AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa ssp. caerulea / MsaG024139


Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsaG024139 MtrunA17_Chr8g0386271 98.974 390 4 0 1 390 1 390 0.0 807
MsaG024139 MtrunA17_Chr3g0132091 59.631 379 99 20 33 390 6 351 2.43e-126 368
MsaG024139 MtrunA17_Chr7g0224821 44.068 236 107 8 1 234 1 213 8.15e-50 171
MsaG024139 MtrunA17_Chr2g0308321 59.231 130 48 2 45 174 122 246 1.37e-38 145
MsaG024139 MtrunA17_Chr8g0366211 87.912 91 11 0 49 139 39 129 2.11e-38 134
MsaG024139 MtrunA17_Chr4g0061651 54.887 133 48 4 45 174 75 198 3.29e-37 140
MsaG024139 MtrunA17_Chr5g0420051 47.712 153 75 3 45 196 131 279 2.31e-35 134
MsaG024139 MtrunA17_Chr1g0162871 67.901 81 26 0 99 179 104 184 6.94e-33 130
MsaG024139 MtrunA17_Chr2g0302791 52.252 111 52 1 66 176 107 216 1.17e-32 130
MsaG024139 MtrunA17_Chr3g0122411 56.311 103 42 2 98 197 164 266 1.23e-32 127
MsaG024139 MtrunA17_Chr7g0231911 56.842 95 41 0 89 183 139 233 1.63e-32 124
MsaG024139 MtrunA17_Chr7g0270541 48.837 129 63 2 58 183 101 229 2.53e-32 129
MsaG024139 MtrunA17_Chr1g0194121 58.163 98 41 0 85 182 133 230 3.16e-32 129
MsaG024139 MtrunA17_Chr8g0334671 54.867 113 47 1 66 174 150 262 5.14e-32 123
MsaG024139 MtrunA17_Chr7g0258471 34.138 290 136 9 94 372 137 382 1.95e-31 123
MsaG024139 MtrunA17_Chr8g0360361 62.353 85 32 0 99 183 65 149 3.23e-30 114
MsaG024139 MtrunA17_Chr4g0046991 67.568 74 24 0 99 172 73 146 2.08e-29 111
MsaG024139 MtrunA17_Chr2g0282521 61.905 84 32 0 93 176 58 141 6.04e-28 107
MsaG024139 MtrunA17_Chr8g0377421 45.614 114 59 1 99 209 132 245 3.60e-24 101
MsaG024139 MtrunA17_Chr2g0286661 52.703 74 35 0 99 172 103 176 8.43e-22 97.4
MsaG024139 MtrunA17_Chr8g0377401 57.534 73 31 0 99 171 162 234 2.84e-21 92.0
MsaG024139 MtrunA17_Chr2g0317041 61.702 47 18 0 99 145 99 145 9.62e-15 71.2
MsaG024139 MtrunA17_Chr8g0377431 44.286 70 39 0 85 154 137 206 8.11e-13 67.0
MsaG024139 MtrunA17_Chr1g0175031 57.447 47 20 0 99 145 74 120 9.01e-13 65.1
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsaG024139 AT5G50570.1 48.084 287 123 9 1 268 1 280 5.60e-71 227
MsaG024139 AT5G50570.2 48.084 287 123 9 1 268 1 280 5.60e-71 227
MsaG024139 AT5G50670.1 48.084 287 123 9 1 268 1 280 5.60e-71 227
MsaG024139 AT5G50670.2 48.084 287 123 9 1 268 1 280 5.60e-71 227
