AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa ssp. caerulea / MsaG014596

Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsaG014596 MtrunA17_Chr4g0014321 57.203 236 95 2 1 236 1 230 2.31e-96 281
MsaG014596 MtrunA17_Chr8g0351751 56.452 248 94 4 1 236 1 246 5.66e-90 265
MsaG014596 MtrunA17_Chr4g0014031 52.720 239 99 3 1 236 1 228 1.59e-78 236
MsaG014596 MtrunA17_Chr4g0014131 54.321 243 91 4 1 236 1 230 2.02e-76 230
MsaG014596 MtrunA17_Chr4g0013041 53.081 211 76 2 1 211 1 188 7.72e-72 218
MsaG014596 MtrunA17_Chr3g0110131 53.138 239 106 3 1 234 1 238 4.32e-69 212
MsaG014596 MtrunA17_Chr4g0014121 60.897 156 61 0 1 156 29 184 1.49e-54 173
MsaG014596 MtrunA17_Chr3g0107381 42.149 242 110 7 1 233 1 221 1.42e-52 169
MsaG014596 MtrunA17_Chr2g0296831 64.463 121 43 0 1 121 1 121 1.43e-46 150
MsaG014596 MtrunA17_Chr3g0107331 47.682 151 78 1 3 153 2 151 2.53e-46 151
MsaG014596 MtrunA17_Chr3g0107351 44.872 156 85 1 3 158 2 156 1.24e-44 147
MsaG014596 MtrunA17_Chr3g0107341 44.231 156 86 1 3 158 2 156 3.77e-42 140
MsaG014596 MtrunA17_Chr3g0107361 42.949 156 88 1 3 158 2 156 1.31e-40 137
MsaG014596 MtrunA17_Chr5g0420351 42.308 156 88 2 1 156 1 154 3.95e-36 125
MsaG014596 MtrunA17_Chr2g0283941 40.000 170 96 1 1 170 1 164 1.95e-35 126
MsaG014596 MtrunA17_Chr1g0197261 39.241 158 94 2 1 158 1 156 5.66e-35 122
MsaG014596 MtrunA17_Chr1g0197461 44.218 147 80 2 3 149 2 146 1.91e-34 120
MsaG014596 MtrunA17_Chr5g0432691 39.610 154 92 1 1 154 1 153 3.27e-34 120
MsaG014596 MtrunA17_Chr3g0107461 38.065 155 96 0 1 155 1 155 3.50e-34 120
MsaG014596 MtrunA17_Chr1g0197321 36.709 158 99 1 1 158 1 157 7.94e-31 111
MsaG014596 MtrunA17_Chr1g0188681 38.312 154 93 2 1 154 1 152 1.27e-30 111
MsaG014596 MtrunA17_Chr7g0218151 41.026 156 90 2 1 156 1 154 3.52e-29 107
MsaG014596 MtrunA17_Chr1g0193311 40.385 156 91 2 1 156 1 154 5.25e-29 107
MsaG014596 MtrunA17_Chr4g0031421 42.857 126 72 0 29 154 1 126 6.00e-29 106
MsaG014596 MtrunA17_Chr4g0012761 40.385 156 91 2 1 156 1 154 8.38e-29 106
MsaG014596 MtrunA17_Chr1g0188661 41.026 156 90 2 1 156 1 154 1.87e-28 105
MsaG014596 MtrunA17_Chr3g0106421 42.188 128 74 0 29 156 1 128 8.15e-28 105
MsaG014596 MtrunA17_Chr1g0188651 40.909 154 87 2 1 154 1 150 2.45e-27 102
MsaG014596 MtrunA17_Chr3g0105791 39.683 126 76 0 29 154 1 126 1.16e-25 97.8
MsaG014596 MtrunA17_Chr2g0296861 40.385 156 92 1 1 156 1 155 1.73e-25 97.8
MsaG014596 MtrunA17_Chr3g0128721 27.749 191 126 3 1 187 4 186 9.60e-22 93.6
MsaG014596 MtrunA17_Chr3g0106501 34.615 130 85 0 29 158 1 130 2.79e-21 86.7
MsaG014596 MtrunA17_Chr7g0267601 32.558 129 87 0 1 129 4 132 3.03e-21 91.7
MsaG014596 MtrunA17_Chr4g0008701 32.520 123 83 0 3 125 6 128 1.04e-19 87.4
MsaG014596 MtrunA17_Chr2g0296851 54.321 81 37 0 79 159 6 86 1.50e-15 70.1
MsaG014596 MtrunA17_Chr6g0457851 28.916 166 93 7 1 155 11 162 1.06e-13 69.3
MsaG014596 MtrunA17_Chr6g0449861 30.973 113 71 4 1 107 9 120 5.76e-11 61.6
MsaG014596 MtrunA17_Chr1g0212151 29.661 118 66 4 1 107 1 112 6.86e-11 61.2
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsaG014596 AT5G48670.1 52.903 155 72 1 1 155 1 154 3.29e-47 159
MsaG014596 AT5G26630.1 48.077 156 78 3 1 155 1 154 8.78e-36 126
MsaG014596 AT1G65300.1 43.791 153 85 1 3 155 2 153 2.18e-34 124
MsaG014596 AT3G05860.2 42.138 159 85 3 1 152 1 159 1.67e-33 120
MsaG014596 AT5G26650.1 42.484 153 87 1 4 156 2 153 3.17e-33 123
MsaG014596 AT3G05860.3 42.138 159 85 3 1 152 1 159 4.48e-33 120
MsaG014596 AT3G05860.1 42.138 159 85 3 1 152 1 159 5.16e-33 120
MsaG014596 AT5G27960.1 41.176 153 89 1 4 156 2 153 6.89e-32 119
MsaG014596 AT1G65330.1 43.137 153 86 1 3 155 2 153 4.84e-31 115
MsaG014596 AT1G31630.1 38.514 148 89 2 3 150 2 147 2.93e-30 115
MsaG014596 AT5G27810.1 50.526 95 47 0 29 123 1 95 2.40e-29 107
MsaG014596 AT1G31640.1 37.086 151 93 2 3 153 2 150 7.04e-28 110
MsaG014596 AT2G28700.1 33.333 201 126 4 1 198 1 196 3.23e-27 107
MsaG014596 AT1G22590.2 36.709 158 92 2 1 156 1 152 4.33e-25 97.4
MsaG014596 AT5G26580.1 36.774 155 83 2 1 155 1 140 8.88e-24 97.8
MsaG014596 AT2G40210.1 36.364 132 84 0 1 132 1 132 1.08e-17 81.3
MsaG014596 AT5G55690.1 30.472 233 115 9 1 212 1 207 7.77e-17 77.8
MsaG014596 AT5G55690.2 30.472 233 115 9 1 212 1 207 7.77e-17 77.8
MsaG014596 AT5G58890.1 38.462 130 67 5 1 120 1 127 7.85e-16 75.5
MsaG014596 AT5G06500.1 31.410 156 105 1 1 156 1 154 2.60e-15 73.2

