AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa ssp. caerulea / MsaG039445

Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsaG039445 MtrunA17_Chr7g0258471 87.941 340 30 3 1 332 75 411 0.0 542
MsaG039445 MtrunA17_Chr1g0175021 52.521 238 74 10 107 316 8 234 2.85e-59 190
MsaG039445 MtrunA17_Chr3g0122411 34.340 265 119 8 17 249 120 361 9.25e-33 126
MsaG039445 MtrunA17_Chr7g0231911 45.113 133 61 2 14 139 101 228 3.03e-29 114
MsaG039445 MtrunA17_Chr8g0360361 62.195 82 24 1 64 138 62 143 1.63e-28 108
MsaG039445 MtrunA17_Chr4g0061651 47.287 129 57 2 13 134 73 197 4.27e-28 113
MsaG039445 MtrunA17_Chr1g0175031 59.406 101 32 2 14 109 20 116 6.04e-28 105
MsaG039445 MtrunA17_Chr2g0308321 51.908 131 53 4 39 162 144 271 1.37e-27 112
MsaG039445 MtrunA17_Chr4g0046991 63.636 77 21 1 64 133 70 146 2.07e-27 105
MsaG039445 MtrunA17_Chr3g0132091 46.429 112 53 1 35 139 41 152 1.67e-26 107
MsaG039445 MtrunA17_Chr5g0420051 62.338 77 22 1 65 134 179 255 6.50e-26 107
MsaG039445 MtrunA17_Chr8g0334671 59.524 84 27 1 57 133 177 260 4.16e-25 103
MsaG039445 MtrunA17_Chr7g0224821 55.682 88 32 1 62 142 72 159 1.29e-24 102
MsaG039445 MtrunA17_Chr2g0282521 57.471 87 26 2 56 135 57 139 1.30e-24 97.4
MsaG039445 MtrunA17_Chr2g0302791 45.378 119 51 2 52 163 124 235 2.26e-23 101
MsaG039445 MtrunA17_Chr1g0194121 45.926 135 59 4 10 133 89 220 2.94e-23 100
MsaG039445 MtrunA17_Chr8g0386271 51.136 88 36 1 62 142 94 181 3.55e-23 99.0
MsaG039445 MtrunA17_Chr8g0377401 43.511 131 49 3 9 132 122 234 4.78e-23 96.3
MsaG039445 MtrunA17_Chr8g0377421 41.935 124 62 3 18 133 84 205 5.27e-23 97.1
MsaG039445 MtrunA17_Chr1g0162871 51.042 96 40 1 51 139 88 183 1.12e-22 99.0
MsaG039445 MtrunA17_Chr7g0270541 59.459 74 23 1 67 133 145 218 3.29e-21 94.7
MsaG039445 MtrunA17_Chr2g0286661 45.946 74 33 1 67 133 103 176 3.14e-15 76.6
MsaG039445 MtrunA17_Chr8g0377431 40.909 110 59 3 4 109 86 193 5.21e-15 72.8
MsaG039445 MtrunA17_Chr2g0317041 57.778 45 19 0 65 109 97 141 9.97e-11 59.7
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsaG039445 AT2G42200.1 40.885 384 119 18 17 332 32 375 4.46e-58 192
MsaG039445 AT3G57920.1 37.634 372 132 17 17 332 27 354 7.31e-54 180
MsaG039445 AT1G27370.6 42.958 142 56 4 8 134 119 250 1.84e-28 113
MsaG039445 AT5G43270.3 50.000 128 56 2 16 136 119 245 2.95e-28 114
MsaG039445 AT5G43270.1 50.000 128 56 2 16 136 119 245 2.95e-28 114
MsaG039445 AT5G43270.2 50.000 128 56 2 16 136 119 245 2.95e-28 114
MsaG039445 AT1G27370.1 42.958 142 56 4 8 134 119 250 4.83e-28 112
MsaG039445 AT1G27370.5 42.958 142 56 4 8 134 119 250 4.83e-28 112
