AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar XinJiangDaYe / MS.gene07493

Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene07493.t1 MTR_1g077730 59.346 214 37 6 1 184 1 194 3.10e-71 214
MS.gene07493.t1 MTR_1g077700 69.110 191 47 5 1 184 1 186 2.23e-69 209
MS.gene07493.t1 MTR_1g090703 51.786 168 49 7 44 182 135 299 8.81e-38 133
MS.gene07493.t1 MTR_1g067640 37.600 125 61 3 63 183 38 149 7.16e-20 82.4
MS.gene07493.t1 MTR_1g067650 37.600 125 61 3 63 183 39 150 8.06e-20 82.0
MS.gene07493.t1 MTR_7g100100 40.323 124 57 4 63 183 34 143 1.89e-19 81.3
MS.gene07493.t1 MTR_2g084315 36.842 152 66 4 60 182 122 272 1.17e-18 81.6
MS.gene07493.t1 MTR_1g115345 46.341 82 37 1 62 143 44 118 7.86e-18 77.8
MS.gene07493.t1 MTR_1g062780 34.839 155 70 3 56 182 113 264 1.66e-17 78.6
MS.gene07493.t1 MTR_7g023560 48.810 84 31 2 62 145 39 110 1.48e-16 73.9
MS.gene07493.t1 MTR_2g096540 33.083 133 60 2 47 179 18 121 2.50e-16 72.0
MS.gene07493.t1 MTR_1g067660 36.800 125 61 4 63 183 35 145 2.73e-16 72.8
MS.gene07493.t1 MTR_4g027440 41.975 81 47 0 63 143 220 300 6.91e-15 72.0
MS.gene07493.t1 MTR_4g028610 32.468 154 70 5 62 182 226 378 1.49e-13 68.2
MS.gene07493.t1 MTR_1g018420 35.000 120 70 2 63 182 81 192 5.10e-12 62.8
MS.gene07493.t1 MTR_1g106730 39.506 81 39 1 63 143 83 153 1.18e-11 62.0
MS.gene07493.t1 MTR_0160s0030 33.600 125 60 4 58 182 235 336 2.28e-11 61.6
MS.gene07493.t1 MTR_3g102980 43.210 81 44 1 63 143 86 164 4.89e-11 60.1
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene07493.t1 AT2G28200 41.558 154 61 5 56 182 108 259 5.59e-28 106
MS.gene07493.t1 AT3G10470 42.197 173 50 8 58 182 177 347 1.56e-27 107
MS.gene07493.t1 AT5G04390 40.541 185 62 7 41 182 136 315 3.65e-27 105
MS.gene07493.t1 AT2G37430 39.098 133 59 4 56 183 40 155 6.53e-20 82.8
MS.gene07493.t1 AT5G03510 36.620 142 71 3 61 183 116 257 2.21e-18 80.9
MS.gene07493.t1 AT3G53600 31.481 162 86 5 23 183 15 152 1.39e-17 76.6
MS.gene07493.t1 AT5G59820 30.726 179 87 6 8 181 1 147 3.24e-16 72.4
MS.gene07493.t1 AT3G46090 37.097 124 62 3 61 180 38 149 6.09e-16 72.0
MS.gene07493.t1 AT2G28710 38.835 103 43 3 41 143 18 100 1.85e-14 67.8
MS.gene07493.t1 AT3G46080 42.857 84 36 2 61 143 35 107 3.96e-14 67.0
MS.gene07493.t1 AT3G49930 42.353 85 38 2 63 143 94 171 6.73e-14 67.4
MS.gene07493.t1 AT3G60580 45.679 81 37 2 63 143 173 246 4.66e-13 66.2
MS.gene07493.t1 AT5G67450 37.778 90 47 1 63 143 97 186 7.20e-13 65.1
MS.gene07493.t1 AT2G45120 33.884 121 66 2 63 183 194 300 8.41e-13 65.5
MS.gene07493.t1 AT1G27730 45.679 81 42 1 63 143 80 158 1.07e-12 64.3
MS.gene07493.t1 AT3G46070 35.484 93 52 1 51 143 24 108 1.67e-12 62.8
MS.gene07493.t1 AT4G35280 35.075 134 60 4 54 183 153 263 2.10e-12 64.3
MS.gene07493.t1 AT5G04340 40.000 85 46 2 62 143 88 170 2.47e-12 63.5
MS.gene07493.t1 AT5G43170 43.210 81 31 3 63 143 75 140 3.05e-12 62.8
MS.gene07493.t1 AT1G02030 36.782 87 46 1 59 145 156 233 4.08e-12 63.2
MS.gene07493.t1 AT3G19580 36.585 82 51 1 63 143 106 187 8.23e-12 62.4
MS.gene07493.t1 AT3G19580 36.585 82 51 1 63 143 106 187 8.23e-12 62.4
MS.gene07493.t1 AT5G61470 38.144 97 41 3 50 143 216 296 2.14e-11 61.6

