AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa ssp. caerulea / MsaG020931

Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsaG020931 MtrunA17_Chr4g0025531 56.250 224 80 3 1 224 1 206 4.68e-78 234
MsaG020931 MtrunA17_Chr3g0135891 61.947 113 39 2 106 218 16 124 2.17e-40 135
MsaG020931 MtrunA17_Chr1g0149391 35.354 198 102 8 1 187 1 183 8.24e-23 92.8
MsaG020931 MtrunA17_Chr3g0099421 37.126 167 88 5 1 150 26 192 1.26e-22 92.8
MsaG020931 MtrunA17_Chr2g0292791 38.323 167 86 5 1 150 1 167 1.28e-22 92.4
MsaG020931 MtrunA17_Chr1g0206701 37.267 161 84 4 1 144 1 161 1.76e-22 92.0
MsaG020931 MtrunA17_Chr8g0355091 32.487 197 109 5 1 187 1 183 4.19e-22 90.9
MsaG020931 MtrunA17_Chr1g0208561 33.133 166 98 3 1 156 1 163 9.75e-22 89.7
MsaG020931 MtrunA17_Chr1g0206991 37.267 161 84 5 1 144 1 161 1.17e-21 88.6
MsaG020931 MtrunA17_Chr3g0089141 33.133 166 98 3 1 156 1 163 1.88e-21 89.0
MsaG020931 MtrunA17_Chr1g0188671 33.333 165 97 3 1 155 39 200 2.87e-21 89.4
MsaG020931 MtrunA17_Chr5g0422421 30.698 215 115 8 1 201 1 195 7.69e-21 87.4
MsaG020931 MtrunA17_Chr2g0317481 31.250 160 99 3 1 151 1 158 1.46e-20 86.7
MsaG020931 MtrunA17_Chr2g0317451 31.250 160 99 3 1 151 1 158 1.54e-20 86.7
MsaG020931 MtrunA17_Chr3g0085241 30.000 220 125 6 4 202 36 247 1.63e-20 87.0
MsaG020931 MtrunA17_Chr3g0119901 32.727 165 98 3 1 155 1 162 1.89e-20 85.9
MsaG020931 MtrunA17_Chr1g0206721 37.086 151 80 4 1 136 1 151 4.11e-20 85.5
MsaG020931 MtrunA17_Chr1g0187361 29.545 176 108 4 1 163 1 173 8.48e-20 84.7
MsaG020931 MtrunA17_Chr3g0099411 52.778 72 34 0 1 72 1 72 2.85e-19 82.8
MsaG020931 MtrunA17_Chr1g0208581 32.919 161 91 5 1 144 1 161 3.03e-19 83.2
MsaG020931 MtrunA17_Chr5g0419601 34.307 137 80 3 1 127 1 137 3.08e-19 83.2
MsaG020931 MtrunA17_Chr8g0379021 30.247 162 98 4 4 156 7 162 3.71e-19 81.6
MsaG020931 MtrunA17_Chr2g0325971 28.502 207 124 6 1 188 1 202 1.73e-18 80.9
MsaG020931 MtrunA17_Chr2g0333981 30.247 162 98 4 4 156 7 162 3.02e-18 79.3
MsaG020931 MtrunA17_Chr5g0422941 40.217 92 55 0 1 92 1 92 7.52e-18 79.3
MsaG020931 MtrunA17_Chr3g0111841 53.448 58 27 0 15 72 2 59 2.27e-16 71.2
MsaG020931 MtrunA17_Chr2g0300421 45.833 72 39 0 1 72 1 72 3.03e-16 73.9
MsaG020931 MtrunA17_Chr4g0052081 50.725 69 34 0 9 77 2 70 3.23e-16 73.9
MsaG020931 MtrunA17_Chr1g0206691 28.571 196 114 5 18 203 1 180 3.60e-16 74.7
MsaG020931 MtrunA17_Chr3g0089151 45.833 72 39 0 1 72 1 72 5.01e-16 72.0
MsaG020931 MtrunA17_Chr8g0345001 31.707 164 94 4 8 159 17 174 6.60e-15 70.5