MsaG039445 AT1G27370.3 42.958 142 56 4 8 134 119 250 4.83e-28 112
MsaG039445 AT1G27370.2 42.958 142 56 4 8 134 119 250 4.83e-28 112
MsaG039445 AT1G27370.4 42.958 142 56 4 8 134 119 250 4.83e-28 112
MsaG039445 AT1G27370.7 42.958 142 56 4 8 134 119 250 4.83e-28 112
MsaG039445 AT1G69170.1 48.905 137 51 4 51 178 109 235 1.08e-27 112
MsaG039445 AT1G27360.2 44.776 134 64 3 8 134 119 249 1.47e-27 111
MsaG039445 AT1G27360.1 44.776 134 64 3 8 134 119 249 1.47e-27 111
MsaG039445 AT1G27360.3 44.776 134 64 3 8 134 119 249 1.47e-27 111
MsaG039445 AT1G27360.4 44.776 134 64 3 8 134 119 249 1.47e-27 111
MsaG039445 AT2G33810.1 62.162 74 21 1 67 133 54 127 5.66e-26 100
MsaG039445 AT5G50570.1 43.333 150 71 3 4 139 31 180 1.16e-25 105
MsaG039445 AT5G50570.2 43.333 150 71 3 4 139 31 180 1.16e-25 105
MsaG039445 AT5G50670.1 43.333 150 71 3 4 139 31 180 1.16e-25 105
MsaG039445 AT5G50670.2 43.333 150 71 3 4 139 31 180 1.16e-25 105
MsaG039445 AT1G02065.1 47.200 125 48 3 16 133 148 261 3.88e-25 103
MsaG039445 AT3G15270.1 59.459 74 23 1 67 133 63 136 9.78e-25 99.4
MsaG039445 AT2G47070.1 54.839 93 28 2 51 136 97 182 4.87e-24 103
MsaG039445 AT1G53160.3 41.481 135 55 4 55 180 47 166 6.53e-24 96.7
MsaG039445 AT3G60030.1 43.802 121 61 1 26 139 86 206 8.08e-24 102
MsaG039445 AT1G53160.2 53.846 91 30 2 55 138 47 132 1.53e-23 95.9
MsaG039445 AT1G53160.1 53.846 91 30 2 55 138 47 132 1.53e-23 95.9
MsaG039445 AT1G76580.2 52.273 88 35 1 65 145 112 199 3.06e-22 98.2
MsaG039445 AT1G76580.3 52.273 88 35 1 65 145 112 199 3.51e-22 97.8
MsaG039445 AT1G76580.1 52.273 88 35 1 65 145 112 199 4.21e-22 97.8
MsaG039445 AT1G20980.1 54.444 90 33 2 51 133 105 193 8.71e-21 94.0
MsaG039445 AT5G18830.2 41.758 91 42 2 52 135 127 213 1.62e-14 75.1
MsaG039445 AT5G18830.3 41.758 91 42 2 52 135 127 213 1.82e-14 74.7
MsaG039445 AT5G18830.1 41.758 91 42 2 52 135 127 213 1.86e-14 74.7
MsaG039445 AT1G02065.2 42.553 94 43 2 16 109 148 230 4.40e-13 68.6
MsaG039445 AT2G47070.2 62.264 53 13 1 91 136 1 53 3.41e-12 67.8

Find 96 sgRNAs with CRISPR-Local

Find sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
TGCCCTACTGTTACTGTTTC+TGG 0.047497 7:-89134141 MsaT039445.1:CDS
TCTCTTAATGGCTTAAAATT+TGG 0.163500 7:-89134387 MsaT039445.1:CDS
GATTGTTGTGGTCTGATTTC+CGG 0.239907 7:+89131541 None:intergenic
TCGGAAGAGTCCTCTCTTAA+TGG 0.276595 7:-89134399 MsaT039445.1:CDS
GAATTTCTCAGACTAAGTTT+TGG 0.340913 7:+89131575 None:intergenic
ATTGTTGTGGTCTGATTTCC+GGG 0.344809 7:+89131542 None:intergenic
AACCTCACACCAATGGATTC+AGG 0.357567 7:-89134435 None:intergenic