Find 65 sgRNAs with CRISPR-Local

Find sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
CAAGCATGCGCTGTAATTTA+TGG 0.162014 3:-75723944 MsaT014596.1:CDS
ATAATGTCAGCATTATTTAT+AGG 0.257317 3:+75723479 None:intergenic
AAAGGGTGCTCTCAAACTTT+AGG 0.264431 3:-75723874 MsaT014596.1:CDS
GGAAAACAACGTATAATAAA+AGG 0.303343 3:-75724018 MsaT014596.1:CDS
AAGATAAACTGACAAAATTA+AGG 0.325514 3:-75723775 MsaT014596.1:CDS
AAAATTAAGGAAGGACAATA+AGG 0.342242 3:-75723762 MsaT014596.1:CDS
AAGGGTGCTCTCAAACTTTA+GGG 0.347136 3:-75723873 MsaT014596.1:CDS
TACCAAGGTCCTTCAATTTG+TGG 0.355617 3:+75723636 None:intergenic
CTCTTTGATCAATGTCTCTA+TGG 0.362099 3:-75723722 MsaT014596.1:CDS
CATTGTCATTTCCTCATTCG+TGG 0.373285 3:+75723526 None:intergenic
TGTTTGGTTTGTATAACTTC+AGG 0.374091 3:+75723845 None:intergenic
CCCTTTGGTGAAGTCGATCC+TGG 0.377842 3:-75723401 MsaT014596.1:CDS
GTGGTTGATTTGAATTATCT+TGG 0.384051 3:-75723671 MsaT014596.1:CDS
CTTTCGCTTTCAAAACCCTT+TGG 0.384247 3:+75723795 None:intergenic
AACCTCAGGTTGAGGTTCAT+AGG 0.395757 3:+75723919 None:intergenic
TTCATTCAAAGAAGTAGGTT+GGG 0.410567 3:+75723371 None:intergenic
AATTGAAGGACCTTGGTAGA+AGG 0.412835 3:-75723631 MsaT014596.1:CDS
ATGAACCTCAACCTGAGGTT+TGG 0.442477 3:-75723916 MsaT014596.1:CDS
TTGGTAGAAGGTTGGAATCA+TGG 0.444725 3:-75723619 MsaT014596.1:CDS
ACCTCAGGTTGAGGTTCATA+GGG 0.446591 3:+75723920 None:intergenic
CATCACCATGTGAAGTCAAA+AGG 0.449362 3:-75723892 MsaT014596.1:CDS
TTTCATTCAAAGAAGTAGGT+TGG 0.451367 3:+75723370 None:intergenic
AAGTCAAGACCAACTACAAT+TGG 0.453077 3:-75723570 MsaT014596.1:CDS
TTTATGAACTTGATGATGAA+TGG 0.460764 3:-75723443 MsaT014596.1:CDS
ACGATTTCATTCAAAGAAGT+AGG 0.461513 3:+75723366 None:intergenic
TTGATTTGAATTATCTTGGT+TGG 0.461781 3:-75723667 MsaT014596.1:CDS
TATGAAATAAGCACACTTTG+CGG 0.483205 3:-75723971 MsaT014596.1:CDS
CATGGTGATGGCCAAACCTC+AGG 0.485308 3:+75723905 None:intergenic
TCCTCATTCGTGGATGGTGG+TGG 0.487902 3:+75723536 None:intergenic
TAATGCTGACATTATTGAAA+GGG 0.488965 3:-75723471 MsaT014596.1:CDS
AGTAGGTTGGGCAAAACTCC+AGG 0.489606 3:+75723383 None:intergenic
GTCATTTCCTCATTCGTGGA+TGG 0.494180 3:+75723530 None:intergenic