MsaG020931 MtrunA17_Chr4g0052061 33.333 144 84 4 9 151 2 134 7.05e-15 69.7
MsaG020931 MtrunA17_Chr8g0356071 34.513 113 61 2 9 115 2 107 8.24e-15 69.7
MsaG020931 MtrunA17_Chr2g0300441 30.120 166 99 4 1 149 1 166 2.57e-14 69.7
MsaG020931 MtrunA17_Chr8g0376821 41.250 80 46 1 9 87 2 81 3.95e-14 68.2
MsaG020931 MtrunA17_Chr1g0169761 35.345 116 63 2 9 116 2 113 7.02e-14 67.4
MsaG020931 MtrunA17_Chr8g0357771 32.143 140 71 4 9 126 2 139 1.30e-13 67.0
MsaG020931 MtrunA17_Chr4g0074101 34.314 102 58 2 9 101 2 103 1.26e-12 64.3
MsaG020931 MtrunA17_Chr1g0175611 40.000 70 42 0 9 78 2 71 1.34e-12 63.9
MsaG020931 MtrunA17_Chr1g0159661 50.000 64 32 0 9 72 2 65 5.18e-12 62.4
MsaG020931 MtrunA17_Chr1g0180591 37.500 72 45 0 9 80 2 73 8.61e-12 62.0
MsaG020931 MtrunA17_Chr1g0187351 38.462 65 40 0 18 82 1 65 2.07e-11 58.2
MsaG020931 MtrunA17_Chr4g0018951 29.921 127 83 4 26 148 29 153 2.07e-11 60.5
MsaG020931 MtrunA17_Chr4g0057151 49.254 67 31 1 10 76 3 66 2.14e-11 61.2
MsaG020931 MtrunA17_Chr1g0175601 40.000 65 39 0 9 73 2 66 2.78e-11 60.5
MsaG020931 MtrunA17_Chr4g0071601 27.219 169 104 4 4 156 7 172 6.05e-11 59.7
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsaG020931 AT4G36590.1 35.329 167 91 3 5 156 3 167 4.97e-23 94.0
MsaG020931 AT1G29962.1 34.659 176 97 4 1 161 1 173 1.21e-21 89.0
MsaG020931 AT2G24840.1 34.555 191 109 5 7 187 61 245 8.18e-21 88.6
MsaG020931 AT1G28460.1 34.682 173 98 4 1 161 1 170 8.36e-20 84.0
MsaG020931 AT1G01530.1 38.983 118 66 2 5 117 3 119 2.92e-19 84.0
MsaG020931 AT2G34440.1 32.184 174 101 7 9 174 2 166 6.07e-19 81.3
MsaG020931 AT5G60440.1 30.189 212 120 6 5 205 3 197 3.11e-18 82.0
MsaG020931 AT1G28450.1 32.184 174 100 4 1 159 1 171 1.13e-16 75.5
MsaG020931 AT1G65360.1 32.759 116 74 1 5 116 3 118 3.47e-16 75.1
MsaG020931 AT3G04100.1 41.573 89 49 1 2 90 7 92 6.91e-16 73.9
MsaG020931 AT3G66656.1 47.692 65 34 0 9 73 2 66 4.15e-14 68.6
MsaG020931 AT1G47760.1 39.759 83 47 1 9 91 2 81 6.42e-13 65.5
MsaG020931 AT4G11880.2 49.254 67 32 1 10 76 3 67 4.10e-11 60.5
MsaG020931 AT4G11880.3 49.254 67 32 1 10 76 3 67 4.10e-11 60.5
MsaG020931 AT4G11880.4 49.254 67 32 1 10 76 3 67 6.59e-11 60.5
MsaG020931 AT4G11880.1 49.254 67 32 1 10 76 3 67 6.59e-11 60.5
MsaG020931 AT5G10140.2 48.214 56 29 0 9 64 2 57 6.83e-11 59.7
MsaG020931 AT5G10140.4 48.214 56 29 0 9 64 2 57 8.41e-11 59.7
MsaG020931 AT5G10140.1 48.214 56 29 0 9 64 2 57 8.43e-11 59.7
MsaG020931 AT5G10140.3 47.368 57 30 0 9 65 2 58 1.00e-10 59.3