MsaG024139 AT1G76580.2 65.591 93 32 0 99 191 114 206 5.58e-36 139
MsaG024139 AT1G76580.3 65.591 93 32 0 99 191 114 206 6.51e-36 139
MsaG024139 AT1G76580.1 65.591 93 32 0 99 191 114 206 1.19e-35 139
MsaG024139 AT3G60030.1 58.716 109 41 1 94 198 122 230 5.73e-35 137
MsaG024139 AT2G47070.1 72.152 79 22 0 99 177 106 184 1.05e-34 136
MsaG024139 AT1G20980.1 43.333 180 80 6 2 179 42 201 1.39e-33 133
MsaG024139 AT1G69170.1 64.444 90 32 0 84 173 109 198 3.40e-33 128
MsaG024139 AT1G27370.6 58.889 90 37 0 85 174 162 251 7.43e-33 126
MsaG024139 AT1G27370.1 58.889 90 37 0 85 174 162 251 1.17e-32 127
MsaG024139 AT1G27370.5 58.889 90 37 0 85 174 162 251 1.17e-32 127
MsaG024139 AT1G27370.3 58.889 90 37 0 85 174 162 251 1.17e-32 127
MsaG024139 AT1G27370.2 58.889 90 37 0 85 174 162 251 1.17e-32 127
MsaG024139 AT1G27370.4 58.889 90 37 0 85 174 162 251 1.17e-32 127
MsaG024139 AT1G27370.7 58.889 90 37 0 85 174 162 251 1.17e-32 127
MsaG024139 AT1G53160.3 60.227 88 35 0 89 176 44 131 6.62e-31 116
MsaG024139 AT1G53160.2 60.227 88 35 0 89 176 44 131 8.24e-31 116
MsaG024139 AT1G53160.1 60.227 88 35 0 89 176 44 131 8.24e-31 116
MsaG024139 AT2G42200.1 61.905 84 32 0 96 179 71 154 1.32e-30 120
MsaG024139 AT3G57920.1 52.885 104 49 0 72 175 32 135 1.48e-30 120
MsaG024139 AT1G27360.2 64.557 79 28 0 96 174 172 250 2.27e-30 120
MsaG024139 AT1G27360.1 64.557 79 28 0 96 174 172 250 2.27e-30 120
MsaG024139 AT1G27360.3 64.557 79 28 0 96 174 172 250 2.27e-30 120
MsaG024139 AT1G27360.4 64.557 79 28 0 96 174 172 250 2.27e-30 120
MsaG024139 AT1G02065.1 63.095 84 31 0 89 172 178 261 5.39e-30 118
MsaG024139 AT2G33810.1 66.216 74 25 0 99 172 54 127 1.37e-29 111
MsaG024139 AT5G43270.3 59.302 86 35 0 90 175 160 245 1.56e-29 118
MsaG024139 AT5G43270.1 59.302 86 35 0 90 175 160 245 1.56e-29 118
MsaG024139 AT5G43270.2 59.302 86 35 0 90 175 160 245 1.56e-29 118
MsaG024139 AT3G15270.1 62.162 74 28 0 99 172 63 136 4.30e-28 109
MsaG024139 AT5G18830.3 44.944 89 48 1 86 173 125 213 1.33e-21 97.4
MsaG024139 AT5G18830.1 44.944 89 48 1 86 173 125 213 1.36e-21 97.4
MsaG024139 AT5G18830.2 44.944 89 48 1 86 173 125 213 1.39e-21 97.4
MsaG024139 AT2G47070.2 72.727 55 15 0 123 177 1 55 4.93e-21 95.9
MsaG024139 AT1G02065.2 41.837 98 49 3 57 146 138 235 9.94e-16 76.6

