AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa ssp. caerulea / MsaG017735

Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsaG017735 MtrunA17_Chr3g0144271 100.000 70 0 0 1 70 1 70 1.79e-45 149
MsaG017735 MtrunA17_Chr1g0147421 60.000 55 22 0 17 71 21 75 3.86e-19 79.0
MsaG017735 MtrunA17_Chr2g0316971 75.000 48 11 1 23 70 23 69 3.47e-18 76.3
MsaG017735 MtrunA17_Chr6g0453451 55.714 70 27 2 1 70 1 66 5.72e-18 75.5
MsaG017735 MtrunA17_Chr3g0113011 55.738 61 25 2 12 71 7 66 1.58e-17 69.3
MsaG017735 MtrunA17_Chr6g0461661 62.500 48 17 1 23 70 18 64 5.76e-16 70.1
MsaG017735 MtrunA17_Chr6g0484441 61.538 52 19 1 20 71 2 52 7.05e-16 69.7
MsaG017735 MtrunA17_Chr3g0139331 59.615 52 20 1 20 71 8 58 9.23e-16 69.3
MsaG017735 MtrunA17_Chr7g0253011 62.500 48 17 1 23 70 17 63 2.97e-15 68.2
MsaG017735 MtrunA17_Chr3g0091921 53.125 64 24 2 7 70 5 62 1.05e-14 66.2
MsaG017735 MtrunA17_Chr3g0113041 50.820 61 28 2 12 71 7 66 1.43e-14 61.6
MsaG017735 MtrunA17_Chr4g0060931 54.237 59 25 2 12 70 7 63 1.73e-14 65.9
MsaG017735 MtrunA17_Chr2g0309891 60.417 48 18 1 23 70 6 52 5.13e-14 64.7
MsaG017735 MtrunA17_Chr5g0433781 58.000 50 20 1 22 71 5 53 6.17e-14 64.3
MsaG017735 MtrunA17_Chr3g0109821 57.143 49 20 1 23 71 6 53 1.31e-13 63.5
MsaG017735 MtrunA17_Chr6g0481091 58.333 48 19 1 22 69 5 51 5.72e-13 60.8
MsaG017735 MtrunA17_Chr2g0312321 54.902 51 20 1 20 70 8 55 6.58e-13 61.2
MsaG017735 MtrunA17_Chr7g0214071 53.571 56 25 1 16 71 8 62 1.47e-12 60.1
MsaG017735 MtrunA17_Chr8g0345711 53.061 49 23 0 23 71 12 60 1.68e-12 58.9
MsaG017735 MtrunA17_Chr4g0017921 58.333 48 19 1 22 69 7 53 2.67e-12 59.7
MsaG017735 MtrunA17_Chr2g0318101 48.387 62 30 2 11 71 2 62 1.60e-11 57.8
MsaG017735 MtrunA17_Chr8g0345731 55.102 49 22 0 23 71 24 72 1.62e-11 56.2
MsaG017735 MtrunA17_Chr2g0309331 53.704 54 24 1 16 69 3 55 1.77e-11 57.4
MsaG017735 MtrunA17_Chr7g0217721 50.000 60 28 2 12 70 7 65 2.17e-11 57.4
MsaG017735 MtrunA17_Chr3g0124761 50.943 53 25 1 19 71 3 54 3.80e-11 56.2
MsaG017735 MtrunA17_Chr7g0217711 50.000 60 28 2 12 70 7 65 5.44e-11 55.1
MsaG017735 MtrunA17_Chr5g0417791 52.083 48 22 1 23 70 3 49 5.50e-11 55.8
MsaG017735 MtrunA17_Chr7g0263931 49.123 57 28 1 14 70 2 57 7.08e-11 55.8
MsaG017735 MtrunA17_Chr8g0345721 39.437 71 38 1 6 71 13 83 7.20e-11 55.1
MsaG017735 MtrunA17_Chr5g0405211 52.000 50 23 1 20 69 5 53 8.59e-11 55.5
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsaG017735 AT1G76420.1 70.000 70 19 2 1 70 1 68 3.90e-28 103
MsaG017735 AT5G53950.1 66.038 53 17 1 19 71 13 64 1.57e-18 77.8
MsaG017735 AT2G24430.2 58.065 62 23 2 11 70 2 62 4.47e-18 75.9
MsaG017735 AT2G24430.1 58.065 62 23 2 11 70 2 62 4.47e-18 75.9
MsaG017735 AT3G29035.1 58.462 65 23 2 6 70 10 70 1.95e-17 74.3
MsaG017735 AT5G39610.1 70.833 48 13 1 23 70 20 66 1.95e-17 73.9
MsaG017735 AT3G15170.1 58.491 53 21 1 18 70 15 66 9.03e-17 72.4
MsaG017735 AT5G18270.2 66.667 48 15 1 23 70 21 67 1.81e-16 71.6
MsaG017735 AT5G18270.1 66.667 48 15 1 23 70 21 67 1.85e-16 71.6
MsaG017735 AT5G61430.1 56.250 64 25 2 7 70 2 62 3.88e-16 70.9
MsaG017735 AT3G18400.1 61.538 52 19 1 20 71 2 52 5.39e-16 70.1
MsaG017735 AT5G07680.1 61.404 57 20 2 15 70 8 63 2.56e-15 68.6
MsaG017735 AT3G04060.1 62.500 48 17 1 23 70 20 66 8.60e-15 67.0
MsaG017735 AT5G07680.2 66.667 48 15 1 23 70 3 49 1.08e-14 66.6
MsaG017735 AT3G03200.1 63.265 49 17 1 23 71 6 53 1.57e-14 66.6
MsaG017735 AT5G17260.1 61.224 49 18 1 23 71 6 53 4.12e-14 65.5
MsaG017735 AT3G12977.1 50.980 51 24 1 20 70 15 64 9.15e-14 63.9
MsaG017735 AT1G56010.2 49.020 51 26 0 20 70 16 66 2.35e-13 63.2
MsaG017735 AT1G65910.1 55.102 49 21 1 23 71 6 53 2.56e-13 63.2
MsaG017735 AT3G17730.1 56.250 48 20 1 22 69 5 51 4.49e-13 61.6
MsaG017735 AT1G54330.1 58.333 48 19 1 23 70 6 52 1.10e-12 61.2
MsaG017735 AT4G10350.1 56.250 48 20 1 22 69 8 54 2.29e-12 60.5
MsaG017735 AT5G39820.1 43.662 71 34 3 1 70 1 66 6.76e-12 58.9
MsaG017735 AT1G33280.1 56.250 48 20 1 22 69 7 53 1.03e-11 58.5
MsaG017735 AT2G43000.1 49.123 57 27 2 14 70 10 64 1.16e-11 58.2
MsaG017735 AT1G01720.1 55.102 49 21 1 23 71 7 54 1.73e-11 57.8
MsaG017735 AT5G04395.1 52.000 50 23 1 20 69 25 73 2.75e-11 56.2
MsaG017735 AT5G13180.1 53.061 49 22 1 23 71 14 61 3.09e-11 56.6
MsaG017735 AT5G08790.1 54.717 53 23 1 18 70 2 53 6.49e-11 56.2
MsaG017735 AT4G17980.1 53.061 49 22 1 23 71 6 53 9.69e-11 55.5