Find 47 sgRNAs with CRISPR-Local

Find 52 sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
AACAACAAATCCAACGTTTA+TGG 0.181089 1.2:-63099851 MS.gene07493:CDS
AACGAATGTCTCTTTGGATT+TGG 0.231339 1.2:-63099684 MS.gene07493:CDS
ATTCACTTTGGTGACATTAA+TGG 0.242417 1.2:+63100144 None:intergenic
CTCATTAACACCAATGGCTT+TGG 0.300691 1.2:-63099744 MS.gene07493:CDS
GGTTCTTCATCTTCTTTGTC+TGG 0.341589 1.2:+63099719 None:intergenic
AGTGGTGGTGGAGGTGGTGT+TGG 0.362843 1.2:+63099895 None:intergenic
ACAACAAATCCAACGTTTAT+GGG 0.395741 1.2:-63099850 MS.gene07493:CDS
GAGGTCGCCTCCACCGGTGC+AGG 0.405277 1.2:+63099764 None:intergenic
TGTGGTTCTAAATTCACATC+TGG 0.409768 1.2:-63099818 MS.gene07493:CDS
GTTGGTAGTGGTGGTGGAGG+TGG 0.418761 1.2:+63099889 None:intergenic
TATCTTTGATCTTCTTAAGC+TGG 0.420628 1.2:+63099647 None:intergenic
GTTTATGGGTGCTCTATTTG+TGG 0.429587 1.2:-63099836 MS.gene07493:CDS
GAATAAGCAATGATGGAGAA+AGG 0.431980 1.2:+63100082 None:intergenic
TTCACTTCATTTCAAGCACT+TGG 0.432350 1.2:-63099980 MS.gene07493:CDS
GTTGTTGTTGGTAGTGGTGG+TGG 0.447547 1.2:+63099883 None:intergenic
GTTAATGAGGTCGCCTCCAC+CGG 0.455728 1.2:+63099758 None:intergenic
TTCACATCTGGCCAGGCACT+TGG 0.470440 1.2:-63099806 MS.gene07493:CDS
TTGTCTGGTTCCAAAGCCAT+TGG 0.473795 1.2:+63099734 None:intergenic
CAAAGTGAATATAACTCAAA+AGG 0.474354 1.2:-63100131 MS.gene07493:CDS
AGTAGAAGAATAAGCAATGA+TGG 0.477070 1.2:+63100075 None:intergenic
CCTAGAAAAGCTCATAGAAA+AGG 0.480382 1.2:-63099932 MS.gene07493:CDS
GTTGTTGGTAGTGGTGGTGG+AGG 0.487921 1.2:+63099886 None:intergenic
GTGCAGGGTGGAAGTTCATA+TGG 0.495014 1.2:+63099780 None:intergenic
TCATATGGCCACCAAGTGCC+TGG 0.495422 1.2:+63099795 None:intergenic
CTTCCACCCTGCACCGGTGG+AGG 0.496858 1.2:-63099771 MS.gene07493:CDS
AATAAGCAATGATGGAGAAA+GGG 0.498901 1.2:+63100083 None:intergenic
GTTGTTGTTGTTGGTAGTGG+TGG 0.519273 1.2:+63099880 None:intergenic
AGAAAGGGATAGGAGATTGT+GGG 0.519333 1.2:+63100098 None:intergenic
ACTTCATTTCAAGCACTTGG+AGG 0.520190 1.2:-63099977 MS.gene07493:CDS
GCTTATTCTTCTACTAGAGA+AGG 0.521996 1.2:-63100067 MS.gene07493:CDS
GCAATGATGGAGAAAGGGAT+AGG 0.524368 1.2:+63100088 None:intergenic
ACATCTGGCCAGGCACTTGG+TGG 0.529943 1.2:-63099803 MS.gene07493:CDS
CAAAGCCATTGGTGTTAATG+AGG 0.530269 1.2:+63099745 None:intergenic
TTCTAAATTCACATCTGGCC+AGG 0.531142 1.2:-63099813 MS.gene07493:CDS
GAGAAAGGGATAGGAGATTG+TGG 0.535781 1.2:+63100097 None:intergenic
AAAGGGATAGGAGATTGTGG+GGG 0.541180 1.2:+63100100 None:intergenic
AGGTCGCCTCCACCGGTGCA+GGG 0.559156 1.2:+63099765 None:intergenic
GAAAGGGATAGGAGATTGTG+GGG 0.561722 1.2:+63100099 None:intergenic
GATCTTCTTAAGCTGGAGGA+AGG 0.566486 1.2:+63099654 None:intergenic
GAACTTCCACCCTGCACCGG+TGG 0.571423 1.2:-63099774 MS.gene07493:CDS
TATGAACTTCCACCCTGCAC+CGG 0.571843 1.2:-63099777 MS.gene07493:CDS
CTTTGATCTTCTTAAGCTGG+AGG 0.575809 1.2:+63099650 None:intergenic
GGCGACCTCATTAACACCAA+TGG 0.589385 1.2:-63099750 MS.gene07493:CDS
AAGGGATAGGAGATTGTGGG+GGG 0.595859 1.2:+63100101 None:intergenic
TATTCTTCTACTAGAGAAGG+AGG 0.628197 1.2:-63100064 MS.gene07493:CDS
AATAGAGCACCCATAAACGT+TGG 0.630895 1.2:+63099841 None:intergenic
TCGCCTCCACCGGTGCAGGG+TGG 0.663528 1.2:+63099768 None:intergenic

