AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa ssp. caerulea / MsaG004870


Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsaG004870 MtrunA17_Chr4g0036071 77.941 68 15 0 29 96 335 402 2.08e-25 99.0
MsaG004870 MtrunA17_Chr2g0306581 81.633 49 9 0 42 90 1 49 2.39e-20 79.7
MsaG004870 MtrunA17_Chr6g0463571 55.556 81 35 1 16 96 114 193 8.02e-20 82.0
MsaG004870 MtrunA17_Chr2g0329551 61.765 68 26 0 29 96 196 263 2.34e-19 81.6
MsaG004870 MtrunA17_Chr1g0156051 70.690 58 17 0 29 86 362 419 4.05e-18 78.6
MsaG004870 MtrunA17_Chr5g0432701 68.966 58 18 0 39 96 144 201 1.06e-16 73.9
MsaG004870 MtrunA17_Chr3g0107491 66.667 60 20 0 37 96 160 219 1.33e-16 73.9
MsaG004870 MtrunA17_Chr3g0128781 45.652 92 43 2 6 96 65 150 2.53e-16 72.8
MsaG004870 MtrunA17_Chr5g0407011 91.176 34 3 0 4 37 82 115 1.07e-14 65.5
MsaG004870 MtrunA17_Chr2g0306571 88.571 35 4 0 3 37 143 177 4.55e-14 65.1
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsaG004870 AT4G38900.2 73.846 65 17 0 32 96 372 436 4.53e-24 95.9
MsaG004870 AT4G38900.3 73.846 65 17 0 32 96 372 436 4.53e-24 95.9
MsaG004870 AT2G21230.2 64.557 79 26 1 20 96 334 412 9.55e-23 91.7
MsaG004870 AT2G21230.3 64.557 79 26 1 20 96 334 412 6.23e-22 89.7
MsaG004870 AT2G21230.4 64.557 79 26 1 20 96 334 412 6.88e-22 89.7
MsaG004870 AT2G21230.1 64.557 79 26 1 20 96 334 412 6.88e-22 89.7
MsaG004870 AT4G38900.1 67.606 71 17 1 32 96 372 442 8.53e-22 89.4
MsaG004870 AT2G31370.2 60.294 68 27 0 29 96 176 243 3.71e-18 78.6
MsaG004870 AT2G31370.4 60.294 68 27 0 29 96 176 243 3.71e-18 78.6
MsaG004870 AT2G31370.1 60.294 68 27 0 29 96 176 243 3.71e-18 78.6
MsaG004870 AT2G31370.7 60.294 68 27 0 29 96 176 243 3.71e-18 78.6
MsaG004870 AT2G31370.3 60.294 68 27 0 29 96 176 243 3.71e-18 78.6
MsaG004870 AT2G31370.6 60.294 68 27 0 29 96 176 243 3.71e-18 78.6
MsaG004870 AT2G31370.5 60.294 68 27 0 29 96 176 243 4.01e-18 78.6
MsaG004870 AT2G40620.1 70.000 60 18 0 37 96 131 190 7.68e-18 77.8
MsaG004870 AT1G06850.2 65.000 60 21 0 37 96 131 190 3.09e-17 74.3
MsaG004870 AT1G06850.1 65.000 60 21 0 37 96 131 190 7.42e-17 74.7
MsaG004870 AT1G43700.1 53.731 67 31 0 30 96 170 236 5.50e-16 72.4
MsaG004870 AT1G06070.1 65.517 58 20 0 39 96 195 252 6.23e-16 72.4

