AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa ssp. caerulea / MsaG035644


Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsaG035644 MtrunA17_Chr7g0219461 97.436 351 9 0 1 351 1 351 0.0 698
MsaG035644 MtrunA17_Chr6g0454781 42.973 370 154 15 1 351 2 333 5.82e-63 204
MsaG035644 MtrunA17_Chr4g0061561 62.185 119 42 2 1 118 2 118 2.09e-45 157
MsaG035644 MtrunA17_Chr3g0086961 44.783 230 101 9 1 209 1 225 1.02e-44 157
MsaG035644 MtrunA17_Chr8g0376571 70.270 74 22 0 47 120 51 124 6.69e-29 116
MsaG035644 MtrunA17_Chr8g0360441 60.526 76 30 0 51 126 48 123 2.00e-24 103
MsaG035644 MtrunA17_Chr4g0040921 58.442 77 32 0 51 127 16 92 5.15e-24 100
MsaG035644 MtrunA17_Chr2g0316391 61.644 73 28 0 51 123 14 86 7.48e-24 99.8
MsaG035644 MtrunA17_Chr2g0325171 60.811 74 29 0 51 124 18 91 2.27e-23 99.0
MsaG035644 MtrunA17_Chr4g0062691 29.856 278 155 11 18 264 90 358 8.43e-16 77.8
MsaG035644 MtrunA17_Chr6g0456881 39.623 106 58 3 58 158 127 231 7.48e-14 72.4
MsaG035644 MtrunA17_Chr7g0220931 50.877 57 28 0 59 115 122 178 3.56e-13 70.1
MsaG035644 MtrunA17_Chr1g0205131 48.333 60 31 0 56 115 108 167 4.95e-12 66.6
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsaG035644 AT3G02150.1 75.000 100 25 0 30 129 47 146 1.58e-45 157
MsaG035644 AT3G02150.2 75.000 100 25 0 30 129 47 146 4.04e-45 158
MsaG035644 AT5G08070.2 71.717 99 24 2 25 123 4 98 2.92e-42 147
MsaG035644 AT5G08070.1 71.717 99 24 2 25 123 4 98 2.92e-42 147
MsaG035644 AT5G60970.1 83.750 80 12 1 43 122 49 127 5.86e-42 150
MsaG035644 AT1G30210.2 75.000 72 18 0 47 118 40 111 9.30e-30 116
MsaG035644 AT1G30210.1 75.000 72 18 0 47 118 40 111 9.30e-30 116
MsaG035644 AT4G18390.1 35.000 260 112 8 47 298 32 242 2.91e-27 110
MsaG035644 AT4G18390.2 35.000 260 112 8 47 298 32 242 2.91e-27 110
MsaG035644 AT1G53230.1 61.842 76 29 0 51 126 43 118 2.06e-25 105
MsaG035644 AT1G53230.2 61.842 76 29 0 51 126 43 118 2.06e-25 105
MsaG035644 AT3G15030.2 60.811 74 29 0 51 124 39 112 1.06e-23 101
MsaG035644 AT3G15030.4 60.811 74 29 0 51 124 39 112 1.06e-23 101
MsaG035644 AT3G15030.3 60.811 74 29 0 51 124 39 112 1.06e-23 101
MsaG035644 AT3G15030.1 60.811 74 29 0 51 124 39 112 1.06e-23 101
MsaG035644 AT2G31070.1 64.615 65 23 0 51 115 23 87 5.21e-21 93.2
MsaG035644 AT1G68800.1 47.761 67 35 0 49 115 104 170 5.34e-15 75.5
MsaG035644 AT1G68800.2 47.761 67 35 0 49 115 104 170 6.10e-15 75.5
MsaG035644 AT1G67260.2 42.105 76 44 0 46 121 76 151 6.29e-15 75.5
MsaG035644 AT1G67260.3 42.105 76 44 0 46 121 76 151 6.29e-15 75.5
MsaG035644 AT1G67260.1 42.105 76 44 0 46 121 76 151 6.82e-15 75.5
MsaG035644 AT3G18550.2 44.048 84 41 2 32 115 129 206 1.24e-13 72.0
MsaG035644 AT3G18550.1 44.048 84 41 2 32 115 129 206 1.37e-13 72.0
MsaG035644 AT3G18550.4 44.048 84 41 2 32 115 129 206 1.37e-13 72.0
MsaG035644 AT3G18550.3 44.048 84 41 2 32 115 129 206 1.56e-13 71.6

