AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa ssp. caerulea / MsaG033975


Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsaG033975 MtrunA17_Chr4g0025531 77.500 240 42 5 1 234 1 234 2.44e-120 342
MsaG033975 MtrunA17_Chr3g0135891 59.036 83 33 1 106 188 16 97 3.51e-28 104
MsaG033975 MtrunA17_Chr3g0099421 28.324 173 108 3 5 164 30 199 2.54e-15 73.2
MsaG033975 MtrunA17_Chr3g0119901 42.683 82 47 0 1 82 1 82 3.14e-15 72.0
MsaG033975 MtrunA17_Chr1g0206991 33.088 136 81 3 1 126 1 136 4.70e-15 70.9
MsaG033975 MtrunA17_Chr3g0085241 33.582 134 77 4 4 126 36 168 5.92e-15 72.0
MsaG033975 MtrunA17_Chr1g0149391 44.118 68 38 0 5 72 5 72 9.87e-15 70.9
MsaG033975 MtrunA17_Chr8g0355091 40.244 82 49 0 1 82 1 82 1.12e-14 70.9
MsaG033975 MtrunA17_Chr1g0206701 41.026 78 46 0 5 82 5 82 1.84e-14 70.5
MsaG033975 MtrunA17_Chr5g0419601 29.282 181 112 4 1 168 1 178 1.90e-14 70.1
MsaG033975 MtrunA17_Chr3g0099411 41.026 78 46 0 5 82 5 82 2.05e-14 69.7
MsaG033975 MtrunA17_Chr1g0208581 41.667 72 42 0 1 72 1 72 2.33e-14 69.7
MsaG033975 MtrunA17_Chr1g0206721 41.026 78 46 0 5 82 5 82 2.54e-14 70.1
MsaG033975 MtrunA17_Chr2g0317481 38.961 77 47 0 1 77 1 77 3.30e-14 69.7
MsaG033975 MtrunA17_Chr1g0188671 39.024 82 50 0 1 82 39 120 3.68e-14 70.1
MsaG033975 MtrunA17_Chr2g0317451 38.961 77 47 0 1 77 1 77 3.68e-14 69.3
MsaG033975 MtrunA17_Chr2g0292791 41.026 78 46 0 5 82 5 82 3.72e-14 69.3
MsaG033975 MtrunA17_Chr3g0089141 40.278 72 43 0 1 72 1 72 4.05e-14 69.3
MsaG033975 MtrunA17_Chr1g0208561 41.176 68 40 0 5 72 5 72 4.48e-14 68.9
MsaG033975 MtrunA17_Chr5g0422421 36.905 84 53 0 5 88 5 88 8.89e-14 68.6
MsaG033975 MtrunA17_Chr8g0379021 27.329 161 110 2 4 159 7 165 3.72e-13 65.5
MsaG033975 MtrunA17_Chr5g0422941 27.206 136 88 3 1 126 1 135 5.25e-13 66.2
MsaG033975 MtrunA17_Chr1g0187361 30.357 112 65 1 5 116 5 103 7.89e-13 65.9
MsaG033975 MtrunA17_Chr2g0325971 38.889 72 44 0 1 72 1 72 1.18e-12 65.1
MsaG033975 MtrunA17_Chr4g0052061 34.940 83 54 0 9 91 2 84 1.59e-12 63.5
MsaG033975 MtrunA17_Chr4g0052081 37.143 70 44 0 9 78 2 71 1.86e-12 63.5
MsaG033975 MtrunA17_Chr2g0333981 24.848 165 114 3 4 158 7 171 2.51e-12 63.2
MsaG033975 MtrunA17_Chr2g0300421 34.146 82 54 0 1 82 1 82 2.51e-12 63.2
MsaG033975 MtrunA17_Chr3g0089151 37.500 72 45 0 1 72 1 72 5.10e-12 61.6
MsaG033975 MtrunA17_Chr2g0300441 28.205 117 71 1 5 121 5 108 6.75e-12 63.2
MsaG033975 MtrunA17_Chr3g0111841 44.828 58 32 0 15 72 2 59 7.50e-12 59.3
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsaG033975 AT1G29962.1 43.750 80 44 1 1 80 1 79 3.12e-16 74.3
MsaG033975 AT4G36590.1 31.737 167 97 5 5 156 3 167 6.24e-16 75.1
MsaG033975 AT2G34440.1 30.380 158 101 5 9 159 2 157 7.80e-15 70.5
MsaG033975 AT1G28460.1 31.544 149 83 3 1 134 1 145 4.68e-14 68.6
MsaG033975 AT2G24840.1 40.000 80 48 0 7 86 61 140 5.09e-14 69.7
MsaG033975 AT5G60440.1 41.026 78 45 1 5 82 3 79 2.56e-13 68.2
MsaG033975 AT1G28450.1 38.750 80 48 1 1 80 1 79 1.21e-11 62.0
MsaG033975 AT1G01530.1 24.706 170 111 4 5 157 3 172 2.21e-11 62.4
MsaG033975 AT3G04100.1 31.818 110 68 2 5 110 10 116 2.51e-11 61.6
MsaG033975 AT3G66656.1 40.000 65 39 0 9 73 2 66 4.06e-11 60.5