Find 23 sgRNAs with CRISPR-Local

Find sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
TTTGGGTTATTTCAGGATTT+TGG 0.136650 1:+74962433 MsaT004870.1:intron
GCTTAAGATGCGATATATTT+TGG 0.170519 1:+74962487 MsaT004870.1:CDS
GACAATGTGTGCTTACAATA+TGG 0.258517 1:+74962075 MsaT004870.1:CDS
TTCAGAGTTGAAGAAAATTA+TGG 0.315927 1:+74962286 MsaT004870.1:CDS
CTGATCCGAAGCGGGCTAAA+AGG 0.343423 1:+74962339 MsaT004870.1:CDS
GAGGTGTCATATTCTGAAAT+TGG 0.368658 1:-74962559 None:intergenic
CTCCCTTCATTGCTAAGGTT+GGG 0.434475 1:+74962029 MsaT004870.1:CDS
CTTCCCAACCTTAGCAATGA+AGG 0.444601 1:-74962032 None:intergenic
ACAATGTGTGCTTACAATAT+GGG 0.459061 1:+74962076 MsaT004870.1:CDS
ATATCGCATCTTAAGCTCAA+TGG 0.469206 1:-74962480 None:intergenic
GCTCCCTTCATTGCTAAGGT+TGG 0.477131 1:+74962028 MsaT004870.1:CDS
GAAAGTTGCTGAGATTGTTA+TGG 0.484882 1:+74962316 MsaT004870.1:CDS
TGCTAAGGTTGGGAAGTTGA+AGG 0.522413 1:+74962039 MsaT004870.1:CDS
GTTCAGACTCTGAATACTGA+AGG 0.545512 1:+74962524 MsaT004870.1:CDS
TAAGGCTCCCTTCATTGCTA+AGG 0.548247 1:+74962024 MsaT004870.1:CDS
ATTGCTGAAGCAAACTCAGC+AGG 0.554785 1:-74962583 None:intergenic
TGTTATGGCTGATCCGAAGC+GGG 0.561676 1:+74962331 MsaT004870.1:CDS
TAAGGTTGGGAAGTTGAAGG+AGG 0.573467 1:+74962042 MsaT004870.1:CDS
CGAAACATAACAGATGGGAC+AGG 0.602460 1:+74961485 None:intergenic
TTCCCAACCTTAGCAATGAA+GGG 0.606199 1:-74962031 None:intergenic
TGAAGCAAACTCAGCAGGAG+AGG 0.607777 1:-74962578 None:intergenic
TTCAGACTCTGAATACTGAA+GGG 0.624181 1:+74962525 MsaT004870.1:CDS
TTGTTATGGCTGATCCGAAG+CGG 0.656660 1:+74962330 MsaT004870.1:CDS

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
Chromosome Type Strat End Strand Name
Chr1 gene 74961498 74962619 74961498 ID=MsaG004870
Chr1 mRNA 74961498 74962619 74961498 ID=MsaT004870.1;Parent=MsaG004870
Chr1 exon 74961498 74961506 74961498 ID=MsaT004870.1.exon1;Parent=MsaT004870.1
Chr1 CDS 74961498 74961506 74961498 ID=cds.MsaT004870.1;Parent=MsaT004870.1
Chr1 exon 74962022 74962102 74962022 ID=MsaT004870.1.exon2;Parent=MsaT004870.1
Chr1 CDS 74962022 74962102 74962022 ID=cds.MsaT004870.1;Parent=MsaT004870.1
Chr1 exon 74962272 74962360 74962272 ID=MsaT004870.1.exon3;Parent=MsaT004870.1
Chr1 CDS 74962272 74962360 74962272 ID=cds.MsaT004870.1;Parent=MsaT004870.1
Chr1 exon 74962448 74962619 74962448 ID=MsaT004870.1.exon4;Parent=MsaT004870.1
Chr1 CDS 74962448 74962619 74962448 ID=cds.MsaT004870.1;Parent=MsaT004870.1
Gene Sequence

>MsaT004870.1

ATGGGACAGGATAAGGCTCCCTTCATTGCTAAGGTTGGGAAGTTGAAGGAGGAGTATGAGAAGACAATGTGTGCTTACAATATGGGAATTACTGAGAAGAATGCTTCAGAGTTGAAGAAAATTATGGCTAATGAGAAAGTTGCTGAGATTGTTATGGCTGATCCGAAGCGGGCTAAAAGGATTTTGGCTAACAGGCAATCGGCTGCGCGTTCCATTGAGCTTAAGATGCGATATATTTTGGAGCTAGAACACAAGGTTCAGACTCTGAATACTGAAGGGTTGTTTCTTCTCCAATTTCAGAATATGACACCTCTCCTGCTGAGTTTGCTTCAGCAATTCTTTGAGTTATGA

Protein sequence

>MsaT004870.1

MGQDKAPFIAKVGKLKEEYEKTMCAYNMGITEKNASELKKIMANEKVAEIVMADPKRAKRILANRQSAARSIELKMRYILELEHKVQTLNTEGLFLLQFQNMTPLLLSLLQQFFEL*