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
! CAAAGTGAATATAACTCAAA+AGG - chr1.2:63099723-63099742 MS.gene07493:CDS 25.0%
!!! CTTTTGAGTTATATTCACTT+TGG + chr1.2:63099725-63099744 None:intergenic 25.0%
AACAACAAATCCAACGTTTA+TGG - chr1.2:63100003-63100022 MS.gene07493:CDS 30.0%
ACAACAAATCCAACGTTTAT+GGG - chr1.2:63100004-63100023 MS.gene07493:CDS 30.0%
AGAAAAAACGAATGTCTCTT+TGG - chr1.2:63100164-63100183 MS.gene07493:CDS 30.0%
AGTAGAAGAATAAGCAATGA+TGG + chr1.2:63099782-63099801 None:intergenic 30.0%
! AATAAGCAATGATGGAGAAA+GGG + chr1.2:63099774-63099793 None:intergenic 30.0%
! ATTCACTTTGGTGACATTAA+TGG + chr1.2:63099713-63099732 None:intergenic 30.0%
AACGAATGTCTCTTTGGATT+TGG - chr1.2:63100170-63100189 MS.gene07493:CDS 35.0%
CCTAGAAAAGCTCATAGAAA+AGG - chr1.2:63099922-63099941 MS.gene07493:CDS 35.0%
GCTTATTCTTCTACTAGAGA+AGG - chr1.2:63099787-63099806 MS.gene07493:CDS 35.0%
TATTCTTCTACTAGAGAAGG+AGG - chr1.2:63099790-63099809 MS.gene07493:CDS 35.0%
TTCACTTCATTTCAAGCACT+TGG - chr1.2:63099874-63099893 MS.gene07493:CDS 35.0%
! CCTTTTCTATGAGCTTTTCT+AGG + chr1.2:63099925-63099944 None:intergenic 35.0%
! GAATAAGCAATGATGGAGAA+AGG + chr1.2:63099775-63099794 None:intergenic 35.0%
! GCTTCTTGTGAACTTTTCTA+TGG + chr1.2:63099903-63099922 None:intergenic 35.0%
! GTTGTTGTTGTTGTTGTTGT+TGG + chr1.2:63099986-63100005 None:intergenic 35.0%
!! TGTGGTTCTAAATTCACATC+TGG - chr1.2:63100036-63100055 MS.gene07493:CDS 35.0%
ACTTCATTTCAAGCACTTGG+AGG - chr1.2:63099877-63099896 MS.gene07493:CDS 40.0%
AGAAAGGGATAGGAGATTGT+GGG + chr1.2:63099759-63099778 None:intergenic 40.0%
CTCATTAACACCAATGGCTT+TGG - chr1.2:63100110-63100129 MS.gene07493:CDS 40.0%
GGTTCTTCATCTTCTTTGTC+TGG + chr1.2:63100138-63100157 None:intergenic 40.0%
GTTTATGGGTGCTCTATTTG+TGG - chr1.2:63100018-63100037 MS.gene07493:CDS 40.0%
TTCTAAATTCACATCTGGCC+AGG - chr1.2:63100041-63100060 MS.gene07493:CDS 40.0%
! AATAGAGCACCCATAAACGT+TGG + chr1.2:63100016-63100035 None:intergenic 40.0%
! GTTGTTGTTGTTGTTGGTAG+TGG + chr1.2:63099980-63099999 None:intergenic 40.0%
