AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa ssp. caerulea / MsaG020394

Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsaG020394 MtrunA17_Chr4g0025531 77.083 240 45 4 1 236 1 234 1.41e-120 342
MsaG020394 MtrunA17_Chr3g0135891 50.376 133 44 4 106 222 16 142 2.23e-31 112
MsaG020394 MtrunA17_Chr5g0422941 24.696 247 150 6 1 226 1 232 3.67e-17 77.8
MsaG020394 MtrunA17_Chr3g0099421 28.736 174 114 2 1 164 26 199 5.36e-16 75.1
MsaG020394 MtrunA17_Chr8g0355091 27.426 237 156 6 1 226 1 232 1.24e-15 73.6
MsaG020394 MtrunA17_Chr1g0206701 32.847 137 82 2 1 127 1 137 1.65e-15 73.2
MsaG020394 MtrunA17_Chr1g0149391 43.056 72 41 0 1 72 1 72 2.17e-15 72.8
MsaG020394 MtrunA17_Chr8g0379021 29.114 158 105 2 4 156 7 162 2.18e-15 71.6
MsaG020394 MtrunA17_Chr3g0119901 40.659 91 52 1 1 89 1 91 2.35e-15 72.4
MsaG020394 MtrunA17_Chr1g0208561 27.976 168 108 2 1 158 1 165 2.37e-15 72.8
MsaG020394 MtrunA17_Chr2g0292791 32.624 141 77 4 1 127 1 137 2.57e-15 72.8
MsaG020394 MtrunA17_Chr3g0099411 38.043 92 57 0 1 92 1 92 3.23e-15 72.0
MsaG020394 MtrunA17_Chr1g0206991 43.056 72 41 0 1 72 1 72 3.34e-15 71.2
MsaG020394 MtrunA17_Chr1g0206721 38.043 92 57 0 1 92 1 92 4.31e-15 72.0
MsaG020394 MtrunA17_Chr1g0208581 41.667 72 42 0 1 72 1 72 4.62e-15 72.0
MsaG020394 MtrunA17_Chr2g0317481 25.210 238 160 7 1 226 1 232 5.06e-15 72.0
MsaG020394 MtrunA17_Chr3g0089141 40.278 72 43 0 1 72 1 72 7.35e-15 71.2
MsaG020394 MtrunA17_Chr2g0317451 40.278 72 43 0 1 72 1 72 1.04e-14 70.9
MsaG020394 MtrunA17_Chr5g0422421 36.364 88 56 0 1 88 1 88 1.16e-14 70.9
MsaG020394 MtrunA17_Chr1g0188671 39.024 82 50 0 1 82 39 120 1.40e-14 71.2
MsaG020394 MtrunA17_Chr3g0085241 43.902 82 45 1 4 85 36 116 1.59e-14 70.9
MsaG020394 MtrunA17_Chr5g0419601 40.278 72 43 0 1 72 1 72 1.09e-13 68.2
MsaG020394 MtrunA17_Chr2g0333981 26.380 163 110 3 4 156 7 169 1.71e-13 66.6
MsaG020394 MtrunA17_Chr2g0325971 38.889 72 44 0 1 72 1 72 1.93e-13 67.4
MsaG020394 MtrunA17_Chr2g0300421 32.609 92 62 0 1 92 1 92 6.03e-13 65.1
MsaG020394 MtrunA17_Chr1g0187361 32.609 92 62 0 1 92 1 92 6.36e-13 66.2
MsaG020394 MtrunA17_Chr3g0089151 37.500 72 45 0 1 72 1 72 8.06e-13 63.5
MsaG020394 MtrunA17_Chr4g0052081 37.143 70 44 0 9 78 2 71 9.65e-13 64.7
MsaG020394 MtrunA17_Chr4g0052061 36.111 72 46 0 9 80 2 73 7.82e-12 61.6
MsaG020394 MtrunA17_Chr2g0300441 29.464 112 66 1 1 112 1 99 7.92e-12 63.2
MsaG020394 MtrunA17_Chr3g0111841 44.828 58 32 0 15 72 2 59 8.45e-12 59.3
MsaG020394 MtrunA17_Chr8g0376821 32.500 80 53 1 9 87 2 81 6.61e-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
MsaG020394 AT4G36590.1 29.341 167 101 5 5 156 3 167 8.19e-16 74.7
MsaG020394 AT1G29962.1 43.750 80 44 1 1 80 1 79 1.03e-15 73.2
MsaG020394 AT2G24840.1 44.000 75 40 1 7 79 61 135 6.56e-14 69.7
MsaG020394 AT2G34440.1 30.061 163 98 6 9 159 2 160 8.11e-14 67.8
MsaG020394 AT5G60440.1 36.957 92 57 1 7 97 5 96 1.18e-13 69.3
MsaG020394 AT1G28460.1 30.263 152 87 3 1 137 1 148 1.60e-13 67.0
MsaG020394 AT1G01530.1 32.710 107 68 1 5 107 3 109 6.63e-12 63.9
MsaG020394 AT3G04100.1 35.294 85 52 1 2 86 7 88 7.46e-12 63.2
MsaG020394 AT3G66656.1 40.625 64 38 0 9 72 2 65 2.01e-11 61.2
MsaG020394 AT1G65360.1 31.183 93 60 1 5 93 3 95 6.14e-11 60.8
MsaG020394 AT1G28450.1 38.750 80 48 1 1 80 1 79 8.11e-11 59.7

