AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar ZhongmuNo.1 / MsG0580028024.01


Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsG0580028024.01.T01 MTR_5g069990 92.857 112 2 1 1 112 1 106 3.80e-68 200
MsG0580028024.01.T01 MTR_3g462990 52.941 102 26 5 1 100 1 82 7.40e-22 82.8
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsG0580028024.01.T01 AT3G47070 51.562 64 28 2 1 64 1 61 1.71e-14 64.3

Find 29 sgRNAs with CRISPR-Local

Find 37 sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
CAAAAGAAGAAGGGTGGTTT+TGG 0.266622 5:+73293655 MsG0580028024.01.T01:CDS
CTTCCTGTTGTTGGAGCCAT+TGG 0.326090 5:-73293382 None:intergenic
GCAAAGACTCTTCCTGTTGT+TGG 0.379525 5:-73293391 None:intergenic
TCTTCAACCTTCTTGAGAAT+AGG 0.417605 5:-73293526 None:intergenic
TAGGATCAGTTTCATAGAAC+TGG 0.422240 5:-73293507 None:intergenic
TTGCCAATGGCTCCAACAAC+AGG 0.436711 5:+73293379 MsG0580028024.01.T01:CDS
GGAAGAGTCTTTGCAGCTAC+AGG 0.461997 5:+73293400 MsG0580028024.01.T01:CDS
TTCTATCACCATGTTGCCAA+TGG 0.495995 5:+73293366 MsG0580028024.01.T01:CDS
GGCAGTAGCAAGCAAGAGAA+AGG 0.509106 5:+73293445 MsG0580028024.01.T01:CDS
ACTAGTGGTAAAGGCACTAC+TGG 0.513169 5:+73293604 MsG0580028024.01.T01:CDS
AGAGGTACTACTAGTGGTAA+AGG 0.534650 5:+73293595 MsG0580028024.01.T01:CDS
AGAGGTACTACTAGTGGTAG+AGG 0.535016 5:+73293577 MsG0580028024.01.T01:CDS
GGTAGTTCCACAAAAGAAGA+AGG 0.536969 5:+73293645 MsG0580028024.01.T01:CDS
ACAGGTGCAAAGGGTACTAC+AGG 0.544200 5:+73293418 MsG0580028024.01.T01:CDS
AACTGATCCTATTCTCAAGA+AGG 0.548104 5:+73293519 MsG0580028024.01.T01:CDS
CTTTGCAGCTACAGGTGCAA+AGG 0.552868 5:+73293408 MsG0580028024.01.T01:CDS
TTTGCAGCTACAGGTGCAAA+GGG 0.555050 5:+73293409 MsG0580028024.01.T01:CDS
GCAAAGGGTACTACAGGTGG+TGG 0.567835 5:+73293424 MsG0580028024.01.T01:CDS
GGTAAAGGCACTACTGGTGG+TGG 0.582747 5:+73293610 MsG0580028024.01.T01:CDS
TGTTGGAGCCATTGGCAACA+TGG 0.591966 5:-73293374 None:intergenic
GAAGAGAAGAATAATAGTAG+AGG 0.604921 5:+73293544 MsG0580028024.01.T01:CDS
AGTAGAGGCACTACTAGTAG+AGG 0.624915 5:+73293559 MsG0580028024.01.T01:CDS
GTTCCACAAAAGAAGAAGGG+TGG 0.647995 5:+73293649 MsG0580028024.01.T01:CDS
ACTAGTAGAGGTACTACTAG+TGG 0.652621 5:+73293571 MsG0580028024.01.T01:CDS
GTAGTTCCACAAAAGAAGAA+GGG 0.659042 5:+73293646 MsG0580028024.01.T01:CDS
AGTGGTAGAGGTACTACTAG+TGG 0.660105 5:+73293589 MsG0580028024.01.T01:CDS
AGTGGTAAAGGCACTACTGG+TGG 0.663003 5:+73293607 MsG0580028024.01.T01:CDS
GGTGCAAAGGGTACTACAGG+TGG 0.681783 5:+73293421 MsG0580028024.01.T01:CDS
TGGTGGTGGCAAGAACTCTG+TGG 0.693661 5:+73293624 MsG0580028024.01.T01:CDS

