AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa ssp. caerulea / MsaG003728


Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsaG003728 MtrunA17_Chr1g0188911 54.000 200 32 7 1 160 1 180 4.59e-57 177
MsaG003728 MtrunA17_Chr1g0188901 65.217 161 38 6 1 146 1 158 1.26e-55 173
MsaG003728 MtrunA17_Chr1g0197281 44.516 155 45 5 44 160 135 286 3.89e-27 103
MsaG003728 MtrunA17_Chr7g0263121 51.899 79 32 2 63 141 44 116 4.58e-19 79.3
MsaG003728 MtrunA17_Chr1g0212561 48.750 80 34 2 62 139 44 118 1.44e-18 78.6
MsaG003728 MtrunA17_Chr7g0222831 41.748 103 52 2 39 141 16 110 3.44e-18 77.0
MsaG003728 MtrunA17_Chr2g0320311 40.708 113 36 2 60 141 126 238 8.14e-18 78.2
MsaG003728 MtrunA17_Chr7g0263131 48.101 79 36 2 63 141 34 107 1.35e-17 75.1
MsaG003728 MtrunA17_Chr1g0182161 48.052 77 32 1 63 139 39 107 1.40e-17 75.5
MsaG003728 MtrunA17_Chr2g0327901 38.947 95 43 1 47 141 18 97 1.70e-16 71.6
MsaG003728 MtrunA17_Chr1g0180311 39.450 109 41 2 56 139 113 221 1.97e-15 71.6
MsaG003728 MtrunA17_Chr1g0182181 44.578 83 28 3 63 139 35 105 4.17e-15 68.6
MsaG003728 MtrunA17_Chr4g0012691 43.210 81 42 1 63 139 220 300 6.27e-14 68.2
MsaG003728 MtrunA17_Chr1g0207451 39.744 78 41 1 63 140 83 154 9.80e-12 61.2
MsaG003728 MtrunA17_Chr7g0231181 40.244 82 41 1 58 139 235 308 1.09e-11 61.6
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsaG003728 AT2G28200.1 44.762 105 37 2 56 139 108 212 2.55e-22 90.5
MsaG003728 AT3G10470.1 46.729 107 32 3 58 139 177 283 2.13e-21 89.4
MsaG003728 AT5G04390.1 40.602 133 50 5 41 149 136 263 1.19e-20 87.0
MsaG003728 AT5G03510.1 42.157 102 39 2 62 143 117 218 2.51e-17 77.4
MsaG003728 AT2G37430.1 45.263 95 41 3 56 149 40 124 1.34e-16 73.2
MsaG003728 AT3G53600.1 35.043 117 60 3 23 139 15 115 3.74e-16 72.0
MsaG003728 AT5G59820.1 34.848 132 58 4 8 139 1 104 3.85e-16 71.6
MsaG003728 AT3G46090.1 47.436 78 33 1 62 139 39 108 1.18e-15 70.5
MsaG003728 AT3G46080.1 42.500 80 40 1 62 141 36 109 4.11e-15 68.9
MsaG003728 AT2G28710.1 41.414 99 42 4 41 139 18 100 6.03e-14 65.9
MsaG003728 AT3G49930.1 42.353 85 36 2 63 140 94 172 6.97e-14 66.6
MsaG003728 AT5G67450.1 37.363 91 44 1 63 140 97 187 4.69e-13 65.1
MsaG003728 AT2G45120.1 45.455 77 37 1 63 139 194 265 1.80e-12 63.9
MsaG003728 AT3G60580.1 44.304 79 37 2 63 139 173 246 4.45e-12 62.8
MsaG003728 AT5G61470.1 38.835 103 48 4 50 151 216 304 6.41e-12 62.4
MsaG003728 AT3G46070.1 38.462 78 44 1 62 139 35 108 9.67e-12 60.1
MsaG003728 AT1G02030.1 38.272 81 45 1 59 139 156 231 9.72e-12 61.6
MsaG003728 AT5G04340.1 34.524 84 50 1 62 140 88 171 2.45e-11 60.1
MsaG003728 AT5G43170.1 44.304 79 31 4 63 140 75 141 2.88e-11 59.3
MsaG003728 AT1G27730.1 40.000 80 46 1 63 140 80 159 4.15e-11 59.3

