AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar ZhongmuNo.1 / MsG0080048349.01


Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsG0080048349.01.T01 MTR_1g098140 100.000 66 0 0 1 66 324 389 1.53e-40 136
MsG0080048349.01.T01 MTR_5g007760 98.485 66 1 0 1 66 324 389 9.45e-40 134
MsG0080048349.01.T01 MTR_7g113405 95.455 66 3 0 1 66 238 303 3.16e-39 130
MsG0080048349.01.T01 MTR_1g097935 98.485 66 1 0 1 66 324 389 3.37e-39 132
MsG0080048349.01.T01 MTR_1g097910 96.970 66 2 0 1 66 324 389 5.25e-39 132
MsG0080048349.01.T01 MTR_7g016780 95.455 66 3 0 1 66 324 389 1.56e-38 130
MsG0080048349.01.T01 MTR_5g007713 95.455 66 3 0 1 66 324 389 1.64e-38 130
MsG0080048349.01.T01 MTR_7g016820 95.455 66 3 0 1 66 324 389 1.73e-38 130
MsG0080048349.01.T01 MTR_7g016700 95.455 66 3 0 1 66 324 389 1.85e-38 130
MsG0080048349.01.T01 MTR_5g007717 93.939 66 4 0 1 66 324 389 4.44e-38 129
MsG0080048349.01.T01 MTR_5g007730 93.939 66 4 0 1 66 324 389 6.29e-38 129
MsG0080048349.01.T01 MTR_7g016720 95.455 66 3 0 1 66 324 389 8.28e-38 129
MsG0080048349.01.T01 MTR_7g016800 93.939 66 4 0 1 66 324 389 8.73e-38 129
MsG0080048349.01.T01 MTR_5g007723 89.394 66 7 0 1 66 333 398 5.17e-36 124
MsG0080048349.01.T01 MTR_3g083910 87.692 65 8 0 1 65 324 388 3.65e-35 122
MsG0080048349.01.T01 MTR_2g058470 87.879 66 8 0 1 66 324 389 3.93e-35 122
MsG0080048349.01.T01 MTR_3g083920 89.231 65 7 0 1 65 324 388 4.41e-35 122
MsG0080048349.01.T01 MTR_7g084300 78.788 66 14 0 1 66 324 389 4.51e-32 114
MsG0080048349.01.T01 MTR_3g086260 80.000 65 13 0 1 65 324 388 2.28e-30 109
MsG0080048349.01.T01 MTR_5g007740 77.273 66 15 0 1 66 261 326 7.78e-30 107
MsG0080048349.01.T01 MTR_3g088675 71.212 66 19 0 1 66 324 389 4.60e-29 105
MsG0080048349.01.T01 MTR_3g088670 63.077 65 24 0 1 65 324 388 9.03e-23 89.0
MsG0080048349.01.T01 MTR_5g007770 84.615 39 6 0 8 46 229 267 1.93e-18 75.9
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsG0080048349.01.T01 AT5G13930 84.848 66 10 0 1 66 330 395 4.18e-35 122

Find 16 sgRNAs with CRISPR-Local

Find 20 sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
AGAGAAGTGCTCAGTGAATA+TGG 0.317887 contig27end:-43598 MsG0080048349.01.T01:CDS
ATATTCACTGAGCACTTCTC+TGG 0.410278 contig27end:+43600 None:intergenic
TTGCGCAGTGTCGCTATATG+AGG 0.502378 contig27end:-43430 None:intergenic
GCGCAAAACAACAGTTTCAA+TGG 0.506548 contig27end:+43447 None:intergenic
TTCACTGAGCACTTCTCTGG+TGG 0.523654 contig27end:+43603 None:intergenic
GGACTGAAGACCACGGGAGA+AGG 0.524843 contig27end:-43511 MsG0080048349.01.T01:CDS
CACGGGAGAAGGACTTGAGT+GGG 0.572386 contig27end:-43500 MsG0080048349.01.T01:CDS
AATGAGAAAGAAGTCCGCTC+AGG 0.596562 contig27end:-43536 MsG0080048349.01.T01:CDS
AGAAAGAAGTCCGCTCAGGA+TGG 0.597434 contig27end:-43532 MsG0080048349.01.T01:CDS
CAGGATGGACTGAAGACCAC+GGG 0.604373 contig27end:-43517 MsG0080048349.01.T01:CDS
CCACTCAAGTCCTTCTCCCG+TGG 0.610390 contig27end:+43501 None:intergenic
CCACGGGAGAAGGACTTGAG+TGG 0.645541 contig27end:-43501 MsG0080048349.01.T01:CDS
GGTCTTCAGTCCATCCTGAG+CGG 0.678236 contig27end:+43522 None:intergenic
ACAGTTTCAATGGTAAGACC+CGG 0.678772 contig27end:+43457 None:intergenic
TCAGGATGGACTGAAGACCA+CGG 0.679433 contig27end:-43518 MsG0080048349.01.T01:CDS
ACGGGAGAAGGACTTGAGTG+GGG 0.725736 contig27end:-43499 MsG0080048349.01.T01:CDS

