AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar ZhongmuNo.1 / MsG0380014022.01


Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsG0380014022.01.T04 MTR_3g035610 98.000 50 1 0 1 50 51 100 9.04e-32 105
MsG0380014022.01.T04 MTR_5g063380 95.833 48 2 0 2 49 46 93 6.84e-27 94.7
MsG0380014022.01.T03 MTR_3g035610 98.148 54 1 0 1 54 47 100 1.59e-34 112
MsG0380014022.01.T03 MTR_5g063380 90.566 53 5 0 1 53 41 93 8.17e-28 97.4
MsG0380014022.01.T02 MTR_3g035610 98.305 59 1 0 1 59 42 100 1.64e-38 122
MsG0380014022.01.T02 MTR_5g063380 90.566 53 5 0 6 58 41 93 5.49e-28 97.8
MsG0380014022.01.T01 MTR_3g035610 84.000 100 5 1 1 89 1 100 7.73e-53 160
MsG0380014022.01.T01 MTR_5g063380 81.356 59 11 0 30 88 35 93 4.48e-28 99.8
MsG0380014022.01.T01 MTR_8g079770 89.474 38 4 0 1 38 1 38 4.75e-15 63.5
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsG0380014022.01.T04 ATCG00330 92.000 50 4 0 1 50 51 100 1.26e-28 97.4
MsG0380014022.01.T03 ATCG00330 87.037 54 7 0 1 54 47 100 2.45e-29 99.4
MsG0380014022.01.T02 ATCG00330 84.746 59 9 0 1 59 42 100 5.19e-32 106
MsG0380014022.01.T01 ATCG00330 77.000 100 12 1 1 89 1 100 4.06e-46 143

Find 17 sgRNAs with CRISPR-Local

Find 23 sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
TATCGAGACTTTGGATTATC+TGG 0.188027 3:-48674190 MsG0380014022.01.T01:CDS
TAAGTGAGAATGGGAAATTC+AGG 0.305327 3:-48674296 MsG0380014022.01.T01:intron
ATAATTAGCTCTCGGTCTTC+CGG 0.352637 3:+48674210 None:intergenic
AGAGCTAATTATCGAGACTT+TGG 0.411010 3:-48674199 MsG0380014022.01.T01:CDS
TGGACACATACTTCGTGAAA+TGG 0.439919 3:-48674170 MsG0380014022.01.T01:CDS
TGATTGAGAGGGAGAAGAAG+AGG 0.473159 3:-48674389 MsG0380014022.01.T01:CDS
CAAAGAAAAGTTTGATTGAG+AGG 0.490515 3:-48674401 MsG0380014022.01.T01:CDS
CCAACTCGATCTTGTTGCAC+CGG 0.512828 3:+48674129 None:intergenic
AAAGAAAAGTTTGATTGAGA+GGG 0.519434 3:-48674400 MsG0380014022.01.T01:CDS
AAGTGAGAATGGGAAATTCA+GGG 0.536316 3:-48674295 MsG0380014022.01.T01:intron
GTTCACGAAGGTTTGTTGCC+CGG 0.536821 3:-48674148 MsG0380014022.01.T01:CDS
CAACTCGATCTTGTTGCACC+GGG 0.553300 3:+48674130 None:intergenic
AAGTCTCGATAATTAGCTCT+CGG 0.595033 3:+48674202 None:intergenic
CAACGTCGACGAAGACGTGT+AGG 0.602876 3:+48674241 None:intergenic
CTTCGTGAAATGGTTCACGA+AGG 0.651469 3:-48674160 MsG0380014022.01.T01:CDS
CCGGTGCAACAAGATCGAGT+TGG 0.687174 3:-48674129 MsG0380014022.01.T01:CDS
CGTGTAGGTGCACTATTACG+CGG 0.722612 3:+48674256 None:intergenic