AATAACATGCTGAATTTCAA+TGG 0.376067 7:-89131320 MsaT039445.1:CDS
GCAGGGAAGGAGGCATTATA+TGG 0.380825 7:-89131150 MsaT039445.1:CDS
TCTTCTTCTGGTTCAAAGAA+AGG 0.384894 7:-89134285 MsaT039445.1:CDS
ATGTGACCCCGGCCAAGATC+GGG 0.400840 7:+89131221 None:intergenic
CGAGCTTGATCTGTCGCAGC+AGG 0.402927 7:-89131168 MsaT039445.1:CDS
AACAATCGGTTGGCCTTGGC+CGG 0.403146 7:-89131525 MsaT039445.1:CDS
CAGAGGTGGCAGCTTCTTGA+TGG 0.405708 7:-89131612 MsaT039445.1:CDS
TTCAGGAGGCAACTCTTCTT+CGG 0.406824 7:-89134418 MsaT039445.1:CDS
AGTTTCCTCGGGAGGATGTC+TGG 0.417156 7:+89131433 None:intergenic
GACTCCAGTGTAAGTTTCCT+CGG 0.430936 7:+89131421 None:intergenic
ATATGGATGTAGAACATTCC+AGG 0.443177 7:-89131133 MsaT039445.1:CDS
CTCTTCTGTCAAATCAAACA+TGG 0.449340 7:-89131376 MsaT039445.1:CDS
ATGTTATTCAATCCAGGACT+TGG 0.463473 7:+89131335 None:intergenic
CAGCTTGCTGAGTTTGATCA+AGG 0.464199 7:-89131887 MsaT039445.1:CDS
AATGTGACCCCGGCCAAGAT+CGG 0.466474 7:+89131220 None:intergenic
AGGTTAAGAGAGAGCTGGGT+GGG 0.469309 7:+89131810 None:intergenic
CAATCGGTTGGCCTTGGCCG+GGG 0.476765 7:-89131523 MsaT039445.1:CDS
TTGGCCTTGGCCGGGGAACA+CGG 0.477293 7:-89131516 MsaT039445.1:CDS
ACAATCGGTTGGCCTTGGCC+GGG 0.480117 7:-89131524 MsaT039445.1:CDS
TGACCATTGAGAAGATTCAT+AGG 0.480203 7:+89131109 None:intergenic
TTCTTGCAAGGTTCGGTAGG+TGG 0.483739 7:-89131473 MsaT039445.1:CDS
TTCAGCATGTTATTCAATCC+AGG 0.487732 7:+89131329 None:intergenic
TATCTTCAAAATAGATTCGT+TGG 0.488281 7:+89134364 None:intergenic
TATGACCAGCTAGTCGTCTC+CGG 0.489324 7:+89131852 None:intergenic
CTACCGAACCTTGCAAGAAA+AGG 0.489810 7:+89131477 None:intergenic
CCACAACAATCGGTTGGCCT+TGG 0.489925 7:-89131529 MsaT039445.1:CDS
TTGAGAAGATTCATAGGCCC+TGG 0.491228 7:+89131115 None:intergenic
GTGGTCTGATTTCCGGGTGG+TGG 0.494603 7:+89131548 None:intergenic
GACTCCGTGTTCCCCGGCCA+AGG 0.497185 7:+89131512 None:intergenic
CCACCTCGGTGTCAAGTTGA+AGG 0.497533 7:-89134234 MsaT039445.1:CDS
ATAACATGCTGAATTTCAAT+GGG 0.498202 7:-89131319 MsaT039445.1:CDS
CTGTTTCTGGTCTACAACAA+AGG 0.499773 7:-89134128 MsaT039445.1:intron
CGAAACGCAGAACCAAGTCC+TGG 0.499881 7:-89131347 MsaT039445.1:CDS
GGAAATCAGACCACAACAAT+CGG 0.506712 7:-89131539 MsaT039445.1:CDS
GTAGGTGGGACAAGCTTCCC+TGG 0.516239 7:-89131458 MsaT039445.1:CDS
TCGGGAGGATGTCTGGCACC+AGG 0.517700 7:+89131440 None:intergenic
TCTTGCAAGGTTCGGTAGGT+GGG 0.521061 7:-89131472 MsaT039445.1:CDS
AGAAGAAGAACTAGCAGCAA+TGG 0.529953 7:+89134305 None:intergenic
GGTTAAGAGAGAGCTGGGTG+GGG 0.530104 7:+89131811 None:intergenic
CCTCTCGGTAGCCAACTCTC+TGG 0.530975 7:-89131191 MsaT039445.1:CDS
GTTAAGAGAGAGCTGGGTGG+GGG 0.532570 7:+89131812 None:intergenic