Find 100 sgRNAs with CRISPR-Local

Find sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
CATTGTTTCTATGTTGTTTA+AGG 0.109263 4:-96289670 None:intergenic
TTTAAACTAACCTTGGTAAT+TGG 0.163177 4:-96290796 None:intergenic
GGGGTCTGTGGACTCAGTTT+TGG 0.232288 4:+96292672 MsaT024139.1:CDS
ACACATGATCATCCTGAAAA+TGG 0.265481 4:+96292577 MsaT024139.1:CDS
TCTTCATCATCTTCAACTTC+AGG 0.292841 4:+96289834 MsaT024139.1:CDS
GGTAAATCCACCAACATCTT+TGG 0.300549 4:-96289802 None:intergenic
TCCCATTGAAAAGGAAATAA+TGG 0.301322 4:-96292784 None:intergenic
AAGCTACTACTTCGAGTAAT+AGG 0.322521 4:-96290768 None:intergenic
AATGAAGTTCACATACCTTA+TGG 0.332097 4:-96289962 None:intergenic
TTCATGGGATTTAACTGAAA+TGG 0.342436 4:+96289638 MsaT024139.1:CDS
AAGATGTTGTTCCAAGAAAA+AGG 0.342659 4:-96292345 None:intergenic
AGATGATGAAGATGTCATTT+TGG 0.350943 4:-96289823 None:intergenic
GGAAATTCTAGCACTGAATC+AGG 0.359546 4:+96289768 MsaT024139.1:CDS
GATGGTTCAATTAGGAGGTT+TGG 0.365880 4:+96289693 MsaT024139.1:CDS
AGTTTGCATGACCATAGCTT+GGG 0.365920 4:+96292652 MsaT024139.1:CDS
CTTGGGTTGGAGGAGATGTT+AGG 0.371034 4:+96292269 MsaT024139.1:CDS
AAACAATGGATGGTTCAATT+AGG 0.371347 4:+96289685 MsaT024139.1:CDS
GGGTTCATCATAGCAGTAGA+AGG 0.377531 4:-96292244 None:intergenic
CTGCTATGATGAACCCTACT+TGG 0.380036 4:+96292251 MsaT024139.1:CDS
CTACTTCGAGTAATAGGTTC+TGG 0.389750 4:-96290762 None:intergenic
TTTCCCTTCTTTGTAGCTGC+TGG 0.392060 4:-96292371 None:intergenic
TTGTTCCTCAATTTATAACT+TGG 0.392942 4:+96292717 MsaT024139.1:CDS
CATTATTATTCCCCTGAGAA+TGG 0.393387 4:-96292753 None:intergenic
TTCTAGTGAATCCCATTCTC+AGG 0.405544 4:+96292741 MsaT024139.1:CDS
CAGTGGCTGCTGCTGTTGGC+TGG 0.413457 4:-96292417 None:intergenic
GTAATTTGAAAGCACCTTCA+TGG 0.414407 4:+96289622 MsaT024139.1:CDS
TTCACAGTGGCTGCTGCTGT+TGG 0.415317 4:-96292421 None:intergenic
AAAAGAACCTGCTACATTGC+TGG 0.422583 4:-96290031 None:intergenic
TGATCATGTGTTTGTGGTAC+TGG 0.432050 4:-96292565 None:intergenic
GTTGGTGTTGATTGTGGCTA+TGG 0.432534 4:-96292294 None:intergenic
TTTGGAGATTACAGAACAAA+AGG 0.434418 4:+96289711 MsaT024139.1:CDS
CAACCAGATGGTGCATTTGT+TGG 0.454409 4:-96292312 None:intergenic
ATTATTATTCCCCTGAGAAT+GGG 0.465602 4:-96292752 None:intergenic
GAGTTTGCATGACCATAGCT+TGG 0.466352 4:+96292651 MsaT024139.1:CDS
CTAATCTAATCCCATTGAAA+AGG 0.467134 4:-96292793 None:intergenic
CCATGAGTCGCACGTTTAGC+AGG 0.467652 4:+96292467 MsaT024139.1:CDS
CTTCATCATCTTCAACTTCA+GGG 0.469448 4:+96289835 MsaT024139.1:CDS
AACTTGAGAATGGTAGCAAT+TGG 0.470856 4:-96292210 None:intergenic
AATTGTGACCTGTGCAGTCT+TGG 0.471856 4:-96289985 None:intergenic
CGAGTAATAGGTTCTGGTTG+TGG 0.475165 4:-96290756 None:intergenic
AAGACTGCACAGGTCACAAT+TGG 0.475432 4:+96289987 MsaT024139.1:CDS
TGTTCCTCAATTTATAACTT+GGG 0.485493 4:+96292718 MsaT024139.1:CDS
ATGAACCCTACTTGGGTTGG+AGG 0.486277 4:+96292259 MsaT024139.1:CDS
ATGAAGGAAAGAGGAGCTGT+AGG 0.487258 4:+96290697 MsaT024139.1:CDS
GTAACTGTAGAGACTATCAT+AGG 0.493095 4:+96289937 MsaT024139.1:CDS
TGACCATAGCTTGGGGTCTG+TGG 0.493672 4:+96292660 MsaT024139.1:CDS
GTCATGCAAACTCAAGCCTA+AGG 0.500554 4:-96292641 None:intergenic
TCAGATAGTTTCATGTCTTG+TGG 0.502100 4:+96289893 MsaT024139.1:CDS
CCTGCTAAACGTGCGACTCA+TGG 0.502871 4:-96292467 None:intergenic
