AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar zhongmu-4 / Msa1137750


Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
Msa1137750 MtrunA17_Chr7g0222831 94.886 176 6 1 1 176 12 184 9.65e-102 290
Msa1137750 MtrunA17_Chr1g0212561 56.842 190 63 6 1 175 16 201 3.66e-57 178
Msa1137750 MtrunA17_Chr1g0182161 47.929 169 55 4 1 162 16 158 2.62e-40 134
Msa1137750 MtrunA17_Chr7g0263121 44.253 174 74 5 1 171 15 168 6.50e-36 123
Msa1137750 MtrunA17_Chr1g0182181 43.030 165 69 5 1 162 11 153 2.86e-33 116
Msa1137750 MtrunA17_Chr7g0263131 44.375 160 59 5 2 158 15 147 3.92e-32 113
Msa1137750 MtrunA17_Chr2g0327901 42.767 159 51 3 3 161 12 130 6.51e-30 106
Msa1137750 MtrunA17_Chr1g0197281 37.037 216 65 7 1 158 102 304 2.67e-29 110
Msa1137750 MtrunA17_Chr1g0180311 38.614 202 67 6 1 158 81 269 1.85e-25 99.4
Msa1137750 MtrunA17_Chr4g0027991 30.973 226 62 5 2 159 67 266 1.99e-21 88.6
Msa1137750 MtrunA17_Chr2g0320311 33.778 225 66 10 1 159 75 282 2.31e-21 88.2
Msa1137750 MtrunA17_Chr1g0207451 41.414 99 51 3 1 97 60 153 2.45e-16 73.9
Msa1137750 MtrunA17_Chr7g0231181 43.478 92 44 3 12 97 219 308 2.64e-15 72.4
Msa1137750 MtrunA17_Chr4g0012691 46.988 83 28 2 29 97 220 300 2.77e-15 72.4
Msa1137750 MtrunA17_Chr3g0134711 31.792 173 82 3 1 157 52 204 2.69e-14 68.6
Msa1137750 MtrunA17_Chr1g0152661 30.286 175 79 5 1 155 43 194 2.98e-14 68.2
Msa1137750 MtrunA17_Chr1g0188901 44.944 89 32 3 28 99 59 147 4.05e-11 58.9
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
Msa1137750 AT2G28710.1 44.186 172 58 7 1 166 14 153 1.17e-34 119
Msa1137750 AT2G37430.1 42.614 176 79 5 1 173 17 173 1.34e-32 115
Msa1137750 AT3G53600.1 41.573 178 75 6 1 173 17 170 5.11e-30 108
Msa1137750 AT2G28200.1 37.838 222 74 7 1 173 77 283 8.37e-29 108
Msa1137750 AT5G59820.1 56.122 98 34 4 2 98 16 105 4.65e-27 100
Msa1137750 AT3G46090.1 48.182 110 41 3 2 105 17 116 1.96e-26 99.0
Msa1137750 AT5G04390.1 34.685 222 80 7 1 158 100 320 1.25e-24 98.6
Msa1137750 AT3G46080.1 52.427 103 35 3 2 99 16 109 1.27e-24 94.4
Msa1137750 AT5G03510.1 41.333 150 43 5 1 105 73 222 1.77e-24 97.1
Msa1137750 AT3G10470.1 37.791 172 66 6 28 158 181 352 1.35e-21 90.5
Msa1137750 AT3G46070.1 39.394 165 58 6 2 151 16 153 2.11e-21 86.3
Msa1137750 AT5G43170.1 44.898 98 46 3 1 97 50 140 1.80e-17 76.3
Msa1137750 AT2G45120.1 39.655 116 50 3 1 97 151 265 1.97e-17 78.2
Msa1137750 AT1G02030.1 49.367 79 37 1 26 101 157 235 1.83e-16 75.1
Msa1137750 AT1G49900.1 36.885 122 70 4 29 146 750 868 2.41e-16 76.3
Msa1137750 AT1G49900.1 32.624 141 84 4 8 140 172 309 9.87e-16 74.7
Msa1137750 AT3G49930.1 37.719 114 52 3 1 97 60 171 8.48e-16 72.4
Msa1137750 AT3G60580.1 37.594 133 54 5 1 107 127 256 4.40e-15 71.6
Msa1137750 AT3G19580.1 36.752 117 54 3 1 97 71 187 1.18e-14 70.1
Msa1137750 AT3G19580.2 36.752 117 54 3 1 97 71 187 1.18e-14 70.1
Msa1137750 AT5G04340.1 35.294 119 55 2 1 97 52 170 1.41e-14 69.7
Msa1137750 AT5G67450.1 34.146 123 55 2 1 97 64 186 2.64e-13 66.2
Msa1137750 AT1G27730.1 32.727 165 78 5 1 155 55 196 7.22e-13 64.7
Msa1137750 AT5G61470.1 44.928 69 38 0 29 97 228 296 1.08e-11 62.4
Msa1137750 AT4G35280.1 37.719 114 43 4 1 97 142 244 7.23e-11 59.7
Msa1137750 AT2G17180.1 35.246 122 57 5 1 105 125 241 8.24e-11 59.7