GTTGATAGACCACAAATTGA+AGG 0.494814 3:-75723645 MsaT014596.1:CDS
AGTTATACAAACCAAACAAA+TGG 0.499169 3:-75723840 MsaT014596.1:CDS
TGGTAGAAGGTTGGAATCAT+GGG 0.503221 3:-75723618 MsaT014596.1:CDS
ATCGACTTCACCAAAGGGTA+TGG 0.509298 3:+75723406 None:intergenic
AGCAGCATCATTCACAATGA+AGG 0.512306 3:+75724042 None:intergenic
GAAGGACCTTGGTAGAAGGT+TGG 0.528423 3:-75723627 MsaT014596.1:CDS
TGATGAATCATGGCCATGTT+GGG 0.528819 3:-75723505 MsaT014596.1:CDS
AAAAGACTTTCATGAACCAA+AGG 0.542763 3:-75723811 MsaT014596.1:CDS
AAAGACTTTCATGAACCAAA+GGG 0.544025 3:-75723810 MsaT014596.1:CDS
GGGGATGATACCATACCCTT+TGG 0.549429 3:-75723416 MsaT014596.1:CDS
ATCACCATGTGAAGTCAAAA+GGG 0.555553 3:-75723891 MsaT014596.1:CDS
AACTTGATGATGAATGGTGA+TGG 0.556175 3:-75723437 MsaT014596.1:CDS
GCAGTGGAACCAATTGTAGT+TGG 0.559110 3:+75723561 None:intergenic
ATAATGCTGACATTATTGAA+AGG 0.562300 3:-75723472 MsaT014596.1:CDS
CCAGGATCGACTTCACCAAA+GGG 0.564091 3:+75723401 None:intergenic
GACCACAAATTGAAGGACCT+TGG 0.566187 3:-75723638 MsaT014596.1:CDS
TATTTATAGGCAACCCAACA+TGG 0.573445 3:+75723492 None:intergenic
ACCACCACCATCCACGAATG+AGG 0.577994 3:-75723537 MsaT014596.1:CDS
GAAATGACAATGATGAATCA+TGG 0.579997 3:-75723515 MsaT014596.1:CDS
TCCAGGATCGACTTCACCAA+AGG 0.583170 3:+75723400 None:intergenic
ACTTGATGATGAATGGTGAT+GGG 0.583295 3:-75723436 MsaT014596.1:CDS
ATGATTCCAACCTTCTACCA+AGG 0.601006 3:+75723621 None:intergenic
ATGATGAATCATGGCCATGT+TGG 0.605921 3:-75723506 MsaT014596.1:CDS
GATGGCCAAACCTCAGGTTG+AGG 0.606351 3:+75723911 None:intergenic
TAAACTGACAAAATTAAGGA+AGG 0.610886 3:-75723771 MsaT014596.1:CDS
ATTTCCTCATTCGTGGATGG+TGG 0.617926 3:+75723533 None:intergenic
TCATTGTGAATGATGCTGCT+AGG 0.624411 3:-75724039 MsaT014596.1:CDS
GTGGATGGTGGTGGTAGCAG+TGG 0.627705 3:+75723545 None:intergenic
TTTGATCAATGTCTCTATGG+AGG 0.634151 3:-75723719 MsaT014596.1:CDS
CCCCTATGAACCTCAACCTG+AGG 0.641725 3:-75723921 MsaT014596.1:CDS
CTTGATGATGAATGGTGATG+GGG 0.653561 3:-75723435 MsaT014596.1:CDS
CCTCAGGTTGAGGTTCATAG+GGG 0.720052 3:+75723921 None:intergenic
TGTGAACAACGATATGTCAG+TGG 0.740913 3:-75723690 MsaT014596.1:CDS