Find 45 sgRNAs with CRISPR-Local

Find sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
TCTGAGTTAACAACACTTTC+AGG 0.202264 4:-50994181 MsaT020394.1:CDS
TTGAAGATGTTGGAAAGTTC+TGG 0.270990 4:-50993950 MsaT020394.1:CDS
GGCTAATCCTTCTCATGATA+TGG 0.287816 4:-50993419 MsaT020394.1:CDS
GATGGTTCTCCATAACAAAA+TGG 0.328060 4:+50994118 None:intergenic
ACACAAGGAGTCAACCTTAT+TGG 0.335723 4:-50993394 MsaT020394.1:CDS
TTTCTTTCACTTGATCATAT+TGG 0.336690 4:+50993891 None:intergenic
ATCCTCCGCTTGCACCAATA+AGG 0.357163 4:+50993380 None:intergenic
AGAAGAGGAAATGATGAAAC+TGG 0.357197 4:-50994047 MsaT020394.1:CDS
ATTGGTGCAAGCGGAGGATA+TGG 0.361451 4:-50993376 MsaT020394.1:CDS
ATTCTCATGCTTTCTCCAAC+GGG 0.372760 4:-50994145 MsaT020394.1:CDS
TGTTGGAAAGTTCTGGATAT+TGG 0.391346 4:-50993943 MsaT020394.1:CDS
TTTCTTATAGATTCAGAAGA+TGG 0.420510 4:+50994100 None:intergenic
ATCATTTCCTCTTCTGTGGA+AGG 0.426438 4:+50994055 None:intergenic
TTTATTTGCGACAACAACTA+AGG 0.442735 4:+50993859 None:intergenic
GCATTTACAACGAGAAAGTC+TGG 0.455029 4:-50994220 MsaT020394.1:CDS
TTTCCTCTTGATGGCCTCTT+CGG 0.457920 4:+50994292 None:intergenic
TTGATGTCCTCAATGACATA+AGG 0.468063 4:+50993626 None:intergenic
TTTCATCATTTCCTCTTCTG+TGG 0.479202 4:+50994051 None:intergenic
CTGAGTTAACAACACTTTCA+GGG 0.482866 4:-50994180 MsaT020394.1:CDS
TATTCTCATGCTTTCTCCAA+CGG 0.513625 4:-50994146 MsaT020394.1:CDS
TAACAAAATGGTTTCCCCGT+TGG 0.519377 4:+50994130 None:intergenic
ATCAACAAAGATCATGAAGT+TGG 0.522438 4:-50993608 MsaT020394.1:CDS
TTATCCAAAAGGTAAAGGTA+TGG 0.531949 4:-50993443 MsaT020394.1:intron
GACTCCATTCAGTTCCTCGA+TGG 0.554069 4:+50993661 None:intergenic
TGTGTTTCCATATCATGAGA+AGG 0.558388 4:+50993412 None:intergenic
TGAAAATCCTTCCACAGAAG+AGG 0.560721 4:-50994062 MsaT020394.1:CDS
AAATCCTCCTTATGTCATTG+AGG 0.570912 4:-50993633 MsaT020394.1:CDS
TCTACCATCGAGGAACTGAA+TGG 0.572587 4:-50993665 MsaT020394.1:CDS
GTCAACCTTATTGGTGCAAG+CGG 0.586884 4:-50993385 MsaT020394.1:CDS
AACCTTATTGGTGCAAGCGG+AGG 0.596051 4:-50993382 MsaT020394.1:CDS
TCCAAAAGGTAAAGGTATGG+TGG 0.601173 4:-50993440 MsaT020394.1:intron
GAGTAAGAATGGCGCCGAAG+AGG 0.604647 4:-50994306 None:intergenic
TGAGTTAACAACACTTTCAG+GGG 0.607847 4:-50994179 MsaT020394.1:CDS
ATGTCCTCAATGACATAAGG+AGG 0.622929 4:+50993629 None:intergenic
TGGATATTGGTCGATACAAG+AGG 0.628309 4:-50993930 MsaT020394.1:CDS
GCAAGCGGAGGATATGGAAG+TGG 0.633800 4:-50993370 MsaT020394.1:CDS
GCGCCGAAGAGGCCATCAAG+AGG 0.648337 4:-50994295 MsaT020394.1:CDS
TGTAGTAATTTCTACCATCG+AGG 0.654680 4:-50993675 MsaT020394.1:intron
TGAAAGTGTTGTTAACTCAG+AGG 0.669188 4:+50994183 None:intergenic
GGAGGAGAGCTTAACCCTCG+TGG 0.693010 4:-50993812 MsaT020394.1:intron
TCTCATGATATGGAAACACA+AGG 0.693604 4:-50993409 MsaT020394.1:CDS
TTCTCATGCTTTCTCCAACG+GGG 0.698001 4:-50994144 MsaT020394.1:CDS
AAGATGTACACTTACCACGA+GGG 0.717576 4:+50993798 None:intergenic
AAGCATGAGAATATCAACTG+AGG 0.718686 4:+50994156 None:intergenic
AAAGTCTGGAATTTACAACA+AGG 0.757794 4:-50994206 MsaT020394.1:CDS