Find 34 sgRNAs with CRISPR-Local

Find sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
TCTGAGTTAACAACACTTTC+AGG 0.202264 6:+103806021 MsaT033975.1:CDS
ATAAATAAAGTATTGATAAA+TGG 0.287066 6:+103806369 MsaT033975.1:CDS
AACAGAAAAGATCATAAAAT+TGG 0.309876 6:+103806594 MsaT033975.1:CDS
ACACAAGGAGTCAACCTTAT+TGG 0.323352 6:+103809338 MsaT033975.1:CDS
ATCATTTCCTCTTCTATTGA+AGG 0.331143 6:-103806147 None:intergenic
ATCCTCCGCTTGCACCAATA+AGG 0.357163 6:-103809352 None:intergenic
TTGAAGATGTTGGAAAGATC+TGG 0.393301 6:+103806252 MsaT033975.1:CDS
TTTCTTTCACTTGATCATAC+TGG 0.398154 6:-103806311 None:intergenic
TTTATTTGTGACAGCAACTA+AGG 0.402905 6:-103806343 None:intergenic
ATTCTCATGCTTTCTCCAAC+GGG 0.403336 6:+103806057 MsaT033975.1:CDS
TTTGTTATAGATTCAGAAGA+TGG 0.410640 6:-103806102 None:intergenic
TTTCCTCTTGATGACCTCTT+CGG 0.445330 6:-103805910 None:intergenic
GCATTTACAACGAGAAAGTC+TGG 0.455029 6:+103805982 MsaT033975.1:CDS
TGTTGGAAAGATCTGGATAT+TGG 0.465576 6:+103806259 MsaT033975.1:CDS
CTGAGTTAACAACACTTTCA+GGG 0.482866 6:+103806022 MsaT033975.1:CDS
TATTCTCATGCTTTCTCCAA+CGG 0.502164 6:+103806056 MsaT033975.1:CDS
TGAAAATCCTTCAATAGAAG+AGG 0.547647 6:+103806140 MsaT033975.1:CDS
TGTAGTAATTTCTACTATCG+AGG 0.554561 6:+103806527 MsaT033975.1:intron
TCTACTATCGAGGAACTGAA+TGG 0.564056 6:+103806537 MsaT033975.1:CDS
AATAAAGTATTGATAAATGG+AGG 0.576347 6:+103806372 MsaT033975.1:CDS
GAGTAAGAATGCCGCCGAAG+AGG 0.583357 6:+103805896 None:intergenic
GTCAACCTTATTGGTGCAAG+CGG 0.586884 6:+103809347 MsaT033975.1:CDS
AACCTTATTGGTGCAAGCGG+AGG 0.596051 6:+103809350 MsaT033975.1:CDS
CCTCTTGATGACCTCTTCGG+CGG 0.600952 6:-103805907 None:intergenic
TGAGTTAACAACACTTTCAG+GGG 0.607847 6:+103806023 MsaT033975.1:CDS
TGGATATTGGTCAATTCAAG+AGG 0.615759 6:+103806272 MsaT033975.1:CDS
CCGCCGAAGAGGTCATCAAG+AGG 0.664394 6:+103805907 MsaT033975.1:CDS
TGAAAGTGTTGTTAACTCAG+AGG 0.669188 6:-103806019 None:intergenic
GGAGGAGATCTTAACCCTCG+TGG 0.672202 6:+103806390 MsaT033975.1:CDS
GCAAGCGGAGGATATGAAAG+TGG 0.676676 6:+103809362 MsaT033975.1:CDS
AAGCATGAGAATATCAACTG+AGG 0.718686 6:-103806046 None:intergenic
TCTCATGATATAGAAACACA+AGG 0.726046 6:+103809323 MsaT033975.1:CDS
AAGATGTACACATACCACGA+GGG 0.757349 6:-103806404 None:intergenic
AAAGTCTGGAATTTACAACA+AGG 0.757794 6:+103805996 MsaT033975.1:CDS