Find 36 sgRNAs with CRISPR-Local

Find 45 sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
AGCTAGAAACAAGAGAGTTT+TGG 0.329211 7_4:+6725898 Msa1137750:CDS
GACTCCCTTTGAGAATGATT+TGG 0.338834 7_4:+6725943 Msa1137750:CDS
GATTTGGAGTTTCTGAAGAT+TGG 0.360026 7_4:+6725959 Msa1137750:CDS
TTTGCAATAGGACAAGCTTT+AGG 0.385361 7_4:+6725737 Msa1137750:CDS
GTTTGAAGTGGTAGATGAAT+AGG 0.388284 7_4:-6725540 None:intergenic
TGTGGATTGGAGTTTGCAAT+AGG 0.393580 7_4:+6725725 Msa1137750:CDS
ACACATGAGTGTTCTATTTG+TGG 0.398280 7_4:+6725707 Msa1137750:CDS
TTCAAGCCCTAGGTGGTCAT+AGG 0.408731 7_4:+6725609 Msa1137750:CDS
GGTGGTGGTGGTGGCGGCGG+CGG 0.425209 7_4:+6725845 Msa1137750:CDS
TCACAAGAAGCCAAGGTTGA+TGG 0.443193 7_4:+6725637 Msa1137750:CDS
CCACCTAGGGCTTGAAATGA+AGG 0.446333 7_4:-6725602 None:intergenic
TGTAGCAGTGGTGGTGGTGG+TGG 0.464029 7_4:+6725836 Msa1137750:CDS
CATAGAGCTTCAAATATGAA+TGG 0.476589 7_4:+6725776 Msa1137750:CDS
TTGATGGGAGAAAATATTGA+TGG 0.490093 7_4:+6725653 Msa1137750:CDS
AACTCCAAATCATTCTCAAA+GGG 0.502858 7_4:-6725947 None:intergenic
TGAGTGTTCTATTTGTGGAT+TGG 0.512248 7_4:+6725712 Msa1137750:CDS
CACAAGAAGCCAAGGTTGAT+GGG 0.513592 7_4:+6725638 Msa1137750:CDS
AGTTGTAGCAGTGGTGGTGG+TGG 0.515605 7_4:+6725833 Msa1137750:CDS
AAACTCCAAATCATTCTCAA+AGG 0.533957 7_4:-6725948 None:intergenic
TTTCCTTCATTTCAAGCCCT+AGG 0.534557 7_4:+6725599 Msa1137750:CDS
TCAAGCCCTAGGTGGTCATA+GGG 0.557115 7_4:+6725610 Msa1137750:CDS
ATGAGTTGTAGCAGTGGTGG+TGG 0.557976 7_4:+6725830 Msa1137750:CDS
AAGCTCTATGTCTCCTCATG+TGG 0.562112 7_4:-6725763 None:intergenic
GGAGTTTCTGAAGATTGGAA+AGG 0.563168 7_4:+6725964 Msa1137750:CDS
AAGCTTTAGGTGGCCACATG+AGG 0.574238 7_4:+6725750 Msa1137750:CDS
TGTTTGATGTTACTTTCTCG+TGG 0.575084 7_4:+6725497 Msa1137750:CDS
TAACATCAAACAATTTGCCA+TGG 0.576305 7_4:-6725486 None:intergenic
ACTTGCCCTATGACCACCTA+GGG 0.582911 7_4:-6725615 None:intergenic
AAACACACGATTGTTTGAAG+TGG 0.591898 7_4:-6725552 None:intergenic
GCAATAGGACAAGCTTTAGG+TGG 0.602680 7_4:+6725740 Msa1137750:CDS
GGGCAAGTCACAAGAAGCCA+AGG 0.614071 7_4:+6725630 Msa1137750:CDS
GACTTGCCCTATGACCACCT+AGG 0.633456 7_4:-6725616 None:intergenic
CCTTCATTTCAAGCCCTAGG+TGG 0.640290 7_4:+6725602 Msa1137750:CDS
TGAAGTGGTAGATGAATAGG+TGG 0.663554 7_4:-6725537 None:intergenic
AATACTATGAGTTGTAGCAG+TGG 0.666236 7_4:+6725824 Msa1137750:CDS
ACTATGAGTTGTAGCAGTGG+TGG 0.688595 7_4:+6725827 Msa1137750:CDS