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
Chromosome Type Strat End Strand Name
Chr4 gene 50993342 50994320 50993342 ID=MsaG020394
Chr4 mRNA 50993342 50994320 50993342 ID=MsaT020394.1;Parent=MsaG020394
Chr4 exon 50993342 50993454 50993342 ID=MsaT020394.1.exon3;Parent=MsaT020394.1
Chr4 CDS 50993342 50993454 50993342 ID=cds.MsaT020394.1;Parent=MsaT020394.1
Chr4 exon 50993603 50993692 50993603 ID=MsaT020394.1.exon2;Parent=MsaT020394.1
Chr4 CDS 50993603 50993692 50993603 ID=cds.MsaT020394.1;Parent=MsaT020394.1
Chr4 exon 50993813 50994320 50993813 ID=MsaT020394.1.exon1;Parent=MsaT020394.1
Chr4 CDS 50993813 50994320 50993813 ID=cds.MsaT020394.1;Parent=MsaT020394.1
Gene Sequence

>MsaT020394.1

ATGGCGCCGAAGAGGCCATCAAGAGGAAAACAAAAAGTAAAGTTGAAAAAAATTGAGAGTAAGAATGATCTCTTTGTTGCATTTACAACGAGAAAGTCTGGAATTTACAACAAGGCCTCTGAGTTAACAACACTTTCAGGGGCCTCAGTTGATATTCTCATGCTTTCTCCAACGGGGAAACCATTTTGTTATGGAGAACCATCTTCTGAATCTATAAGAAAAACTAGTTTGAATGATGAAAATCCTTCCACAGAAGAGGAAATGATGAAACTGGAGATTATACAACAAAATGAAAAAAATGATGATTTTTTGGATAAAAAACATGCTGCGGAAGCACAATGTAAAAATTTGAAGATGTTGGAAAGTTCTGGATATTGGTCGATACAAGAGGAAGATGTTAAAAGCTACCAATATGATCAAGTGAAAGAAATTGACAAATCCTTAGTTGTTGTCGCAAATAAATTGATTAACAATCTCTTGAAAAATGGAGGAGAGCTTAACCCTCGTGTAATTTCTACCATCGAGGAACTGAATGGAGTCAAAACAAATCCTCCTTATGTCATTGAGGACATCAACAAAGATCATGAAGTTGGTGCAAGTAAAGGTATGGTGGCTAATCCTTCTCATGATATGGAAACACAAGGAGTCAACCTTATTGGTGCAAGCGGAGGATATGGAAGTGGTGTTGATCATGCTTCTTCAGATATATGA
Protein sequence

>MsaT020394.1

MAPKRPSRGKQKVKLKKIESKNDLFVAFTTRKSGIYNKASELTTLSGASVDILMLSPTGKPFCYGEPSSESIRKTSLNDENPSTEEEMMKLEIIQQNEKNDDFLDKKHAAEAQCKNLKMLESSGYWSIQEEDVKSYQYDQVKEIDKSLVVVANKLINNLLKNGGELNPRVISTIEELNGVKTNPPYVIEDINKDHEVGASKGMVANPSHDMETQGVNLIGASGGYGSGVDHASSDI*