Find 61 sgRNAs with CRISPR-Local

Find sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
CCAAATCACCCTTCATTTAT+TGG 0.099357 7:+17931873 MsaT035644.1:CDS
TGTAACATATTGTTATTATT+TGG 0.154767 7:-17931846 None:intergenic
CTTCAAGTCAAAATTCTTCT+TGG 0.156785 7:+17931691 MsaT035644.1:CDS
AGTGAACTCTTGTTCTTTAT+TGG 0.160335 7:-17932246 None:intergenic
AATTCTCTTGAAACTTCTTT+AGG 0.204373 7:-17931723 None:intergenic
GTTCCTACAGGTGGAAAATT+AGG 0.209351 7:-17931576 None:intergenic
CTTGATACTCTGACAATTCT+TGG 0.239929 7:-17931357 None:intergenic
GTACTATTCATCAAGTAATT+TGG 0.245121 7:-17931759 None:intergenic
TGCTGAAAATTCTTCTCAAT+TGG 0.271973 7:+17931953 MsaT035644.1:CDS
ATTCTCTTGAAACTTCTTTA+GGG 0.288069 7:-17931722 None:intergenic
CCAATAAATGAAGGGTGATT+TGG 0.289695 7:-17931873 None:intergenic
ATTCTTGGATCTTTCAATCT+TGG 0.296306 7:-17931342 None:intergenic
GTCAGAGTATCAAGAGCTTT+TGG 0.318336 7:+17931366 MsaT035644.1:CDS
TAAAGAAGTTTCAAGAGAAT+TGG 0.320601 7:+17931725 MsaT035644.1:CDS
AATTCTTCTCAAATGATGTT+AGG 0.334825 7:+17932029 MsaT035644.1:CDS
TCAATAGGAACAATATTCAT+TGG 0.339202 7:+17931658 MsaT035644.1:CDS
TATGATCTTCAAGATAGGTT+AGG 0.344793 7:+17931477 MsaT035644.1:CDS
GATTGAGAGATAGAAGAATA+AGG 0.365377 7:+17931427 MsaT035644.1:CDS
CCAATGTTGTCTTTATCAAC+TGG 0.374206 7:+17932005 MsaT035644.1:CDS
TGATGAACCTCTTGTTTCAA+TGG 0.375029 7:-17931249 None:intergenic
AACAATTGTTCAATTTCAAT+AGG 0.377158 7:+17931643 MsaT035644.1:CDS
AACCTAGCAAAGTTGTTGAT+TGG 0.387978 7:+17931508 MsaT035644.1:CDS
GCTGAAAATTCTTCTCAATT+GGG 0.390841 7:+17931954 MsaT035644.1:CDS
CAACAATCCATCCTTCAGTT+TGG 0.407175 7:+17932190 MsaT035644.1:CDS
GTAGGAACAAATTTCAACTT+TGG 0.419771 7:+17931591 MsaT035644.1:CDS
AACTTTATGATCTTCAAGAT+AGG 0.421843 7:+17931472 MsaT035644.1:CDS
ATGATCTTCAAGATAGGTTA+GGG 0.433727 7:+17931478 MsaT035644.1:CDS
AGCAAAGTATGCACAATAAG+AGG 0.437085 7:+17931405 MsaT035644.1:CDS
TTTAATAAACCAATAAATGA+AGG 0.455410 7:-17931882 None:intergenic
CAATAGGAACAATATTCATT+GGG 0.458388 7:+17931659 MsaT035644.1:CDS
TTGAAATTTGTTCCTACAGG+TGG 0.465228 7:-17931585 None:intergenic
TTGTTGAGAGAATTAGTCAT+TGG 0.470696 7:-17932173 None:intergenic
AAGTTGAAATTTGTTCCTAC+AGG 0.474911 7:-17931588 None:intergenic
TTTGATGATAATGATGGTTG+TGG 0.483862 7:-17932121 None:intergenic
ACTTGGTACTAATTACCAAT+GGG 0.492610 7:+17931914 MsaT035644.1:CDS
TTCTTCAAATGTTAATGCAA+TGG 0.492790 7:+17932070 MsaT035644.1:CDS
TAGAAATTTGGCCAAACTGA+AGG 0.496121 7:-17932201 None:intergenic
TTGTTGAGTTCATTAGAAGA+TGG 0.499012 7:-17931618 None:intergenic
TCTTCTCAATTGGGAAACAA+TGG 0.501500 7:+17931963 MsaT035644.1:CDS
TTATTAAATCCTATGCCACT+TGG 0.521662 7:+17931897 MsaT035644.1:CDS
AAATGTTAATGCAATGGAGA+TGG 0.523566 7:+17932076 MsaT035644.1:CDS
ACAGGTGGAAAATTAGGTAA+TGG 0.536982 7:-17931570 None:intergenic
CCAGTTGATAAAGACAACAT+TGG 0.545201 7:-17932005 None:intergenic
TCAACATTTGATGATAATGA+TGG 0.545561 7:-17932127 None:intergenic
AACCAATCAACAACTTTGCT+AGG 0.547433 7:-17931510 None:intergenic
TAATTAGTACCAAGTGGCAT+AGG 0.547722 7:-17931906 None:intergenic
GATGAAAATATTAACAAGCA+AGG 0.549563 7:+17931789 MsaT035644.1:CDS
CACTTGGTACTAATTACCAA+TGG 0.556420 7:+17931913 MsaT035644.1:CDS
CATTGGAAGTACCTCCCCAT+TGG 0.558728 7:-17931929 None:intergenic
AATTTGGCCAAACTGAAGGA+TGG 0.562622 7:-17932197 None:intergenic
TGGCCATTGTGATGAAGCTA+AGG 0.563573 7:-17931322 None:intergenic
AGGAACAATATTCATTGGGA+AGG 0.563907 7:+17931663 MsaT035644.1:CDS
GGTGGAAAATTAGGTAATGG+TGG 0.564196 7:-17931567 None:intergenic
GTTGATAAAGACAACATTGG+TGG 0.570845 7:-17932002 None:intergenic
TCATAAAGTTGAATAGCTGT+TGG 0.592296 7:-17931459 None:intergenic
TTAATAAACCAATAAATGAA+GGG 0.612685 7:-17931881 None:intergenic
GAAGCTAAGGAGCTTGATGA+TGG 0.616225 7:-17931309 None:intergenic
GCTCCTTAGCTTCATCACAA+TGG 0.647279 7:+17931319 MsaT035644.1:CDS
GGTACTAATTACCAATGGGG+AGG 0.679474 7:+17931918 MsaT035644.1:CDS
CATTGGTAATTAGTACCAAG+TGG 0.701178 7:-17931912 None:intergenic
CTTGGTACTAATTACCAATG+GGG 0.737610 7:+17931915 MsaT035644.1:CDS