CAATGGATGGTTCAATTAGG+AGG 0.503930 4:+96289688 MsaT024139.1:CDS
TCAACCAGCAGCTACAAAGA+AGG 0.503966 4:+96292367 MsaT024139.1:CDS
ACTTGAGAATGGTAGCAATT+GGG 0.507340 4:-96292209 None:intergenic
GTGCGACTCATGGATGAAGC+TGG 0.513016 4:-96292457 None:intergenic
TAATTTGAAAGCACCTTCAT+GGG 0.516062 4:+96289623 MsaT024139.1:CDS
ACACCAACAAATGCACCATC+TGG 0.516097 4:+96292309 MsaT024139.1:CDS
ACATCTCCTCCAACCCAAGT+AGG 0.516216 4:-96292265 None:intergenic
GAGCTAGAGCTATCAACAAT+GGG 0.520984 4:+96289868 MsaT024139.1:CDS
AGACTATCATAGGCGCCATA+AGG 0.522041 4:+96289947 MsaT024139.1:CDS
TCAGGATGATCATGTGTTTG+TGG 0.524418 4:-96292571 None:intergenic
GCATTTGTTGGTGTTGATTG+TGG 0.524493 4:-96292300 None:intergenic
AGCTGTAGGAAACGCTTAGA+TGG 0.526456 4:+96290711 MsaT024139.1:CDS
ACTGCACAGGTCACAATTGG+TGG 0.532124 4:+96289990 MsaT024139.1:CDS
AGGAATTTGATGAAGGAAAG+AGG 0.537908 4:+96290688 MsaT024139.1:CDS
AGAACCCAAGTTATAAATTG+AGG 0.540593 4:-96292722 None:intergenic
GGTTCTGCCAGCAATGTAGC+AGG 0.542918 4:+96290024 MsaT024139.1:CDS
ATAGTTTCATGTCTTGTGGA+TGG 0.552133 4:+96289897 MsaT024139.1:CDS
CATCTCCTCCAACCCAAGTA+GGG 0.552239 4:-96292264 None:intergenic
CTCATGGATGAAGCTGGAAG+AGG 0.554579 4:-96292451 None:intergenic
GATTTAACTGAAATGGATCA+AGG 0.556449 4:+96289645 MsaT024139.1:CDS
TATACATGTGAACTTGAGAA+TGG 0.557360 4:-96292220 None:intergenic
GCTCTAGAGGAATTTGATGA+AGG 0.560175 4:+96290681 MsaT024139.1:CDS
ACAAAGTCCAAAGATGTTGG+TGG 0.562124 4:+96289795 MsaT024139.1:CDS
CATCAAATTCCTCTAGAGCA+TGG 0.562487 4:-96290677 None:intergenic
CTTAAACAACATAGAAACAA+TGG 0.562677 4:+96289671 MsaT024139.1:CDS
ATGATGAACCCTACTTGGGT+TGG 0.564738 4:+96292256 MsaT024139.1:CDS
ATTTCAGTTAAATCCCATGA+AGG 0.568024 4:-96289636 None:intergenic
CTTACAAAGTCCAAAGATGT+TGG 0.572874 4:+96289792 MsaT024139.1:CDS
CAACCAGCAGCTACAAAGAA+GGG 0.573578 4:+96292368 MsaT024139.1:CDS
TGCTATGATGAACCCTACTT+GGG 0.579124 4:+96292252 MsaT024139.1:CDS
GGTCTTGTTTATCAACCAGA+TGG 0.579275 4:-96292324 None:intergenic
AGAGCTAGAGCTATCAACAA+TGG 0.587150 4:+96289867 MsaT024139.1:CDS
GAAATTCTAGCACTGAATCA+GGG 0.589286 4:+96289769 MsaT024139.1:CDS
AGTCCACAGACCCCAAGCTA+TGG 0.589981 4:-96292663 None:intergenic
GTTTGCATGACCATAGCTTG+GGG 0.604245 4:+96292653 MsaT024139.1:CDS
GATTTGAAGCTTGGCCATGT+TGG 0.605175 4:+96289747 MsaT024139.1:CDS
GTGTAGGTTCCATGCTCTAG+AGG 0.610810 4:+96290668 MsaT024139.1:intron
TCTAGTGAATCCCATTCTCA+GGG 0.611691 4:+96292742 MsaT024139.1:CDS
GCTTAGATGGTCACAACCGA+CGG 0.619901 4:+96290724 MsaT024139.1:CDS
TCATGCAAACTCAAGCCTAA+GGG 0.620270 4:-96292640 None:intergenic
GGTTCATCATAGCAGTAGAA+GGG 0.627296 4:-96292243 None:intergenic
TGAAAATGGATTGAATCAGA+TGG 0.631963 4:+96292591 MsaT024139.1:CDS
CAGTGCTAGAATTTCCAACA+TGG 0.635549 4:-96289761 None:intergenic
AACAACATAGAAACAATGGA+TGG 0.636248 4:+96289675 MsaT024139.1:CDS
ACTTCATTCCAAGACTGCAC+AGG 0.639272 4:+96289977 MsaT024139.1:CDS
CAATTGGTGGACATAAGCAA+AGG 0.658162 4:+96290003 MsaT024139.1:CDS
AAGCATCTTGTGTTATGGAG+TGG 0.679671 4:+96289598 None:intergenic
TTGGGTTCAAATGATCAGAG+TGG 0.682356 4:+96292691 MsaT024139.1:CDS
AAGAGGTTGGTTGTTCACAG+TGG 0.701313 4:-96292434 None:intergenic
TGGATGAAGCTGGAAGAGGT+TGG 0.704527 4:-96292447 None:intergenic
CTAGTGAATCCCATTCTCAG+GGG 0.746099 4:+96292743 MsaT024139.1:CDS