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
TTGATGGGAGAAAATATTGA+TGG + chr7_4:6725653-6725672 Msa1137750:CDS 30.0%
! ATAGAACACTCATGTGTTTT+AGG - chr7_4:6725704-6725723 None:intergenic 30.0%
CATAGAGCTTCAAATATGAA+TGG + chr7_4:6725776-6725795 Msa1137750:CDS 30.0%
!!! AAACAAGAGAGTTTTGGTTT+TGG + chr7_4:6725904-6725923 Msa1137750:CDS 30.0%
AACTCCAAATCATTCTCAAA+GGG - chr7_4:6725950-6725969 None:intergenic 30.0%
AAACTCCAAATCATTCTCAA+AGG - chr7_4:6725951-6725970 None:intergenic 30.0%
!! TGTTTGATGTTACTTTCTCG+TGG + chr7_4:6725497-6725516 Msa1137750:CDS 35.0%
! GTTTGAAGTGGTAGATGAAT+AGG - chr7_4:6725543-6725562 None:intergenic 35.0%
AAACACACGATTGTTTGAAG+TGG - chr7_4:6725555-6725574 None:intergenic 35.0%
! ATATTTTCTCCCATCAACCT+TGG - chr7_4:6725650-6725669 None:intergenic 35.0%
!! ACTCATGTGTTTTAGGCTTT+GGG - chr7_4:6725697-6725716 None:intergenic 35.0%
ACACATGAGTGTTCTATTTG+TGG + chr7_4:6725707-6725726 Msa1137750:CDS 35.0%
TGAGTGTTCTATTTGTGGAT+TGG + chr7_4:6725712-6725731 Msa1137750:CDS 35.0%
TTTGCAATAGGACAAGCTTT+AGG + chr7_4:6725737-6725756 Msa1137750:CDS 35.0%
AATACTATGAGTTGTAGCAG+TGG + chr7_4:6725824-6725843 Msa1137750:CDS 35.0%
! AGCTAGAAACAAGAGAGTTT+TGG + chr7_4:6725898-6725917 Msa1137750:CDS 35.0%
!!! GAGAGTTTTGGTTTTGGATT+TGG + chr7_4:6725910-6725929 Msa1137750:CDS 35.0%
! GATTTGGAGTTTCTGAAGAT+TGG + chr7_4:6725959-6725978 Msa1137750:CDS 35.0%
TGAAGTGGTAGATGAATAGG+TGG - chr7_4:6725540-6725559 None:intergenic 40.0%
TTTCCTTCATTTCAAGCCCT+AGG + chr7_4:6725599-6725618 Msa1137750:CDS 40.0%
!! TCATGTGTTTTAGGCTTTGG+GGG - chr7_4:6725695-6725714 None:intergenic 40.0%
!! CTCATGTGTTTTAGGCTTTG+GGG - chr7_4:6725696-6725715 None:intergenic 40.0%
!! CACTCATGTGTTTTAGGCTT+TGG - chr7_4:6725698-6725717 None:intergenic 40.0%
!! TGTGGATTGGAGTTTGCAAT+AGG + chr7_4:6725725-6725744 Msa1137750:CDS 40.0%
! GACTCCCTTTGAGAATGATT+TGG + chr7_4:6725943-6725962 Msa1137750:CDS 40.0%
! GGAGTTTCTGAAGATTGGAA+AGG + chr7_4:6725964-6725983 Msa1137750:CDS 40.0%
TCACAAGAAGCCAAGGTTGA+TGG + chr7_4:6725637-6725656 Msa1137750:CDS 45.0%
! CACAAGAAGCCAAGGTTGAT+GGG + chr7_4:6725638-6725657 Msa1137750:CDS 45.0%
!! GCAATAGGACAAGCTTTAGG+TGG + chr7_4:6725740-6725759 Msa1137750:CDS 45.0%
AAGCTCTATGTCTCCTCATG+TGG - chr7_4:6725766-6725785 None:intergenic 45.0%
ACTATGAGTTGTAGCAGTGG+TGG + chr7_4:6725827-6725846 Msa1137750:CDS 45.0%
CCACCTAGGGCTTGAAATGA+AGG - chr7_4:6725605-6725624 None:intergenic 50.0%
CCTTCATTTCAAGCCCTAGG+TGG + chr7_4:6725602-6725621 Msa1137750:CDS 50.0%
TTCAAGCCCTAGGTGGTCAT+AGG + chr7_4:6725609-6725628 Msa1137750:CDS 50.0%
TCAAGCCCTAGGTGGTCATA+GGG + chr7_4:6725610-6725629 Msa1137750:CDS 50.0%
ACTTGCCCTATGACCACCTA+GGG - chr7_4:6725618-6725637 None:intergenic 50.0%
!! AAGCTTTAGGTGGCCACATG+AGG + chr7_4:6725750-6725769 Msa1137750:CDS 50.0%
ATGAGTTGTAGCAGTGGTGG+TGG + chr7_4:6725830-6725849 Msa1137750:CDS 50.0%
GACTTGCCCTATGACCACCT+AGG - chr7_4:6725619-6725638 None:intergenic 55.0%
GGGCAAGTCACAAGAAGCCA+AGG + chr7_4:6725630-6725649 Msa1137750:CDS 55.0%
!! AGTTGTAGCAGTGGTGGTGG+TGG + chr7_4:6725833-6725852 Msa1137750:CDS 55.0%
!! TGTAGCAGTGGTGGTGGTGG+TGG + chr7_4:6725836-6725855 Msa1137750:CDS 60.0%
!! AGCAGTGGTGGTGGTGGTGG+CGG + chr7_4:6725839-6725858 Msa1137750:CDS 65.0%
!! AGTGGTGGTGGTGGTGGCGG+CGG + chr7_4:6725842-6725861 Msa1137750:CDS 70.0%
!!! GGTGGTGGTGGTGGCGGCGG+CGG + chr7_4:6725845-6725864 Msa1137750:CDS 80.0%
Chromosome Type Strat End Strand Name
chr7_4 gene 6725488 6726018 6725488 ID=Msa1137750;Name=Msa1137750
chr7_4 mRNA 6725488 6726018 6725488 ID=Msa1137750-mRNA-1;Parent=Msa1137750;Name=Msa1137750-mRNA-1;_AED=0.03;_eAED=0.03;_QI=0|-1|0|1|-1|1|1|0|176
chr7_4 exon 6725488 6726018 6725488 ID=Msa1137750-mRNA-1:exon:1865;Parent=Msa1137750-mRNA-1
chr7_4 CDS 6725488 6726018 6725488 ID=Msa1137750-mRNA-1:cds;Parent=Msa1137750-mRNA-1
Gene Sequence