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
Chromosome Type Strat End Strand Name
Chr7 gene 17931222 17932277 17931222 ID=MsaG035644
Chr7 mRNA 17931222 17932277 17931222 ID=MsaT035644.1;Parent=MsaG035644
Chr7 exon 17931222 17932277 17931222 ID=MsaT035644.1.exon1;Parent=MsaT035644.1
Chr7 CDS 17931222 17932277 17931222 ID=cds.MsaT035644.1;Parent=MsaT035644.1
Gene Sequence

>MsaT035644.1

ATGAATAAGAATTCAAAAGAAGATTTTCCATTGAAACAAGAGGTTCATCAAAATTCAAACGATCATGAAAAAGAAAAGGCTAATTCACCATCATCAAGCTCCTTAGCTTCATCACAATGGCCAAGATTGAAAGATCCAAGAATTGTCAGAGTATCAAGAGCTTTTGGTGGAAAAGATAGACATAGCAAAGTATGCACAATAAGAGGATTGAGAGATAGAAGAATAAGGCTTTCAGTACCAACAGCTATTCAACTTTATGATCTTCAAGATAGGTTAGGGCTTAATCAACCTAGCAAAGTTGTTGATTGGTTGCTCAATGCAGCTAAACATGACATTGATCAACTTCCACCATTACCTAATTTTCCACCTGTAGGAACAAATTTCAACTTTGGTTTTCCATCTTCTAATGAACTCAACAATCAACAATTGTTCAATTTCAATAGGAACAATATTCATTGGGAAGGTTCAACTTCAAGTCAAAATTCTTCTTGGAAATCAAACCCTAAAGAAGTTTCAAGAGAATTGGTTAATGATAAACCAAATTACTTGATGAATAGTACTCAAGAAGATGAAAATATTAACAAGCAAGGAAGCAATATTGAAGTTCCTACTGCAAATGTTTTTCCAAATAATAACAATATGTTACAAAGACCAAATCACCCTTCATTTATTGGTTTATTAAATCCTATGCCACTTGGTACTAATTACCAATGGGGAGGTACTTCCAATGATGCTGAAAATTCTTCTCAATTGGGAAACAATGGCTTTATTACATCTTTGCCACCAATGTTGTCTTTATCAACTGGAAATTCTTCTCAAATGATGTTAGGAACAACACAATCATATTTTTCTTCAAATGTTAATGCAATGGAGATGGATCATCATCATCAAAGAGAAATCCACAACCATCATTATCATCAAATGTTGAGTTCATCAAGTTCTTCTCAGAATCCAATGACTAATTCTCTCAACAATCCATCCTTCAGTTTGGCCAAATTTCTACAAAACAGCAGAGAAAATTCATCCAATAAAGAACAAGAGTTCACTACAAAGTGA

Protein sequence

>MsaT035644.1

MNKNSKEDFPLKQEVHQNSNDHEKEKANSPSSSSLASSQWPRLKDPRIVRVSRAFGGKDRHSKVCTIRGLRDRRIRLSVPTAIQLYDLQDRLGLNQPSKVVDWLLNAAKHDIDQLPPLPNFPPVGTNFNFGFPSSNELNNQQLFNFNRNNIHWEGSTSSQNSSWKSNPKEVSRELVNDKPNYLMNSTQEDENINKQGSNIEVPTANVFPNNNNMLQRPNHPSFIGLLNPMPLGTNYQWGGTSNDAENSSQLGNNGFITSLPPMLSLSTGNSSQMMLGTTQSYFSSNVNAMEMDHHHQREIHNHHYHQMLSSSSSSQNPMTNSLNNPSFSLAKFLQNSRENSSNKEQEFTTK*