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
Chromosome Type Strat End Strand Name
Chr4 gene 96289612 96292810 96289612 ID=MsaG024139
Chr4 mRNA 96289612 96292810 96289612 ID=MsaT024139.1;Parent=MsaG024139
Chr4 exon 96289612 96290045 96289612 ID=MsaT024139.1.exon1;Parent=MsaT024139.1
Chr4 CDS 96289612 96290045 96289612 ID=cds.MsaT024139.1;Parent=MsaT024139.1
Chr4 exon 96290674 96290807 96290674 ID=MsaT024139.1.exon2;Parent=MsaT024139.1
Chr4 CDS 96290674 96290807 96290674 ID=cds.MsaT024139.1;Parent=MsaT024139.1
Chr4 exon 96292206 96292810 96292206 ID=MsaT024139.1.exon3;Parent=MsaT024139.1
Chr4 CDS 96292206 96292810 96292206 ID=cds.MsaT024139.1;Parent=MsaT024139.1
Gene Sequence

>MsaT024139.1

ATGGAGTGGAGTAATTTGAAAGCACCTTCATGGGATTTAACTGAAATGGATCAAGGAACCTTAAACAACATAGAAACAATGGATGGTTCAATTAGGAGGTTTGGAGATTACAGAACAAAAGGAGAATTTTCTGTTGATTTGAAGCTTGGCCATGTTGGAAATTCTAGCACTGAATCAGGGCTTACAAAGTCCAAAGATGTTGGTGGATTTACCAAAATGACATCTTCATCATCTTCAACTTCAGGGTCATCTAAGAGAGCTAGAGCTATCAACAATGGGACTCAGATAGTTTCATGTCTTGTGGATGGTTGTCAAGCTGATCTTAGTAACTGTAGAGACTATCATAGGCGCCATAAGGTATGTGAACTTCATTCCAAGACTGCACAGGTCACAATTGGTGGACATAAGCAAAGGTTCTGCCAGCAATGTAGCAGGTTCCATGCTCTAGAGGAATTTGATGAAGGAAAGAGGAGCTGTAGGAAACGCTTAGATGGTCACAACCGACGGAGAAGAAAACCACAACCAGAACCTATTACTCGAAGTAGTAGCTTTTTGTCCAATTACCAAGGAACCCAATTGCTACCATTCTCAAGTTCACATGTATACCCTTCTACTGCTATGATGAACCCTACTTGGGTTGGAGGAGATGTTAGGCTCCATAGCCACAATCAACACCAACAAATGCACCATCTGGTTGATAAACAAGACCTTTTTCTTGGAACAACATCTTCAACCAGCAGCTACAAAGAAGGGAAACAAGTGTCATTCATACAAAATAACCAGCCAACAGCAGCAGCCACTGTGAACAACCAACCTCTTCCAGCTTCATCCATGAGTCGCACGTTTAGCAGGACCAATCCTTTTTCAGAAAGATACAAAATGTTTTGTGACAACAACACTTCTTGTGCTCTCTCTCTTCTGTCATCACCAGTACCACAAACACATGATCATCCTGAAAATGGATTGAATCAGATGGTGAATACTCACTCATCTTTTATGCAACCCTTAGGCTTGAGTTTGCATGACCATAGCTTGGGGTCTGTGGACTCAGTTTTGGGTTCAAATGATCAGAGTGGTCATTGTTCCTCAATTTATAACTTGGGTTCTAGTGAATCCCATTCTCAGGGGAATAATAATGAAGCTTCTCCATTATTTCCTTTTCAATGGGATTAG

Protein sequence

>MsaT024139.1

MEWSNLKAPSWDLTEMDQGTLNNIETMDGSIRRFGDYRTKGEFSVDLKLGHVGNSSTESGLTKSKDVGGFTKMTSSSSSTSGSSKRARAINNGTQIVSCLVDGCQADLSNCRDYHRRHKVCELHSKTAQVTIGGHKQRFCQQCSRFHALEEFDEGKRSCRKRLDGHNRRRRKPQPEPITRSSSFLSNYQGTQLLPFSSSHVYPSTAMMNPTWVGGDVRLHSHNQHQQMHHLVDKQDLFLGTTSSTSSYKEGKQVSFIQNNQPTAAATVNNQPLPASSMSRTFSRTNPFSERYKMFCDNNTSCALSLLSSPVPQTHDHPENGLNQMVNTHSSFMQPLGLSLHDHSLGSVDSVLGSNDQSGHCSSIYNLGSSESHSQGNNNEASPLFPFQWD*