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
Chromosome Type Strat End Strand Name
Chr6 gene 103805904 103809412 103805904 ID=MsaG033975
Chr6 mRNA 103805904 103809412 103805904 ID=MsaT033975.1;Parent=MsaG033975
Chr6 exon 103805904 103806411 103805904 ID=MsaT033975.1.exon1;Parent=MsaT033975.1
Chr6 CDS 103805904 103806411 103805904 ID=cds.MsaT033975.1;Parent=MsaT033975.1
Chr6 exon 103806532 103806621 103806532 ID=MsaT033975.1.exon2;Parent=MsaT033975.1
Chr6 CDS 103806532 103806621 103806532 ID=cds.MsaT033975.1;Parent=MsaT033975.1
Chr6 exon 103809306 103809412 103809306 ID=MsaT033975.1.exon3;Parent=MsaT033975.1
Chr6 CDS 103809306 103809412 103809306 ID=cds.MsaT033975.1;Parent=MsaT033975.1
Gene Sequence

>MsaT033975.1

ATGCCGCCGAAGAGGTCATCAAGAGGAAAACAAAAAGTGGGGCTAAAAAAAATTGAGAGTAAGAATGATCTCTTTGTTGCATTTACAACGAGAAAGTCTGGAATTTACAACAAGGCCTCTGAGTTAACAACACTTTCAGGGGCCTCAGTTGATATTCTCATGCTTTCTCCAACGGGAAAACCATTTTGTTATGGAAAACCATCTTCTGAATCTATAACAAAAACTAGTTTGAATGATGAAAATCCTTCAATAGAAGAGGAAATGATGAAACCGAATATTATACAGCAAAATGAAAAAAAAGATCATTTTTTGGATAAAAAGCATGCTGCGGAAGCACAGCGTAAAAATTTGAAGATGTTGGAAAGATCTGGATATTGGTCAATTCAAGAGGAAGATGATAAAAGCTGCCAGTATGATCAAGTGAAAGAAATTGATAAATCCTTAGTTGCTGTCACAAATAAATTGATAAATAAAGTATTGATAAATGGAGGAGATCTTAACCCTCGTGTAATTTCTACTATCGAGGAACTGAATGGAGTCAAAACAAATCCTGCTTATGTTTTTGAGGACAACAGAAAAGATCATAAAATTGGTGCAAGTATGGTTGCTAATGCTTCTCATGATATAGAAACACAAGGAGTCAACCTTATTGGTGCAAGCGGAGGATATGAAAGTGGTGTTGATCATGCTTCTCGAGATATATGA

Protein sequence

>MsaT033975.1

MPPKRSSRGKQKVGLKKIESKNDLFVAFTTRKSGIYNKASELTTLSGASVDILMLSPTGKPFCYGKPSSESITKTSLNDENPSIEEEMMKPNIIQQNEKKDHFLDKKHAAEAQRKNLKMLERSGYWSIQEEDDKSCQYDQVKEIDKSLVAVTNKLINKVLINGGDLNPRVISTIEELNGVKTNPAYVFEDNRKDHKIGASMVANASHDIETQGVNLIGASGGYESGVDHASRDI*