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
!!! GCTTTTCTTATTTCTTTTTT+TGG + Chr3:48674207-48674226 None:intergenic 20.0%
! AAAGAAAAGTTTGATTGAGA+GGG - Chr3:48674131-48674150 MsG0380014022.01.T01:CDS 25.0%
CAAAGAAAAGTTTGATTGAG+AGG - Chr3:48674130-48674149 MsG0380014022.01.T01:CDS 30.0%
AAGTGAGAATGGGAAATTCA+GGG - Chr3:48674236-48674255 MsG0380014022.01.T01:CDS 35.0%
AGAGCTAATTATCGAGACTT+TGG - Chr3:48674332-48674351 MsG0380014022.01.T01:CDS 35.0%
GAATTTCCCATTCTCACTTA+AGG + Chr3:48674235-48674254 None:intergenic 35.0%
TAAGTGAGAATGGGAAATTC+AGG - Chr3:48674235-48674254 MsG0380014022.01.T01:CDS 35.0%
TATCGAGACTTTGGATTATC+TGG - Chr3:48674341-48674360 MsG0380014022.01.T01:CDS 35.0%
! AAGTCTCGATAATTAGCTCT+CGG + Chr3:48674332-48674351 None:intergenic 35.0%
CTCAGTCCTTAAGTGAGAAT+GGG - Chr3:48674226-48674245 MsG0380014022.01.T01:CDS 40.0%
GGAGAAGAAGAGGCAAAAAT+TGG - Chr3:48674152-48674171 MsG0380014022.01.T01:CDS 40.0%
TGGACACATACTTCGTGAAA+TGG - Chr3:48674361-48674380 MsG0380014022.01.T01:CDS 40.0%
! ATAATTAGCTCTCGGTCTTC+CGG + Chr3:48674324-48674343 None:intergenic 40.0%
CTTCGTGAAATGGTTCACGA+AGG - Chr3:48674371-48674390 MsG0380014022.01.T01:CDS 45.0%
GCTCAGTCCTTAAGTGAGAA+TGG - Chr3:48674225-48674244 MsG0380014022.01.T01:CDS 45.0%
TGATTGAGAGGGAGAAGAAG+AGG - Chr3:48674142-48674161 MsG0380014022.01.T01:CDS 45.0%
CAACTCGATCTTGTTGCACC+GGG + Chr3:48674404-48674423 None:intergenic 50.0%
CCAACTCGATCTTGTTGCAC+CGG + Chr3:48674405-48674424 None:intergenic 50.0%
CGTGTAGGTGCACTATTACG+CGG + Chr3:48674278-48674297 None:intergenic 50.0%
!! GTTCACGAAGGTTTGTTGCC+CGG - Chr3:48674383-48674402 MsG0380014022.01.T01:CDS 50.0%
!!! CGTCGACGTTGTTTTTCGAC+CGG - Chr3:48674302-48674321 MsG0380014022.01.T01:intron 50.0%
CAACGTCGACGAAGACGTGT+AGG + Chr3:48674293-48674312 None:intergenic 55.0%
CCGGTGCAACAAGATCGAGT+TGG - Chr3:48674402-48674421 MsG0380014022.01.T01:CDS 55.0%
Chromosome Type Strat End Strand Name
Chr3 gene 48674126 48674427 48674126 ID=MsG0380014022.01;Name=MsG0380014022.01
Chr3 mRNA 48674126 48674427 48674126 ID=MsG0380014022.01.T01;Parent=MsG0380014022.01;Name=MsG0380014022.01.T01;_AED=0.50;_eAED=0.50;_QI=0|0|0|1|0|0|2|0|89
Chr3 exon 48674126 48674283 48674126 ID=MsG0380014022.01.T01:exon:9407;Parent=MsG0380014022.01.T01
Chr3 exon 48674316 48674427 48674316 ID=MsG0380014022.01.T01:exon:9406;Parent=MsG0380014022.01.T01
Chr3 CDS 48674316 48674427 48674316 ID=MsG0380014022.01.T01:cds;Parent=MsG0380014022.01.T01
Chr3 CDS 48674126 48674283 48674126 ID=MsG0380014022.01.T01:cds;Parent=MsG0380014022.01.T01
Chr3 mRNA 48674126 48674305 48674126 ID=MsG0380014022.01.T02;Parent=MsG0380014022.01;Name=MsG0380014022.01.T02;_AED=0.50;_eAED=0.50;_QI=0|-1|0|1|-1|0|1|0|59
Chr3 exon 48674126 48674305 48674126 ID=MsG0380014022.01.T02:exon:9408;Parent=MsG0380014022.01.T02
Chr3 CDS 48674126 48674305 48674126 ID=MsG0380014022.01.T02:cds;Parent=MsG0380014022.01.T02
Chr3 mRNA 48674126 48674290 48674126 ID=MsG0380014022.01.T03;Parent=MsG0380014022.01;Name=MsG0380014022.01.T03;_AED=0.50;_eAED=0.50;_QI=0|-1|0|1|-1|0|1|0|54
Chr3 exon 48674126 48674290 48674126 ID=MsG0380014022.01.T03:exon:9409;Parent=MsG0380014022.01.T03
Chr3 CDS 48674126 48674290 48674126 ID=MsG0380014022.01.T03:cds;Parent=MsG0380014022.01.T03
Chr3 mRNA 48674126 48674278 48674126 ID=MsG0380014022.01.T04;Parent=MsG0380014022.01;Name=MsG0380014022.01.T04;_AED=0.50;_eAED=0.50;_QI=0|-1|0|1|-1|0|1|0|50
Chr3 exon 48674126 48674278 48674126 ID=MsG0380014022.01.T04:exon:9410;Parent=MsG0380014022.01.T04
Chr3 CDS 48674126 48674278 48674126 ID=MsG0380014022.01.T04:cds;Parent=MsG0380014022.01.T04
Chr3 mRNA 48674126 48674173 48674126 ID=MsG0380014022.01.T05;Parent=MsG0380014022.01;Name=MsG0380014022.01.T05;_AED=0.50;_eAED=0.50;_QI=0|-1|0|1|-1|0|1|0|15
Chr3 exon 48674126 48674173 48674126 ID=MsG0380014022.01.T05:exon:9411;Parent=MsG0380014022.01.T05
Chr3 CDS 48674126 48674173 48674126 ID=MsG0380014022.01.T05:cds;Parent=MsG0380014022.01.T05
Gene Sequence

