AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar ZhongmuNo.1 / MsG0180000335.01


Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score

Find 28 sgRNAs with CRISPR-Local

Find 34 sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
GGTCATGGTCATGGTGGCCA+TGG 0.368549 1:+4560563 MsG0180000335.01.T01:CDS
GGCCATGGCCATCACCTTGA+TGG 0.396529 1:-4560520 None:intergenic
CTCTAAGACTTGGGTGAAGA+AGG 0.431502 1:+4560613 MsG0180000335.01.T01:CDS
TAGAGGGGTGTTATTATGTC+TGG 0.456166 1:+4560768 MsG0180000335.01.T01:CDS
GAAGGTTGCATAAATGATAG+AGG 0.461242 1:+4560751 MsG0180000335.01.T01:intron
CAAGGTGATGGCCATGGCCA+TGG 0.463368 1:+4560524 MsG0180000335.01.T01:CDS
AGCAACAAAGCTCTAAGACT+TGG 0.496054 1:+4560603 MsG0180000335.01.T01:CDS
GTCATGGTCATGGTGGCCAT+GGG 0.509787 1:+4560564 MsG0180000335.01.T01:CDS
TATGTCTATGCCCATGGCCA+TGG 0.524574 1:-4560535 None:intergenic
AACTATGGTATGAGAAAGAA+TGG 0.530677 1:+4560482 MsG0180000335.01.T01:CDS
GCAACAAAGCTCTAAGACTT+GGG 0.549879 1:+4560604 MsG0180000335.01.T01:CDS
GTCATGGTGGCCATGGGCAT+AGG 0.553276 1:+4560570 MsG0180000335.01.T01:CDS
CATAGCCATGGTCATGGTCA+TGG 0.560954 1:+4560554 MsG0180000335.01.T01:CDS
AAGGTTGCATAAATGATAGA+GGG 0.563334 1:+4560752 MsG0180000335.01.T01:intron
AAGGTGATGGCCATGGCCAT+GGG 0.564332 1:+4560525 MsG0180000335.01.T01:CDS
CCTTAAAATTCCTATGCCCA+TGG 0.592977 1:-4560580 None:intergenic
AGAAAGAATGGTGATGGCGA+TGG 0.597081 1:+4560494 MsG0180000335.01.T01:CDS
AAGACTTGGGTGAAGAAGGA+TGG 0.598612 1:+4560617 MsG0180000335.01.T01:CDS
CATGGCTATGTCTATGCCCA+TGG 0.625053 1:-4560541 None:intergenic
CATAGACATAGCCATGGTCA+TGG 0.638567 1:+4560548 MsG0180000335.01.T01:CDS
GATGGCGATGGTGACCATCA+AGG 0.644326 1:+4560506 MsG0180000335.01.T01:CDS
GACCATCAAGGTGATGGCCA+TGG 0.645641 1:+4560518 MsG0180000335.01.T01:CDS
GGCCACCATGACCATGACCA+TGG 0.650892 1:-4560559 None:intergenic
GATGGTGACCATCAAGGTGA+TGG 0.653332 1:+4560512 MsG0180000335.01.T01:CDS
GGTATGAGAAAGAATGGTGA+TGG 0.657596 1:+4560488 MsG0180000335.01.T01:CDS
AGGTTGCATAAATGATAGAG+GGG 0.658839 1:+4560753 MsG0180000335.01.T01:intron
AGCCATGGTCATGGTCATGG+TGG 0.677736 1:+4560557 MsG0180000335.01.T01:CDS
CATGGGCATAGACATAGCCA+TGG 0.681340 1:+4560542 MsG0180000335.01.T01:CDS

