AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa ssp. caerulea / MsaG016053

Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsaG016053 MtrunA17_Chr3g0124291 91.803 122 9 1 123 244 308 428 4.22e-78 241
MsaG016053 MtrunA17_Chr3g0124291 92.035 113 9 0 1 113 1 113 1.39e-54 181
MsaG016053 MtrunA17_Chr8g0382561 65.657 99 34 0 15 113 5 103 6.11e-32 121
MsaG016053 MtrunA17_Chr2g0329151 45.806 155 67 5 4 152 11 154 9.00e-27 108
MsaG016053 MtrunA17_Chr3g0118361 47.154 123 49 3 2 108 9 131 2.31e-26 107
MsaG016053 MtrunA17_Chr5g0440591 55.556 90 37 1 22 108 39 128 2.75e-25 103
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsaG016053 AT2G27050.1 58.947 95 34 2 18 108 36 129 2.69e-27 110
MsaG016053 AT5G10120.1 48.120 133 55 3 13 140 2 125 5.26e-27 108
MsaG016053 AT5G65100.1 49.524 105 35 1 27 113 33 137 3.24e-25 103
MsaG016053 AT3G20770.1 53.535 99 42 2 13 108 31 128 4.21e-25 103
MsaG016053 AT1G73730.2 42.754 138 62 4 9 140 4 130 5.71e-25 103
MsaG016053 AT1G73730.1 42.754 138 62 4 9 140 16 142 5.94e-25 103
MsaG016053 AT5G21120.2 38.938 113 50 3 36 140 59 160 7.78e-12 65.1
MsaG016053 AT5G21120.3 38.938 113 50 3 36 140 52 153 8.73e-12 64.7
MsaG016053 AT5G21120.1 38.938 113 50 3 36 140 52 153 8.73e-12 64.7

Find 46 sgRNAs with CRISPR-Local

Find sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
GAGATTGAAGGTGGGAAATT+TGG 0.186624 3:+93652567 MsaT016053.1:CDS
TGTTGATGATTGGTTGAAAA+TGG 0.189311 3:+93652542 MsaT016053.1:CDS
GCATCACAATCAAGCAAATT+AGG 0.277177 3:-93652507 None:intergenic
ATCTACCTCTTCAGTTCCTT+CGG 0.367358 3:-93651521 None:intergenic
GCGGCAATCGAAATGGTAAA+AGG 0.387494 3:+93652639 MsaT016053.1:CDS
GAAAAGGGTAAACCAGTATC+AGG 0.402465 3:+93651781 MsaT016053.1:CDS
GATTCCATAAACAAAACCTT+TGG 0.403082 3:-93651752 None:intergenic
TTATGGAATCATCCCTGAAA+AGG 0.418370 3:+93651765 MsaT016053.1:CDS
AGTGACGATATTGATCCTTA+TGG 0.425477 3:+93651490 MsaT016053.1:CDS
CCTTCGGCTTCCACGCCATA+AGG 0.429765 3:-93651505 None:intergenic
GAATTGAAAATGTTGATGAT+TGG 0.439281 3:+93652532 MsaT016053.1:CDS
GTTGATGATTGGTTGAAAAT+GGG 0.440872 3:+93652543 MsaT016053.1:CDS
CTATCAGAAGAACCTGATAC+TGG 0.447835 3:-93651793 None:intergenic
CAAATACATGGCAAAGATCA+TGG 0.447987 3:+93651717 MsaT016053.1:CDS
GTAATAACAGAAGTGAGAAA+AGG 0.454452 3:+93652397 MsaT016053.1:CDS
ATTCGAAGCGGCAATCGAAA+TGG 0.459117 3:+93652632 MsaT016053.1:CDS
CATTCTATTTAGTCTTGCGC+TGG 0.480486 3:-93652753 None:intergenic
TTGAAGGTGGGAAATTTGGA+TGG 0.490896 3:+93652571 MsaT016053.1:CDS
TATGGAATCATCCCTGAAAA+GGG 0.513987 3:+93651766 MsaT016053.1:CDS
TTGAAAATGGGAGAGATTGA+AGG 0.525609 3:+93652555 MsaT016053.1:CDS
TCCGCAGAGTAAGTTACCTA+TGG 0.540781 3:+93652458 MsaT016053.1:CDS
GTAGAGGAAGGTGAAAGCTC+TGG 0.542132 3:+93652354 MsaT016053.1:intron
AACAGAAAGTGTGGACTATG+AGG 0.556253 3:+93651552 MsaT016053.1:CDS
TGAAGGTGGGAAATTTGGAT+GGG 0.560628 3:+93652572 MsaT016053.1:CDS
CAAAACAAGAAGCATCGAGA+AGG 0.577217 3:+93651662 MsaT016053.1:CDS
AAAATGGGAGAGATTGAAGG+TGG 0.578746 3:+93652558 MsaT016053.1:CDS
AGGAGCTGAAGAAACGTATG+TGG 0.578948 3:+93651572 MsaT016053.1:CDS
AAATGGGAGAGATTGAAGGT+GGG 0.590105 3:+93652559 MsaT016053.1:CDS
GTTGTTAAACTCATAGCCAT+AGG 0.592800 3:-93652474 None:intergenic
TGAAACTGAAACAGAAAGTG+TGG 0.596612 3:+93651543 MsaT016053.1:CDS
TTGGATGGGATGTTGAACAT+TGG 0.603559 3:+93652586 MsaT016053.1:CDS
GCATAATCTACATGATCAAG+AGG 0.603727 3:+93652695 MsaT016053.1:CDS
CCTTATGGCGTGGAAGCCGA+AGG 0.608551 3:+93651505 MsaT016053.1:CDS
GCTGAAGAAACGTATGTGGA+AGG 0.612562 3:+93651576 MsaT016053.1:CDS
CGATATTGATCCTTATGGCG+TGG 0.616407 3:+93651495 MsaT016053.1:CDS
AAGCAAATTAGGAACACGAT+GGG 0.617311 3:-93652496 None:intergenic
AGATTCAGTACTCAAATACA+TGG 0.630198 3:+93651705 MsaT016053.1:CDS
TGAACATTGGCTGAATGATG+TGG 0.642242 3:+93652599 MsaT016053.1:CDS
ATGGATGTATGCAAAGCCAA+AGG 0.644473 3:+93651736 MsaT016053.1:CDS
GGTAAAAGGTAATCATAACA+TGG 0.646961 3:+93652653 MsaT016053.1:CDS
GGAAGCCGAAGGAACTGAAG+AGG 0.651144 3:+93651516 MsaT016053.1:CDS
CAAGCAAATTAGGAACACGA+TGG 0.654501 3:-93652497 None:intergenic
GAGGAAGGTGAAAGCTCTGG+CGG 0.666246 3:+93652357 MsaT016053.1:intron
GCCATAGGTAACTTACTCTG+CGG 0.696224 3:-93652459 None:intergenic
GGATGATCATGAATTCGAAG+CGG 0.715431 3:+93652620 MsaT016053.1:CDS
ATCGTCACTGATCACCACCA+TGG 0.725060 3:-93651476 None:intergenic