Find 43 sgRNAs with CRISPR-Local

Find sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
ATCAATCCTCCTTATGTCTT+TGG 0.213662 4:-60595063 MsaT020931.1:CDS
TCAATCCTCCTTATGTCTTT+GGG 0.241289 4:-60595062 MsaT020931.1:CDS
AACAACAACGGTTATGAAAT+TGG 0.254239 4:-60595036 MsaT020931.1:CDS
ACGGGAAAGTTTGAAGGCTT+TGG 0.328236 4:-60595390 MsaT020931.1:CDS
ATAAGCGGACATCACATTTC+AGG 0.330823 4:-60594575 MsaT020931.1:CDS
GAAGGTTCTCCATAACAATA+TGG 0.353627 4:+60595548 None:intergenic
CTTTGGAAAGTTATGGCTAT+TGG 0.358280 4:-60595373 MsaT020931.1:CDS
AAAATTGGACACATCTTTAG+TGG 0.370003 4:-60595303 MsaT020931.1:CDS
GATGTTATTGCTTCTCTTGA+AGG 0.392101 4:-60594741 MsaT020931.1:intron
TCTGAATTATCAACACTTTG+TGG 0.392582 4:-60595611 MsaT020931.1:CDS
TTGAAGGCTTTGGAAAGTTA+TGG 0.393387 4:-60595380 MsaT020931.1:CDS
CTTGCTATGGATTGAGAAGA+AGG 0.408194 4:+60595530 None:intergenic
GCATGTTGCGGAAGCACAAC+GGG 0.408411 4:-60595408 MsaT020931.1:CDS
GCAGGAAAACCATATTGTTA+TGG 0.420932 4:-60595557 MsaT020931.1:CDS
CTGAATTATCAACACTTTGT+GGG 0.424852 4:-60595610 MsaT020931.1:CDS
TTTAATTCTTCTTCTACTGA+AGG 0.426435 4:+60595485 None:intergenic
CTACCTCTTGATGTCCTCTT+CGG 0.429458 4:+60595722 None:intergenic
CTTCAAAATTGTTCTTGCTA+TGG 0.431100 4:+60595517 None:intergenic
ATTCTTATTATTTCTCCAGC+AGG 0.453510 4:-60595575 MsaT020931.1:CDS
AATTTCATAACCGTTGTTGT+TGG 0.462889 4:+60595038 None:intergenic
TTGTTGGCCCCAAAGACATA+AGG 0.478695 4:+60595054 None:intergenic
TTAATTCTTCTTCTACTGAA+GGG 0.481788 4:+60595486 None:intergenic
AGACATAAGGAGGATTGATC+TGG 0.482662 4:+60595067 None:intergenic
AGCACAACGGGAAAGTTTGA+AGG 0.506480 4:-60595396 MsaT020931.1:CDS
ATTTATGATCCAAAAGGAAA+AGG 0.506756 4:-60594768 MsaT020931.1:CDS
TCCCAGATTTATGATCCAAA+AGG 0.515467 4:-60594774 MsaT020931.1:CDS
TAAGCGGACATCACATTTCA+GGG 0.527919 4:-60594574 MsaT020931.1:CDS
TCTTGCATAGACGAACTGAA+TGG 0.536180 4:-60595093 MsaT020931.1:CDS
ATAAGTAGTGTCTTAAGCAA+TGG 0.548667 4:-60595263 MsaT020931.1:CDS
TGAATTATCAACACTTTGTG+GGG 0.569118 4:-60595609 MsaT020931.1:CDS
GTCTTTGGGGCCAACAACAA+CGG 0.574083 4:-60595048 MsaT020931.1:CDS
CAATCCTCCTTATGTCTTTG+GGG 0.592798 4:-60595061 MsaT020931.1:CDS
GGAGGAGAGATTAATCATCA+TGG 0.601327 4:-60595242 MsaT020931.1:intron
AGTAGTGTCTTAAGCAATGG+AGG 0.611596 4:-60595260 MsaT020931.1:CDS
TTGGCCCCAAAGACATAAGG+AGG 0.611952 4:+60595057 None:intergenic
ACAAAGTGTTGATAATTCAG+AGG 0.616841 4:+60595613 None:intergenic
TGATCCAAAAGGAAAAGGCA+AGG 0.624272 4:-60594763 MsaT020931.1:CDS
AGCATGTTGCGGAAGCACAA+CGG 0.628936 4:-60595409 MsaT020931.1:CDS
TTTGGATGAAAAGCATGTTG+CGG 0.629913 4:-60595420 MsaT020931.1:CDS
TGGTTAAGATGGCTCCGAAG+AGG 0.660173 4:-60595736 None:intergenic
TTGGAATAAGGTGATATAAG+CGG 0.660825 4:-60594590 MsaT020931.1:intron
GCTCCGAAGAGGACATCAAG+AGG 0.673948 4:-60595725 MsaT020931.1:CDS
GCGGACATCACATTTCAGGG+TGG 0.773228 4:-60594571 MsaT020931.1:CDS