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
!!! TTTTGGAGGATTTTTTAACA+AGG + Chr5:73293672-73293691 MsG0580028024.01.T01:CDS 25.0%
GAAGAGAAGAATAATAGTAG+AGG + Chr5:73293544-73293563 MsG0580028024.01.T01:CDS 30.0%
AACTGATCCTATTCTCAAGA+AGG + Chr5:73293519-73293538 MsG0580028024.01.T01:CDS 35.0%
GTAGTTCCACAAAAGAAGAA+GGG + Chr5:73293646-73293665 MsG0580028024.01.T01:CDS 35.0%
TAGGATCAGTTTCATAGAAC+TGG - Chr5:73293510-73293529 None:intergenic 35.0%
TCTTCAACCTTCTTGAGAAT+AGG - Chr5:73293529-73293548 None:intergenic 35.0%
! CAAGCAAGAGAAAGGTTTTT+GGG + Chr5:73293453-73293472 MsG0580028024.01.T01:CDS 35.0%
!!! AAGAGAAAGGTTTTTGGGAT+TGG + Chr5:73293458-73293477 MsG0580028024.01.T01:CDS 35.0%
GGTAGTTCCACAAAAGAAGA+AGG + Chr5:73293645-73293664 MsG0580028024.01.T01:CDS 40.0%
TTCTATCACCATGTTGCCAA+TGG + Chr5:73293366-73293385 MsG0580028024.01.T01:CDS 40.0%
! AAACCACCCTTCTTCTTTTG+TGG - Chr5:73293655-73293674 None:intergenic 40.0%
! CAAAAGAAGAAGGGTGGTTT+TGG + Chr5:73293655-73293674 MsG0580028024.01.T01:CDS 40.0%
! GCAAGCAAGAGAAAGGTTTT+TGG + Chr5:73293452-73293471 MsG0580028024.01.T01:CDS 40.0%
!! ACTAGTAGAGGTACTACTAG+TGG + Chr5:73293571-73293590 MsG0580028024.01.T01:CDS 40.0%
!! AGAGGTACTACTAGTGGTAA+AGG + Chr5:73293595-73293614 MsG0580028024.01.T01:CDS 40.0%
!!! GGTTTTTGGGATTGGATTGT+TGG + Chr5:73293466-73293485 MsG0580028024.01.T01:CDS 40.0%
!!! TTTTGGGATTGGATTGTTGG+TGG + Chr5:73293469-73293488 MsG0580028024.01.T01:CDS 40.0%
GCAAAGACTCTTCCTGTTGT+TGG - Chr5:73293394-73293413 None:intergenic 45.0%
GTTCCACAAAAGAAGAAGGG+TGG + Chr5:73293649-73293668 MsG0580028024.01.T01:CDS 45.0%
TTTGCAGCTACAGGTGCAAA+GGG + Chr5:73293409-73293428 MsG0580028024.01.T01:CDS 45.0%
!! ACTAGTGGTAAAGGCACTAC+TGG + Chr5:73293604-73293623 MsG0580028024.01.T01:CDS 45.0%
!! AGAGGTACTACTAGTGGTAG+AGG + Chr5:73293577-73293596 MsG0580028024.01.T01:CDS 45.0%
!! AGTAGAGGCACTACTAGTAG+AGG + Chr5:73293559-73293578 MsG0580028024.01.T01:CDS 45.0%
!! AGTGGTAGAGGTACTACTAG+TGG + Chr5:73293589-73293608 MsG0580028024.01.T01:CDS 45.0%
!!! AAGAAGAAGGGTGGTTTTGG+AGG + Chr5:73293658-73293677 MsG0580028024.01.T01:CDS 45.0%
CTTCCTGTTGTTGGAGCCAT+TGG - Chr5:73293385-73293404 None:intergenic 50.0%
CTTTGCAGCTACAGGTGCAA+AGG + Chr5:73293408-73293427 MsG0580028024.01.T01:CDS 50.0%
GGAAGAGTCTTTGCAGCTAC+AGG + Chr5:73293400-73293419 MsG0580028024.01.T01:CDS 50.0%
GGCAGTAGCAAGCAAGAGAA+AGG + Chr5:73293445-73293464 MsG0580028024.01.T01:CDS 50.0%
TGTTGGAGCCATTGGCAACA+TGG - Chr5:73293377-73293396 None:intergenic 50.0%
TTGCCAATGGCTCCAACAAC+AGG + Chr5:73293379-73293398 MsG0580028024.01.T01:CDS 50.0%
!! ACAGGTGCAAAGGGTACTAC+AGG + Chr5:73293418-73293437 MsG0580028024.01.T01:CDS 50.0%
!! AGTGGTAAAGGCACTACTGG+TGG + Chr5:73293607-73293626 MsG0580028024.01.T01:CDS 50.0%
!! GCAAAGGGTACTACAGGTGG+TGG + Chr5:73293424-73293443 MsG0580028024.01.T01:CDS 55.0%
!! GGTAAAGGCACTACTGGTGG+TGG + Chr5:73293610-73293629 MsG0580028024.01.T01:CDS 55.0%
!! GGTGCAAAGGGTACTACAGG+TGG + Chr5:73293421-73293440 MsG0580028024.01.T01:CDS 55.0%
!! TGGTGGTGGCAAGAACTCTG+TGG + Chr5:73293624-73293643 MsG0580028024.01.T01:CDS 55.0%
Chromosome Type Strat End Strand Name
Chr5 gene 73293361 73293699 73293361 ID=MsG0580028024.01;Name=MsG0580028024.01
Chr5 mRNA 73293361 73293699 73293361 ID=MsG0580028024.01.T01;Parent=MsG0580028024.01;Name=MsG0580028024.01.T01;_AED=0.49;_eAED=0.49;_QI=0|-1|0|1|-1|1|1|0|112
Chr5 exon 73293361 73293699 73293361 ID=MsG0580028024.01.T01:exon:5442;Parent=MsG0580028024.01.T01
Chr5 CDS 73293361 73293699 73293361 ID=MsG0580028024.01.T01:cds;Parent=MsG0580028024.01.T01
Gene Sequence

>MsG0580028024.01.T01

ATGGCTTCTATCACCATGTTGCCAATGGCTCCAACAACAGGAAGAGTCTTTGCAGCTACAGGTGCAAAGGGTACTACAGGTGGTGGCAGTAGCAAGCAAGAGAAAGGTTTTTGGGATTGGATTGTTGGTGGTTTAACAAAAGAAGACCAGTTCTATGAAACTGATCCTATTCTCAAGAAGGTTGAAGAGAAGAATAATAGTAGAGGCACTACTAGTAGAGGTACTACTAGTGGTAGAGGTACTACTAGTGGTAAAGGCACTACTGGTGGTGGCAAGAACTCTGTGGTAGTTCCACAAAAGAAGAAGGGTGGTTTTGGAGGATTTTTTAACAAGGATTAA

Protein sequence

>MsG0580028024.01.T01

MASITMLPMAPTTGRVFAATGAKGTTGGGSSKQEKGFWDWIVGGLTKEDQFYETDPILKKVEEKNNSRGTTSRGTTSGRGTTSGKGTTGGGKNSVVVPQKKKGGFGGFFNKD*