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
Chromosome Type Strat End Strand Name
Chr3 gene 93651478 93652767 93651478 ID=MsaG016053
Chr3 mRNA 93651478 93652767 93651478 ID=MsaT016053.1;Parent=MsaG016053
Chr3 exon 93651478 93651802 93651478 ID=MsaT016053.1.exon1;Parent=MsaT016053.1
Chr3 CDS 93651478 93651802 93651478 ID=cds.MsaT016053.1;Parent=MsaT016053.1
Chr3 exon 93652358 93652767 93652358 ID=MsaT016053.1.exon2;Parent=MsaT016053.1
Chr3 CDS 93652358 93652767 93652358 ID=cds.MsaT016053.1;Parent=MsaT016053.1
Gene Sequence

>MsaT016053.1

ATGGTGGTGATCAGTGACGATATTGATCCTTATGGCGTGGAAGCCGAAGGAACTGAAGAGGTAGATGAAACTGAAACAGAAAGTGTGGACTATGAGGAGCTGAAGAAACGTATGTGGAAGGATAAGATCCTTTTACAAAAGTTCAAAGAAAAACAAGAGAACAACACTGAACCTGAGCAACAAGCAAAACAAGAAGCATCGAGAAGGAAAAAGATGTCAAGAGCACAAGATTCAGTACTCAAATACATGGCAAAGATCATGGATGTATGCAAAGCCAAAGGTTTTGTTTATGGAATCATCCCTGAAAAGGGTAAACCAGTATCAGAGGAAGGTGAAAGCTCTGGCGGTAGTAGCAGCAGTAGTAGTAATAACAGAAGTGAGAAAAGGAAGTTTGTTTTTGATGTTGGTGGTGATGATGCAGATTGTCCGCAGAGTAAGTTACCTATGGCTATGAGTTTAACAACCCATCGTGTTCCTAATTTGCTTGATTGTGATGCAAGAATTGAAAATGTTGATGATTGGTTGAAAATGGGAGAGATTGAAGGTGGGAAATTTGGATGGGATGTTGAACATTGGCTGAATGATGTGGATGATCATGAATTCGAAGCGGCAATCGAAATGGTAAAAGGTAATCATAACATGGATTTTACTCAAAATCAAGGGCATAATCTACATGATCAAGAGGAAGAAAAATCTATTTGGGACTTTAGATATCAATATCCAGCGCAAGACTAA
Protein sequence

>MsaT016053.1

MVVISDDIDPYGVEAEGTEEVDETETESVDYEELKKRMWKDKILLQKFKEKQENNTEPEQQAKQEASRRKKMSRAQDSVLKYMAKIMDVCKAKGFVYGIIPEKGKPVSEEGESSGGSSSSSSNNRSEKRKFVFDVGGDDADCPQSKLPMAMSLTTHRVPNLLDCDARIENVDDWLKMGEIEGGKFGWDVEHWLNDVDDHEFEAAIEMVKGNHNMDFTQNQGHNLHDQEEEKSIWDFRYQYPAQD*