AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar ZhongmuNo.1 / MsG0180004187.01


Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsG0180004187.01.T01 MTR_1g076720 74.194 62 16 0 12 73 79 140 1.38e-24 94.0
MsG0180004187.01.T01 MTR_6g060550 68.750 48 15 0 12 59 77 124 1.72e-17 74.3
MsG0180004187.01.T01 MTR_6g060550 68.750 48 15 0 12 59 118 165 1.95e-17 74.7
MsG0180004187.01.T01 MTR_6g060550 68.750 48 15 0 12 59 77 124 2.00e-17 74.7
MsG0180004187.01.T01 MTR_1g076730 85.417 48 7 0 12 59 232 279 4.12e-15 68.2
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsG0180004187.01.T01 AT4G35360 79.167 48 10 0 12 59 77 124 6.80e-20 81.3
MsG0180004187.01.T01 AT4G35360 79.167 48 10 0 12 59 77 124 6.80e-20 81.3
MsG0180004187.01.T01 AT2G17340 79.167 48 10 0 12 59 77 124 7.76e-20 81.3
MsG0180004187.01.T01 AT2G17320 63.830 47 17 0 13 59 72 118 6.44e-14 64.7
MsG0180004187.01.T01 AT2G17320 63.830 47 17 0 13 59 72 118 7.04e-14 64.7

Find 10 sgRNAs with CRISPR-Local

Find 18 sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
TGAGGAAGTTCTTAAAGAAC+TGG 0.366642 1:+74656546 MsG0180004187.01.T01:CDS
TTTGTGCATTCATTTCAAAA+AGG 0.394478 1:+74656314 MsG0180004187.01.T01:CDS
AGAGGATCGCCATGACTTGC+AGG 0.416925 1:-74656370 None:intergenic
AAGAAAGATCCTGCAAGTCA+TGG 0.579855 1:+74656361 MsG0180004187.01.T01:CDS
GAGGAAGTTCTTAAAGAACT+GGG 0.598212 1:+74656547 MsG0180004187.01.T01:CDS
GAACATACAAGGATATCAAG+AGG 0.620851 1:-74656388 None:intergenic
AGATATCTTCAAGAAAGTCA+AGG 0.640034 1:+74656576 MsG0180004187.01.T01:CDS
GCTTCTATGTAGACTTCGTG+AGG 0.640274 1:+74656528 MsG0180004187.01.T01:intron
AAGATTAAGAAAACAATCTG+CGG 0.652625 1:+74656600 MsG0180004187.01.T01:CDS
AGGAAGTTCTTAAAGAACTG+GGG 0.687598 1:+74656548 MsG0180004187.01.T01:CDS

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
!!! TATATCAAACATTTTAGTAT+TGG - Chr1:74656448-74656467 None:intergenic 15.0%
! AAGATTAAGAAAACAATCTG+CGG + Chr1:74656600-74656619 MsG0180004187.01.T01:CDS 25.0%
! ACAACGAATAAAGAGAATAA+GGG - Chr1:74656496-74656515 None:intergenic 25.0%
! TTTGTGCATTCATTTCAAAA+AGG + Chr1:74656314-74656333 MsG0180004187.01.T01:CDS 25.0%
AGATATCTTCAAGAAAGTCA+AGG + Chr1:74656576-74656595 MsG0180004187.01.T01:CDS 30.0%
ATCCTTGTATGTTCTTTATC+TGG + Chr1:74656397-74656416 MsG0180004187.01.T01:intron 30.0%
CACAACGAATAAAGAGAATA+AGG - Chr1:74656497-74656516 None:intergenic 30.0%
AATAAGGGATAACACAGAAG+GGG - Chr1:74656481-74656500 None:intergenic 35.0%
AGAATAAGGGATAACACAGA+AGG - Chr1:74656483-74656502 None:intergenic 35.0%
AGGAAGTTCTTAAAGAACTG+GGG + Chr1:74656548-74656567 MsG0180004187.01.T01:CDS 35.0%
GAACATACAAGGATATCAAG+AGG - Chr1:74656391-74656410 None:intergenic 35.0%
GAATAAGGGATAACACAGAA+GGG - Chr1:74656482-74656501 None:intergenic 35.0%
GAGGAAGTTCTTAAAGAACT+GGG + Chr1:74656547-74656566 MsG0180004187.01.T01:CDS 35.0%
GTCCAGATAAAGAACATACA+AGG - Chr1:74656402-74656421 None:intergenic 35.0%
TGAGGAAGTTCTTAAAGAAC+TGG + Chr1:74656546-74656565 MsG0180004187.01.T01:CDS 35.0%
AAGAAAGATCCTGCAAGTCA+TGG + Chr1:74656361-74656380 MsG0180004187.01.T01:CDS 40.0%
GCTTCTATGTAGACTTCGTG+AGG + Chr1:74656528-74656547 MsG0180004187.01.T01:intron 45.0%
! AGAGGATCGCCATGACTTGC+AGG - Chr1:74656373-74656392 None:intergenic 55.0%
Chromosome Type Strat End Strand Name
Chr1 gene 74656295 74656642 74656295 ID=MsG0180004187.01;Name=MsG0180004187.01
Chr1 mRNA 74656295 74656642 74656295 ID=MsG0180004187.01.T01;Parent=MsG0180004187.01;Name=MsG0180004187.01.T01;_AED=0.57;_eAED=0.56;_QI=0|1|0|1|1|1|2|0|73
Chr1 exon 74656295 74656402 74656295 ID=MsG0180004187.01.T01:exon:5633;Parent=MsG0180004187.01.T01
Chr1 exon 74656529 74656642 74656529 ID=MsG0180004187.01.T01:exon:5634;Parent=MsG0180004187.01.T01
Chr1 CDS 74656295 74656402 74656295 ID=MsG0180004187.01.T01:cds;Parent=MsG0180004187.01.T01
Chr1 CDS 74656529 74656642 74656529 ID=MsG0180004187.01.T01:cds;Parent=MsG0180004187.01.T01
Gene Sequence

>MsG0180004187.01.T01

TTGCAATATTGCATTTTCTTTTGTGCATTCATTTCAAAAAGGTATGCTGAAATACTTGAAGATTTGAAGAAAGATCCTGCAAGTCATGGCGATCCTCTTGATATCCTTCTTCTATGTAGACTTCGTGAGGAAGTTCTTAAAGAACTGGGGTTCAGAGATATCTTCAAGAAAGTCAAGGTAAGATTAAGAAAACAATCTGCGGTTCTAAGTTATAATTGCTAA

Protein sequence

>MsG0180004187.01.T01

LQYCIFFCAFISKRYAEILEDLKKDPASHGDPLDILLLCRLREEVLKELGFRDIFKKVKVRLRKQSAVLSYNC*