92 1.44e-12 60.5
Msa1387270 AT2G42880.1 49.091 55 28 0 1 55 38 92 1.60e-12 60.5
Msa1387270 AT5G19010.1 45.455 55 30 0 1 55 38 92 3.42e-12 59.7
Msa1387270 AT3G18040.5 49.091 55 28 0 1 55 31 85 4.80e-12 59.3
Msa1387270 AT3G18040.1 49.091 55 28 0 1 55 36 90 4.80e-12 59.3
Msa1387270 AT3G18040.4 49.091 55 28 0 1 55 145 199 4.83e-12 59.3
Msa1387270 AT3G18040.3 49.091 55 28 0 1 55 145 199 4.84e-12 59.3
Msa1387270 AT1G18150.3 47.273 55 29 0 1 55 117 171 5.16e-12 58.9
Msa1387270 AT1G18150.2 47.273 55 29 0 1 55 117 171 5.16e-12 58.9
Msa1387270 AT1G18150.1 47.273 55 29 0 1 55 117 171 5.16e-12 58.9
Msa1387270 AT1G73670.1 49.091 55 28 0 1 55 103 157 2.42e-11 57.0

Find 6 sgRNAs with CRISPR-Local

Find 6 sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
CTCATTGGTCTCCTTATTGA+TGG 0.239552 tig0020883:+68725 None:intergenic
TTGATGCACTGAGAACTTTA+TGG 0.283928 tig0020883:-68659 Msa1387270:CDS
CTTCATTGCGACTTTCTCAT+TGG 0.321566 tig0020883:+68710 None:intergenic
TGATGCACTGAGAACTTTAT+GGG 0.447426 tig0020883:-68658 Msa1387270:CDS
TGAAGCTGCTTAGACATGTT+CGG 0.512121 tig0020883:-68632 Msa1387270:CDS
GGTGTGCTCAGCCATCAATA+AGG 0.538367 tig0020883:-68736 Msa1387270:CDS

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
TTGATGCACTGAGAACTTTA+TGG - tig0020883:68645-68664 Msa1387270:CDS 35.0%
TGATGCACTGAGAACTTTAT+GGG - tig0020883:68646-68665 Msa1387270:CDS 35.0%
! CTCATTGGTCTCCTTATTGA+TGG + tig0020883:68582-68601 None:intergenic 40.0%
CTTCATTGCGACTTTCTCAT+TGG + tig0020883:68597-68616 None:intergenic 40.0%
TGAAGCTGCTTAGACATGTT+CGG - tig0020883:68672-68691 Msa1387270:CDS 40.0%
GGTGTGCTCAGCCATCAATA+AGG - tig0020883:68568-68587 Msa1387270:CDS 50.0%
Chromosome Type Strat End Strand Name
tig0020883 gene 68566 68760 68566 ID=Msa1387270;Name=Msa1387270
tig0020883 mRNA 68566 68760 68566 ID=Msa1387270-mRNA-1;Parent=Msa1387270;Name=Msa1387270-mRNA-1;_AED=0.44;_eAED=0.47;_QI=0|-1|0|1|-1|1|1|0|64
tig0020883 exon 68566 68760 68566 ID=Msa1387270-mRNA-1:exon:10554;Parent=Msa1387270-mRNA-1
tig0020883 CDS 68566 68760 68566 ID=Msa1387270-mRNA-1:cds;Parent=Msa1387270-mRNA-1
Gene Sequence

>Msa1387270

ATGGTGTGCTCAGCCATCAATAAGGAGACCAATGAGAAAGTCGCAATGAAGAAGATTAGCAATGTATTTGATAATTTGATTGATGCACTGAGAACTTTATGGGAGATGAAGCTGCTTAGACATGTTCGGCACGAGAATGTGATCACTTTGAAAGATGTTATGATACTAGCTAGATCAAAAAACAACATGCTTTAA
Protein sequence

>Msa1387270

MVCSAINKETNEKVAMKKISNVFDNLIDALRTLWEMKLLRHVRHENVITLKDVMILARSKNNML*