Find 13 sgRNAs with CRISPR-Local

Find sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
AAGGTCTACCACCTGGTTTC+AGG 0.277471 3:-112614127 MsaT017735.1:CDS
AACCTTAGAAGCCAAATAAA+AGG 0.317144 3:+112614076 None:intergenic
TGTGAGCCATGGGAACTTCC+AGG 0.411730 3:-112613999 MsaT017735.1:intron
TAATGAGTTCTTCATCAGTT+GGG 0.509577 3:+112614099 None:intergenic
GTAATGAGTTCTTCATCAGT+TGG 0.518253 3:+112614098 None:intergenic
CCCATGGCTCACATCTATTG+AGG 0.558723 3:+112614009 None:intergenic
ACCTCAATAGATGTGAGCCA+TGG 0.559776 3:-112614010 MsaT017735.1:CDS
TCCCAGTATGATGTTAGCAA+TGG 0.563508 3:-112614195 None:intergenic
AAAATACCTGGAAGTTCCCA+TGG 0.594367 3:+112613993 None:intergenic
CCTCAATAGATGTGAGCCAT+GGG 0.602795 3:-112614009 MsaT017735.1:CDS
GTTGGGTGAAACCTGAAACC+AGG 0.645484 3:+112614116 None:intergenic
AACGAACAAGGTCTACCACC+TGG 0.649637 3:-112614134 MsaT017735.1:CDS
GGGTGAAACCTGAAACCAGG+TGG 0.745805 3:+112614119 None:intergenic

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
Chromosome Type Strat End Strand Name
Chr3 gene 112613063 112614210 112613063 ID=MsaG017735
Chr3 mRNA 112613063 112614210 112613063 ID=MsaT017735.1;Parent=MsaG017735
Chr3 exon 112613063 112613067 112613063 ID=MsaT017735.1.exon2;Parent=MsaT017735.1
Chr3 CDS 112613063 112613067 112613063 ID=cds.MsaT017735.1;Parent=MsaT017735.1
Chr3 exon 112614000 112614210 112614000 ID=MsaT017735.1.exon1;Parent=MsaT017735.1
Chr3 CDS 112614000 112614210 112614000 ID=cds.MsaT017735.1;Parent=MsaT017735.1
Gene Sequence

>MsaT017735.1

ATGATGTTAGCAATGGAAGAAGTACTATGTGAACTTAGTGATCATGAAAAGAAAAACGAACAAGGTCTACCACCTGGTTTCAGGTTTCACCCAACTGATGAAGAACTCATTACCTTTTATTTGGCTTCTAAGGTTTTCAAAAATACTTATTTCAATAATGTCAAGTTTGCTGAAGTTGACCTCAATAGATGTGAGCCATGGGAACTTCCAGGTTGA
Protein sequence

>MsaT017735.1

MMLAMEEVLCELSDHEKKNEQGLPPGFRFHPTDEELITFYLASKVFKNTYFNNVKFAEVDLNRCEPWELPG*