>MsG0380014022.01.T04

CCGCGTAATAGTGCACCTACACGTCTTCGTCGACGTTGTTTTTCGACCGGAAGACCGAGAGCTAATTATCGAGACTTTGGATTATCTGGACACATACTTCGTGAAATGGTTCACGAAGGTTTGTTGCCCGGTGCAACAAGATCGAGTTGGTAA

>MsG0380014022.01.T03

TTAGAAGCACTACCGCGTAATAGTGCACCTACACGTCTTCGTCGACGTTGTTTTTCGACCGGAAGACCGAGAGCTAATTATCGAGACTTTGGATTATCTGGACACATACTTCGTGAAATGGTTCACGAAGGTTTGTTGCCCGGTGCAACAAGATCGAGTTGGTAA

>MsG0380014022.01.T02

GAAATTCAGGGAAAGTTAGAAGCACTACCGCGTAATAGTGCACCTACACGTCTTCGTCGACGTTGTTTTTCGACCGGAAGACCGAGAGCTAATTATCGAGACTTTGGATTATCTGGACACATACTTCGTGAAATGGTTCACGAAGGTTTGTTGCCCGGTGCAACAAGATCGAGTTGGTAA

>MsG0380014022.01.T05

ATGGTTCACGAAGGTTTGTTGCCCGGTGCAACAAGATCGAGTTGGTAA

>MsG0380014022.01.T01

ATGGCAAAGAAAAGTTTGATTGAGAGGGAGAAGAAGAGGCAAAAATTGGAACAAAAATATCATTTGATTCGAAGATCTCCAAAAAAAGAAATAAGAAAAGCTCAGTCCTTAACACTACCGCGTAATAGTGCACCTACACGTCTTCGTCGACGTTGTTTTTCGACCGGAAGACCGAGAGCTAATTATCGAGACTTTGGATTATCTGGACACATACTTCGTGAAATGGTTCACGAAGGTTTGTTGCCCGGTGCAACAAGATCGAGTTGGTAA

Protein sequence

>MsG0380014022.01.T04

PRNSAPTRLRRRCFSTGRPRANYRDFGLSGHILREMVHEGLLPGATRSSW*

>MsG0380014022.01.T03

LEALPRNSAPTRLRRRCFSTGRPRANYRDFGLSGHILREMVHEGLLPGATRSSW*

>MsG0380014022.01.T02

EIQGKLEALPRNSAPTRLRRRCFSTGRPRANYRDFGLSGHILREMVHEGLLPGATRSSW*

>MsG0380014022.01.T05

MVHEGLLPGATRSSW*

>MsG0380014022.01.T01

MAKKSLIEREKKRQKLEQKYHLIRRSPKKEIRKAQSLTLPRNSAPTRLRRRCFSTGRPRANYRDFGLSGHILREMVHEGLLPGATRSSW*