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
Chromosome Type Strat End Strand Name
Chr3 gene 75723376 75724089 75723376 ID=MsaG014596
Chr3 mRNA 75723376 75724089 75723376 ID=MsaT014596.1;Parent=MsaG014596
Chr3 exon 75723376 75724089 75723376 ID=MsaT014596.1.exon1;Parent=MsaT014596.1
Chr3 CDS 75723376 75724089 75723376 ID=cds.MsaT014596.1;Parent=MsaT014596.1
Gene Sequence

>MsaT014596.1

ATGGCTAGAAAAAAGGTGAAACTCGCCTTCATTGTGAATGATGCTGCTAGGAAAACAACGTATAATAAAAGGAAGAAGAGTCTACTGAAGAAAGCTTATGAAATAAGCACACTTTGCGGAGTTCAAGCATGCGCTGTAATTTATGGCCCCTATGAACCTCAACCTGAGGTTTGGCCATCACCATGTGAAGTCAAAAGGGTGCTCTCAAACTTTAGGGCAAAGCCTGAAGTTATACAAACCAAACAAATGGCAAATCAAAAGACTTTCATGAACCAAAGGGTTTTGAAAGCGAAAGATAAACTGACAAAATTAAGGAAGGACAATAAGGAAAAAGAGATGACAGTGCTCTTTGATCAATGTCTCTATGGAGGTAAACTTGTGAACAACGATATGTCAGTGGTTGATTTGAATTATCTTGGTTGGTTGATAGACCACAAATTGAAGGACCTTGGTAGAAGGTTGGAATCATGGGATGATTGCAATAATGTTCAAATTCAAAGTCAAGACCAACTACAATTGGTTCCACTGCTACCACCACCATCCACGAATGAGGAAATGACAATGATGAATCATGGCCATGTTGGGTTGCCTATAAATAATGCTGACATTATTGAAAGGGAATTCTTTATGAACTTGATGATGAATGGTGATGGGGATGATACCATACCCTTTGGTGAAGTCGATCCTGGAGTTTTGCCCAACCTACTTCTTTGA
Protein sequence

>MsaT014596.1

MARKKVKLAFIVNDAARKTTYNKRKKSLLKKAYEISTLCGVQACAVIYGPYEPQPEVWPSPCEVKRVLSNFRAKPEVIQTKQMANQKTFMNQRVLKAKDKLTKLRKDNKEKEMTVLFDQCLYGGKLVNNDMSVVDLNYLGWLIDHKLKDLGRRLESWDDCNNVQIQSQDQLQLVPLLPPPSTNEEMTMMNHGHVGLPINNADIIEREFFMNLMMNGDGDDTIPFGEVDPGVLPNLLL*