Find 34 sgRNAs with CRISPR-Local

Find sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
ATTCACTTCGGTGACATTAA+TGG 0.269516 1:-61173026 None:intergenic
GGTTCTTCATCTTCTTTGTC+TGG 0.341589 1:-61173421 None:intergenic
TGCACCGACACCAATGGCTT+TGG 0.390424 1:+61173396 MsaT003728.1:CDS
TTCACATCTGGCCAGGGACT+TGG 0.398731 1:+61173352 MsaT003728.1:CDS
GTTTATGGGTGCTCCATTTG+TGG 0.413258 1:+61173322 MsaT003728.1:CDS
GGTAGTGGTGGCGGTGGTGT+TGG 0.425511 1:-61173275 None:intergenic
GAATAAGCAATGATGGAGAA+AGG 0.431980 1:-61173088 None:intergenic
TTCACTTCATTTCAAGCACT+TGG 0.432350 1:+61173190 MsaT003728.1:CDS
TGTGAATTTAAAACCACAAA+TGG 0.433756 1:-61173335 None:intergenic
CGAAGTGAATATAACTCAAA+AGG 0.464844 1:+61173039 MsaT003728.1:CDS
CCTAGAAAAGTTCATAGAAA+AGG 0.473509 1:+61173238 MsaT003728.1:CDS
TTGTCTGGTTCCAAAGCCAT+TGG 0.473795 1:-61173406 None:intergenic
AGTAGAAGAATAAGCAATGA+TGG 0.477070 1:-61173095 None:intergenic
GTGCATGGTGAAAGTTCATA+TGG 0.491645 1:-61173378 None:intergenic
AATAAGCAATGATGGAGAAA+GGG 0.498901 1:-61173087 None:intergenic
ACATCTGGCCAGGGACTTGG+TGG 0.508556 1:+61173355 MsaT003728.1:CDS
AGAAAGGGATAGGAGATTGT+GGG 0.519333 1:-61173072 None:intergenic
ACTTCATTTCAAGCACTTGG+AGG 0.520190 1:+61173193 MsaT003728.1:CDS
GCTTATTCTTCTACTAGAGA+AGG 0.521996 1:+61173103 MsaT003728.1:CDS
GCAATGATGGAGAAAGGGAT+AGG 0.524368 1:-61173082 None:intergenic
TCATATGGCCACCAAGTCCC+TGG 0.530893 1:-61173363 None:intergenic
GAGAAAGGGATAGGAGATTG+TGG 0.535781 1:-61173073 None:intergenic
AAAGGGATAGGAGATTGTGG+GGG 0.541180 1:-61173070 None:intergenic
GTTGTTGTTGGTAGTGGTGG+CGG 0.549040 1:-61173284 None:intergenic
GTTGTTGTTGTTGGTAGTGG+TGG 0.552731 1:-61173287 None:intergenic
GAAAGGGATAGGAGATTGTG+GGG 0.561722 1:-61173071 None:intergenic
AAGCCATTGGTGTCGGTGCA+TGG 0.561803 1:-61173393 None:intergenic
TTTAAATTCACATCTGGCCA+GGG 0.567254 1:+61173346 MsaT003728.1:CDS
GTTGTTGGTAGTGGTGGCGG+TGG 0.571995 1:-61173281 None:intergenic
GGTTCCAAAGCCATTGGTGT+CGG 0.578746 1:-61173400 None:intergenic
TCACCATGCACCGACACCAA+TGG 0.579211 1:+61173390 MsaT003728.1:CDS
AATGGAGCACCCATAAACCT+TGG 0.585183 1:-61173317 None:intergenic
AAGGGATAGGAGATTGTGGG+GGG 0.595859 1:-61173069 None:intergenic
TATTCTTCTACTAGAGAAGG+AGG 0.628197 1:+61173106 MsaT003728.1:CDS

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
Chromosome Type Strat End Strand Name
Chr1 gene 61172977 61173459 61172977 ID=MsaG003728
Chr1 mRNA 61172977 61173459 61172977 ID=MsaT003728.1;Parent=MsaG003728
Chr1 exon 61172977 61173459 61172977 ID=MsaT003728.1.exon1;Parent=MsaT003728.1
Chr1 CDS 61172977 61173459 61172977 ID=cds.MsaT003728.1;Parent=MsaT003728.1
Gene Sequence

>MsaT003728.1

ATGGAAGCATCTCACGAACAACAACTCTCACTAAACTCTACAAAACACACCATTAATGTCACCGAAGTGAATATAACTCAAAAGGTTATAAACCCCCCACAATCTCCTATCCCTTTCTCCATCATTGCTTATTCTTCTACTAGAGAAGGAGGAACAAGAACAAGAGAAAGTGCACGTTACAATGTGTATACATGCAAAACATGCAACAAAACATTCACTTCATTTCAAGCACTTGGAGGCCATAGAAAAGTTCACAAGAAGCCTAGAAAAGTTCATAGAAAAGGTCACAACAACAACACCAACACCACCGCCACCACTACCAACAACAACAACAAAAAATCCAAGGTTTATGGGTGCTCCATTTGTGGTTTTAAATTCACATCTGGCCAGGGACTTGGTGGCCATATGAACTTTCACCATGCACCGACACCAATGGCTTTGGAACCAGACAAAGAAGATGAAGAACCACCTACAAAAAAATGA

Protein sequence

>MsaT003728.1

MEASHEQQLSLNSTKHTINVTEVNITQKVINPPQSPIPFSIIAYSSTREGGTRTRESARYNVYTCKTCNKTFTSFQALGGHRKVHKKPRKVHRKGHNNNTNTTATTTNNNNKKSKVYGCSICGFKFTSGQGLGGHMNFHHAPTPMALEPDKEDEEPPTKK*