>Msa1137750

ATGGCAAATTGTTTGATGTTACTTTCTCGTGGAAGTGATCAATTTGAAGCCACCTATTCATCTACCACTTCAAACAATCGTGTGTTTGAATGTAAAACATGCAATAGACAATTTCCTTCATTTCAAGCCCTAGGTGGTCATAGGGCAAGTCACAAGAAGCCAAGGTTGATGGGAGAAAATATTGATGGTCAATTGCTACATACACCCCCAAAGCCTAAAACACATGAGTGTTCTATTTGTGGATTGGAGTTTGCAATAGGACAAGCTTTAGGTGGCCACATGAGGAGACATAGAGCTTCAAATATGAATGGAAATAACAAGATGCACAATTCTAATAATACTATGAGTTGTAGCAGTGGTGGTGGTGGTGGCGGCGGCGGTAGTAGTATTGATTCTTCACAAAATATGAAAGCTAGAAACAAGAGAGTTTTGGTTTTGGATTTGGATTTGAATTTGACTCCCTTTGAGAATGATTTGGAGTTTCTGAAGATTGGAAAGGCAACTGCTAATTTGATTGATTATTTTCATTGA

Protein sequence

>Msa1137750

MANCLMLLSRGSDQFEATYSSTTSNNRVFECKTCNRQFPSFQALGGHRASHKKPRLMGENIDGQLLHTPPKPKTHECSICGLEFAIGQALGGHMRRHRASNMNGNNKMHNSNNTMSCSSGGGGGGGGSSIDSSQNMKARNKRVLVLDLDLNLTPFENDLEFLKIGKATANLIDYFH*