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
!!! TGTTTTATTTGGGTTTGGAC+CGG - contig27end:43566-43585 MsG0080048349.01.T01:CDS 35.0%
!!! TTGAGTGGGGTGTTTTATTT+GGG - contig27end:43556-43575 MsG0080048349.01.T01:CDS 35.0%
ACAGTTTCAATGGTAAGACC+CGG + contig27end:43588-43607 None:intergenic 40.0%
ATATTCACTGAGCACTTCTC+TGG + contig27end:43445-43464 None:intergenic 40.0%
GCGCAAAACAACAGTTTCAA+TGG + contig27end:43598-43617 None:intergenic 40.0%
!! AGAGAAGTGCTCAGTGAATA+TGG - contig27end:43444-43463 MsG0080048349.01.T01:CDS 40.0%
!! CTTGAGTGGGGTGTTTTATT+TGG - contig27end:43555-43574 MsG0080048349.01.T01:CDS 40.0%
!!! GTTTTATTTGGGTTTGGACC+GGG - contig27end:43567-43586 MsG0080048349.01.T01:CDS 40.0%
!!! TGGGGTGTTTTATTTGGGTT+TGG - contig27end:43561-43580 MsG0080048349.01.T01:CDS 40.0%
AATGAGAAAGAAGTCCGCTC+AGG - contig27end:43506-43525 MsG0080048349.01.T01:CDS 45.0%
AGAAAGAAGTCCGCTCAGGA+TGG - contig27end:43510-43529 MsG0080048349.01.T01:CDS 50.0%
TTCACTGAGCACTTCTCTGG+TGG + contig27end:43442-43461 None:intergenic 50.0%
!! TCAGGATGGACTGAAGACCA+CGG - contig27end:43524-43543 MsG0080048349.01.T01:CDS 50.0%
ACGGGAGAAGGACTTGAGTG+GGG - contig27end:43543-43562 MsG0080048349.01.T01:CDS 55.0%
CACGGGAGAAGGACTTGAGT+GGG - contig27end:43542-43561 MsG0080048349.01.T01:CDS 55.0%
GGTCTTCAGTCCATCCTGAG+CGG + contig27end:43523-43542 None:intergenic 55.0%
!! CAGGATGGACTGAAGACCAC+GGG - contig27end:43525-43544 MsG0080048349.01.T01:CDS 55.0%
CCACGGGAGAAGGACTTGAG+TGG - contig27end:43541-43560 MsG0080048349.01.T01:CDS 60.0%
CCACTCAAGTCCTTCTCCCG+TGG + contig27end:43544-43563 None:intergenic 60.0%
GGACTGAAGACCACGGGAGA+AGG - contig27end:43531-43550 MsG0080048349.01.T01:CDS 60.0%
Chromosome Type Strat End Strand Name
contig27end gene 43432 43632 43432 ID=MsG0080048349.01;Name=MsG0080048349.01
contig27end mRNA 43432 43632 43432 ID=MsG0080048349.01.T01;Parent=MsG0080048349.01;Name=MsG0080048349.01.T01;_AED=0.50;_eAED=0.50;_QI=0|-1|0|1|-1|1|1|0|66
contig27end exon 43432 43632 43432 ID=MsG0080048349.01.T01:exon:21975;Parent=MsG0080048349.01.T01
contig27end CDS 43432 43632 43432 ID=MsG0080048349.01.T01:cds;Parent=MsG0080048349.01.T01
Gene Sequence

>MsG0080048349.01.T01

ATGAAAGCCACCAGAGAAGTGCTCAGTGAATATGGAAATATGTCAAGTGCTTGTGTTTTGTTTATCTTAGATGAAATGAGAAAGAAGTCCGCTCAGGATGGACTGAAGACCACGGGAGAAGGACTTGAGTGGGGTGTTTTATTTGGGTTTGGACCGGGTCTTACCATTGAAACTGTTGTTTTGCGCAGTGTCGCTATATGA

Protein sequence

>MsG0080048349.01.T01

MKATREVLSEYGNMSSACVLFILDEMRKKSAQDGLKTTGEGLEWGVLFGFGPGLTIETVVLRSVAI*