TCTGGTTCAAAGAAAGGAAG+AGG 0.539167 7:-89134279 MsaT039445.1:CDS
ACGTGAGGTTAAGAGAGAGC+TGG 0.539304 7:+89131805 None:intergenic
CGTGAGGTTAAGAGAGAGCT+GGG 0.546066 7:+89131806 None:intergenic
CGGGAGGATGTCTGGCACCA+GGG 0.551042 7:+89131441 None:intergenic
CAACTTCCTACATCTTCTCA+TGG 0.554762 7:-89131284 MsaT039445.1:CDS
GATCAAGCTCGCCAGAGAGT+TGG 0.556325 7:+89131180 None:intergenic
ACTCCAGTGTAAGTTTCCTC+GGG 0.556391 7:+89131422 None:intergenic
GATGGCGACTCCGTGTTCCC+CGG 0.557604 7:+89131506 None:intergenic
TCTTCTGTCAAATCAAACAT+GGG 0.559601 7:-89131375 MsaT039445.1:CDS
AGTTGCCGGAGACGACTAGC+TGG 0.563944 7:-89131857 MsaT039445.1:CDS
AGAAGAACTAGCAGCAATGG+TGG 0.566347 7:+89134308 None:intergenic
GGGCCTATGAATCTTCTCAA+TGG 0.567201 7:-89131112 MsaT039445.1:CDS
TCCTACATCTTCTCATGGTG+TGG 0.568881 7:-89131279 MsaT039445.1:CDS
GACCAGAAACAGTAACAGTA+GGG 0.576648 7:+89134139 None:intergenic
TATGGATGTAGAACATTCCA+GGG 0.576787 7:-89131132 MsaT039445.1:CDS
AGATGTAGGAAGTTGTGTCA+TGG 0.581014 7:+89131292 None:intergenic
TTGATCTGTCGCAGCAGGGA+AGG 0.589630 7:-89131163 MsaT039445.1:CDS
ATCTGTCGCAGCAGGGAAGG+AGG 0.591353 7:-89131160 MsaT039445.1:CDS
ATCAGACCACAACAATCGGT+TGG 0.596554 7:-89131535 MsaT039445.1:CDS
AGAAATTCACTTCCACCACC+CGG 0.604886 7:-89131560 MsaT039445.1:CDS
GGTCACATTTCACAGCCTCT+CGG 0.605085 7:-89131206 MsaT039445.1:CDS
AGACCAGAAACAGTAACAGT+AGG 0.606139 7:+89134138 None:intergenic
TGTGACCCCGGCCAAGATCG+GGG 0.609613 7:+89131222 None:intergenic
ATTGTTTGAAACTTGATGCA+TGG 0.609636 7:+89131256 None:intergenic
GGTTCAAAGAAAGGAAGAGG+TGG 0.614988 7:-89134276 MsaT039445.1:CDS
TGCAAGAAAAGGTTGTCAGA+TGG 0.616796 7:+89131488 None:intergenic
GTGACCCCGGCCAAGATCGG+GGG 0.625314 7:+89131223 None:intergenic
CCTCCCGAGGAAACTTACAC+TGG 0.634056 7:-89131425 MsaT039445.1:CDS
CCAGTGTAAGTTTCCTCGGG+AGG 0.637090 7:+89131425 None:intergenic
GAGGCTGTGAAATGTGACCC+CGG 0.637432 7:+89131210 None:intergenic
GAGCTTGATCTGTCGCAGCA+GGG 0.644837 7:-89131167 MsaT039445.1:CDS
AGAAAGCCTGGCAAAACGTG+AGG 0.647012 7:+89131790 None:intergenic
CCAAGGCCAACCGATTGTTG+TGG 0.647809 7:+89131529 None:intergenic
CTTCTGTCAAATCAAACATG+GGG 0.651750 7:-89131374 MsaT039445.1:CDS
GCCACACCATGAGAAGATGT+AGG 0.656605 7:+89131278 None:intergenic
GTTCAAAGAAAGGAAGAGGT+GGG 0.656815 7:-89134275 MsaT039445.1:CDS
GAGTTGCCTCCTGAATCCAT+TGG 0.670435 7:+89134426 None:intergenic
TTCAACATTCTCAACCACCT+CGG 0.675950 7:-89134248 MsaT039445.1:CDS
TGGTGCCAGACATCCTCCCG+AGG 0.679309 7:-89131438 MsaT039445.1:CDS
CCTTCAACTTGACACCGAGG+TGG 0.683119 7:+89134234 None:intergenic
GAGGTTAAGAGAGAGCTGGG+TGG 0.689151 7:+89131809 None:intergenic