!! CAAAGCCATTGGTGTTAATG+AGG + chr1.2:63100112-63100131 None:intergenic 40.0%
!!! ACATTCGTTTTTTCTGCAGG+TGG + chr1.2:63100159-63100178 None:intergenic 40.0%
!!! GAGACATTCGTTTTTTCTGC+AGG + chr1.2:63100162-63100181 None:intergenic 40.0%
AAAGGGATAGGAGATTGTGG+GGG + chr1.2:63099757-63099776 None:intergenic 45.0%
GAAAGGGATAGGAGATTGTG+GGG + chr1.2:63099758-63099777 None:intergenic 45.0%
GAGAAAGGGATAGGAGATTG+TGG + chr1.2:63099760-63099779 None:intergenic 45.0%
! GCAATGATGGAGAAAGGGAT+AGG + chr1.2:63099769-63099788 None:intergenic 45.0%
! TTGTCTGGTTCCAAAGCCAT+TGG + chr1.2:63100123-63100142 None:intergenic 45.0%
!! GTTGTTGTTGTTGGTAGTGG+TGG + chr1.2:63099977-63099996 None:intergenic 45.0%
AAGGGATAGGAGATTGTGGG+GGG + chr1.2:63099756-63099775 None:intergenic 50.0%
GGCGACCTCATTAACACCAA+TGG - chr1.2:63100104-63100123 MS.gene07493:CDS 50.0%
GTGCAGGGTGGAAGTTCATA+TGG + chr1.2:63100077-63100096 None:intergenic 50.0%
TATGAACTTCCACCCTGCAC+CGG - chr1.2:63100077-63100096 MS.gene07493:CDS 50.0%
!! GTTGTTGTTGGTAGTGGTGG+TGG + chr1.2:63099974-63099993 None:intergenic 50.0%
GTTAATGAGGTCGCCTCCAC+CGG + chr1.2:63100099-63100118 None:intergenic 55.0%
TCATATGGCCACCAAGTGCC+TGG + chr1.2:63100062-63100081 None:intergenic 55.0%
TTCACATCTGGCCAGGCACT+TGG - chr1.2:63100048-63100067 MS.gene07493:CDS 55.0%
!! GTTGTTGGTAGTGGTGGTGG+AGG + chr1.2:63099971-63099990 None:intergenic 55.0%
ACATCTGGCCAGGCACTTGG+TGG - chr1.2:63100051-63100070 MS.gene07493:CDS 60.0%
!! AGTGGTGGTGGAGGTGGTGT+TGG + chr1.2:63099962-63099981 None:intergenic 60.0%
!! GTTGGTAGTGGTGGTGGAGG+TGG + chr1.2:63099968-63099987 None:intergenic 60.0%
GAACTTCCACCCTGCACCGG+TGG - chr1.2:63100080-63100099 MS.gene07493:CDS 65.0%
AGGTCGCCTCCACCGGTGCA+GGG + chr1.2:63100092-63100111 None:intergenic 70.0%
! CTTCCACCCTGCACCGGTGG+AGG - chr1.2:63100083-63100102 MS.gene07493:CDS 70.0%
GAGGTCGCCTCCACCGGTGC+AGG + chr1.2:63100093-63100112 None:intergenic 75.0%
TCGCCTCCACCGGTGCAGGG+TGG + chr1.2:63100089-63100108 None:intergenic 75.0%