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
!!! TTAATTTTCATTAATTTTAG+TGG + Chr1:4560682-4560701 MsG0180000335.01.T01:intron 10.0%
!!! TCATTAATTTTAGTGGATTA+TGG + Chr1:4560689-4560708 MsG0180000335.01.T01:intron 20.0%
! AAGTGATATGATATGATTGA+AGG + Chr1:4560733-4560752 MsG0180000335.01.T01:intron 25.0%
AACTATGGTATGAGAAAGAA+TGG + Chr1:4560482-4560501 MsG0180000335.01.T01:CDS 30.0%
AAGGTTGCATAAATGATAGA+GGG + Chr1:4560752-4560771 MsG0180000335.01.T01:intron 30.0%
AGGTTGCATAAATGATAGAG+GGG + Chr1:4560753-4560772 MsG0180000335.01.T01:intron 35.0%
GAAGGTTGCATAAATGATAG+AGG + Chr1:4560751-4560770 MsG0180000335.01.T01:intron 35.0%
GGAGAAATTGAGACATAGTT+TGG + Chr1:4560647-4560666 MsG0180000335.01.T01:intron 35.0%
CCTTAAAATTCCTATGCCCA+TGG - Chr1:4560583-4560602 None:intergenic 40.0%
GGTATGAGAAAGAATGGTGA+TGG + Chr1:4560488-4560507 MsG0180000335.01.T01:CDS 40.0%
! CCATGGGCATAGGAATTTTA+AGG + Chr1:4560580-4560599 MsG0180000335.01.T01:CDS 40.0%
!! AGCAACAAAGCTCTAAGACT+TGG + Chr1:4560603-4560622 MsG0180000335.01.T01:CDS 40.0%
!! GCAACAAAGCTCTAAGACTT+GGG + Chr1:4560604-4560623 MsG0180000335.01.T01:CDS 40.0%
!! TAGAGGGGTGTTATTATGTC+TGG + Chr1:4560768-4560787 MsG0180000335.01.T01:CDS 40.0%
AAGACTTGGGTGAAGAAGGA+TGG + Chr1:4560617-4560636 MsG0180000335.01.T01:CDS 45.0%
CATAGACATAGCCATGGTCA+TGG + Chr1:4560548-4560567 MsG0180000335.01.T01:CDS 45.0%
!! AGAAAGAATGGTGATGGCGA+TGG + Chr1:4560494-4560513 MsG0180000335.01.T01:CDS 45.0%
!! CTCTAAGACTTGGGTGAAGA+AGG + Chr1:4560613-4560632 MsG0180000335.01.T01:CDS 45.0%
CATAGCCATGGTCATGGTCA+TGG + Chr1:4560554-4560573 MsG0180000335.01.T01:CDS 50.0%
CATGGCTATGTCTATGCCCA+TGG - Chr1:4560544-4560563 None:intergenic 50.0%
CATGGGCATAGACATAGCCA+TGG + Chr1:4560542-4560561 MsG0180000335.01.T01:CDS 50.0%
GATGGTGACCATCAAGGTGA+TGG + Chr1:4560512-4560531 MsG0180000335.01.T01:CDS 50.0%
GTGAAGAAGGATGGCAGTGT+TGG + Chr1:4560626-4560645 MsG0180000335.01.T01:intron 50.0%
TATGTCTATGCCCATGGCCA+TGG - Chr1:4560538-4560557 None:intergenic 50.0%
AGCCATGGTCATGGTCATGG+TGG + Chr1:4560557-4560576 MsG0180000335.01.T01:CDS 55.0%
GATGGCGATGGTGACCATCA+AGG + Chr1:4560506-4560525 MsG0180000335.01.T01:CDS 55.0%
GTCATGGTCATGGTGGCCAT+GGG + Chr1:4560564-4560583 MsG0180000335.01.T01:CDS 55.0%
! AAGGTGATGGCCATGGCCAT+GGG + Chr1:4560525-4560544 MsG0180000335.01.T01:CDS 55.0%
! GACCATCAAGGTGATGGCCA+TGG + Chr1:4560518-4560537 MsG0180000335.01.T01:CDS 55.0%
GGCCACCATGACCATGACCA+TGG - Chr1:4560562-4560581 None:intergenic 60.0%
GGCCATGGCCATCACCTTGA+TGG - Chr1:4560523-4560542 None:intergenic 60.0%
GGTCATGGTCATGGTGGCCA+TGG + Chr1:4560563-4560582 MsG0180000335.01.T01:CDS 60.0%
GTCATGGTGGCCATGGGCAT+AGG + Chr1:4560570-4560589 MsG0180000335.01.T01:CDS 60.0%
! CAAGGTGATGGCCATGGCCA+TGG + Chr1:4560524-4560543 MsG0180000335.01.T01:CDS 60.0%
Chromosome Type Strat End Strand Name
Chr1 gene 4560479 4560831 4560479 ID=MsG0180000335.01;Name=MsG0180000335.01
Chr1 mRNA 4560479 4560831 4560479 ID=MsG0180000335.01.T01;Parent=MsG0180000335.01;Name=MsG0180000335.01.T01;_AED=0.50;_eAED=0.66;_QI=0|0|0|1|1|1|2|0|79
Chr1 exon 4560479 4560641 4560479 ID=MsG0180000335.01.T01:exon:1758;Parent=MsG0180000335.01.T01
Chr1 exon 4560755 4560831 4560755 ID=MsG0180000335.01.T01:exon:1757;Parent=MsG0180000335.01.T01
Chr1 CDS 4560479 4560641 4560479 ID=MsG0180000335.01.T01:cds;Parent=MsG0180000335.01.T01
Chr1 CDS 4560755 4560831 4560755 ID=MsG0180000335.01.T01:cds;Parent=MsG0180000335.01.T01
Gene Sequence

>MsG0180000335.01.T01

ATGAACTATGGTATGAGAAAGAATGGTGATGGCGATGGTGACCATCAAGGTGATGGCCATGGCCATGGGCATAGACATAGCCATGGTCATGGTCATGGTGGCCATGGGCATAGGAATTTTAAGGAGCAACAAAGCTCTAAGACTTGGGTGAAGAAGGATGGCAGTTGCATAAATGATAGAGGGGTGTTATTATGTCTGGCTAATCAACATTTTGAGATTGTAATTGCTGTGAATGATTGA

Protein sequence

>MsG0180000335.01.T01

MNYGMRKNGDGDGDHQGDGHGHGHRHSHGHGHGGHGHRNFKEQQSSKTWVKKDGSCINDRGVLLCLANQHFEIVIAVND*