TCAAGTTTCAAACAATTACG+AGG 0.690642 7:-89131249 MsaT039445.1:CDS
CCAGAGAGTTGGCTACCGAG+AGG 0.703528 7:+89131191 None:intergenic
ACAGGTAACAGTGACAGAGG+TGG 0.704297 7:-89131626 MsaT039445.1:intron
TCGACAGGTAACAGTGACAG+AGG 0.705027 7:-89131629 MsaT039445.1:intron
CTCACACCAATGGATTCAGG+AGG 0.709638 7:-89134432 None:intergenic
CATCCTTCAACTTGACACCG+AGG 0.727400 7:+89134231 None:intergenic
GTTGTGGTCTGATTTCCGGG+TGG 0.754915 7:+89131545 None:intergenic

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
Chromosome Type Strat End Strand Name
Chr7 gene 89131103 89134445 89131103 ID=MsaG039445
Chr7 mRNA 89131103 89134445 89131103 ID=MsaT039445.1;Parent=MsaG039445
Chr7 exon 89131103 89131644 89131103 ID=MsaT039445.1.exon3;Parent=MsaT039445.1
Chr7 CDS 89131103 89131644 89131103 ID=cds.MsaT039445.1;Parent=MsaT039445.1
Chr7 exon 89131777 89131916 89131777 ID=MsaT039445.1.exon2;Parent=MsaT039445.1
Chr7 CDS 89131777 89131916 89131777 ID=cds.MsaT039445.1;Parent=MsaT039445.1
Chr7 exon 89134129 89134445 89134129 ID=MsaT039445.1.exon1;Parent=MsaT039445.1
Chr7 CDS 89134129 89134445 89134129 ID=cds.MsaT039445.1;Parent=MsaT039445.1
Gene Sequence

>MsaT039445.1

ATGGATTCAGGAGGCAACTCTTCTTCGGAAGAGTCCTCTCTTAATGGCTTAAAATTTGGCCAACGAATCTATTTTGAAGATACAGCTCTTGCTACTGCTGCTGCTGCTACTTCTACCACCATTGCTGCTAGTTCTTCTTCTTCTTCTGGTTCAAAGAAAGGAAGAGGTGGGTCAGTTCAACATTCTCAACCACCTCGGTGTCAAGTTGAAGGATGTAAACTAGATCTGACTGATGCTAAAGCTTACTATTCTAGACACAAAGTTTGTAGCATGCACTCTAAGTGCCCTACTGTTACTGTTTCTGGTCTACAACAAAGATTTCATCAGCTTGCTGAGTTTGATCAAGGAAAAAGAAGTTGCCGGAGACGACTAGCTGGTCATAACGAGCGTCGCAGAAAGCCCCCACCCAGCTCTCTCTTAACCTCACGTTTTGCCAGGCTTTCTTCATCTGTTTTTGGTAACAGTGACAGAGGTGGCAGCTTCTTGATGGAATTTGCTTCAAACCCAAAACTTAGTCTGAGAAATTCACTTCCACCACCCGGAAATCAGACCACAACAATCGGTTGGCCTTGGCCGGGGAACACGGAGTCGCCATCTGACAACCTTTTCTTGCAAGGTTCGGTAGGTGGGACAAGCTTCCCTGGTGCCAGACATCCTCCCGAGGAAACTTACACTGGAGTCACAGATTCAAACTGTGCTCTCTCTCTTCTGTCAAATCAAACATGGGGTTCTCGAAACGCAGAACCAAGTCCTGGATTGAATAACATGCTGAATTTCAATGGGACATCCATGACACAACTTCCTACATCTTCTCATGGTGTGGCCATGCATCAAGTTTCAAACAATTACGAGGTTTCCCCCGATCTTGGCCGGGGTCACATTTCACAGCCTCTCGGTAGCCAACTCTCTGGCGAGCTTGATCTGTCGCAGCAGGGAAGGAGGCATTATATGGATGTAGAACATTCCAGGGCCTATGAATCTTCTCAATGGTCACTGTAA
Protein sequence

>MsaT039445.1

MDSGGNSSSEESSLNGLKFGQRIYFEDTALATAAAATSTTIAASSSSSSGSKKGRGGSVQHSQPPRCQVEGCKLDLTDAKAYYSRHKVCSMHSKCPTVTVSGLQQRFHQLAEFDQGKRSCRRRLAGHNERRRKPPPSSLLTSRFARLSSSVFGNSDRGGSFLMEFASNPKLSLRNSLPPPGNQTTTIGWPWPGNTESPSDNLFLQGSVGGTSFPGARHPPEETYTGVTDSNCALSLLSNQTWGSRNAEPSPGLNNMLNFNGTSMTQLPTSSHGVAMHQVSNNYEVSPDLGRGHISQPLGSQLSGELDLSQQGRRHYMDVEHSRAYESSQWSL*