Chromosome Type Strat End Strand Name
chr1.2 gene 63099661 63100215 63099661 ID=MS.gene07493
chr1.2 mRNA 63099661 63100215 63099661 ID=MS.gene07493.t1;Parent=MS.gene07493
chr1.2 exon 63099661 63100215 63099661 ID=MS.gene07493.t1.exon1;Parent=MS.gene07493.t1
chr1.2 CDS 63099661 63100215 63099661 ID=cds.MS.gene07493.t1;Parent=MS.gene07493.t1
Gene Sequence

>MS.gene07493

ATGGAAGCATCTCACGAACAACAACTCTCACTAAACTCTACAGAACACACCATTAATGTCACCAAAGTGAATATAACTCAAAAGGTTATAAACCCCCCACAATCTCCTATCCCTTTCTCCATCATTGCTTATTCTTCTACTAGAGAAGGAGGAACAAGAACAAGAGAAAGTGCACGTTACAATGTGTATACATGCAAAACATGCAACAAAACATTCACTTCATTTCAAGCACTTGGAGGCCATAGAAAAGTTCACAAGAAGCCTAGAAAAGCTCATAGAAAAGGTCACAACAACAACACCAACACCACCTCCACCACCACTACCAACAACAACAACAACAACAACAACAAATCCAACGTTTATGGGTGCTCTATTTGTGGTTCTAAATTCACATCTGGCCAGGCACTTGGTGGCCATATGAACTTCCACCCTGCACCGGTGGAGGCGACCTCATTAACACCAATGGCTTTGGAACCAGACAAAGAAGATGAAGAACCACCTGCAGAAAAAACGAATGTCTCTTTGGATTTGGATCTCAACCTTCCTCCAGCTTAA
Protein sequence

>MS.gene07493.t1

MEASHEQQLSLNSTEHTINVTKVNITQKVINPPQSPIPFSIIAYSSTREGGTRTRESARYNVYTCKTCNKTFTSFQALGGHRKVHKKPRKAHRKGHNNNTNTTSTTTTNNNNNNNNKSNVYGCSICGSKFTSGQALGGHMNFHPAPVEATSLTPMALEPDKEDEEPPAEKTNVSLDLDLNLPPA