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
Chromosome Type Strat End Strand Name
Chr4 gene 60594565 60595750 60594565 ID=MsaG020931
Chr4 mRNA 60594565 60595750 60594565 ID=MsaT020931.1;Parent=MsaG020931
Chr4 exon 60594565 60594602 60594565 ID=MsaT020931.1.exon4;Parent=MsaT020931.1
Chr4 CDS 60594565 60594602 60594565 ID=cds.MsaT020931.1;Parent=MsaT020931.1
Chr4 exon 60594742 60594804 60594742 ID=MsaT020931.1.exon3;Parent=MsaT020931.1
Chr4 CDS 60594742 60594804 60594742 ID=cds.MsaT020931.1;Parent=MsaT020931.1
Chr4 exon 60595031 60595120 60595031 ID=MsaT020931.1.exon2;Parent=MsaT020931.1
Chr4 CDS 60595031 60595120 60595031 ID=cds.MsaT020931.1;Parent=MsaT020931.1
Chr4 exon 60595243 60595750 60595243 ID=MsaT020931.1.exon1;Parent=MsaT020931.1
Chr4 CDS 60595243 60595750 60595243 ID=cds.MsaT020931.1;Parent=MsaT020931.1
Gene Sequence

>MsaT020931.1

ATGGCTCCGAAGAGGACATCAAGAGGTAGACAAAAAAGAGAAATGAAGAAGATTGAGAGAGAAAGCGATCTTTTAGTAGCATTTTCAAAGAGAAAGTCTGGCATTTACAACAAAGCCTCTGAATTATCAACACTTTGTGGGGCTTTAGTTGATATTCTTATTATTTCTCCAGCAGGAAAACCATATTGTTATGGAGAACCTTCTTCTCAATCCATAGCAAGAACAATTTTGAAGAATGAAAACCCTTCAGTAGAAGAAGAATTAAAGAAACTAAAGATTAACCAAGTTAACACAAAAAATGATGAGCTTTTGGATGAAAAGCATGTTGCGGAAGCACAACGGGAAAGTTTGAAGGCTTTGGAAAGTTATGGCTATTGGTCGATCAATGAGAAAGATGTTGAAAGCTTTGATTATGACCAGTTAAAAAAATTGGACACATCTTTAGTGGACATTGCAAATAAATTGATAAGTAGTGTCTTAAGCAATGGAGGAGAGATTAATCATCATGCAATTTCTTGCATAGACGAACTGAATGGAGTCCAGATCAATCCTCCTTATGTCTTTGGGGCCAACAACAACGGTTATGAAATTGGTGCAACTCATGGATCCCAGATTTATGATCCAAAAGGAAAAGGCAAGGATGTTATTGCTTCTCTTGAAGGTGATATAAGCGGACATCACATTTCAGGGTGGCCATGA
Protein sequence

>MsaT020931.1

MAPKRTSRGRQKREMKKIERESDLLVAFSKRKSGIYNKASELSTLCGALVDILIISPAGKPYCYGEPSSQSIARTILKNENPSVEEELKKLKINQVNTKNDELLDEKHVAEAQRESLKALESYGYWSINEKDVESFDYDQLKKLDTSLVDIANKLISSVLSNGGEINHHAISCIDELNGVQINPPYVFGANNNGYEIGATHGSQIYDPKGKGKDVIASLEGDISGHHISGWP*