AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar zhongmu-4 / Msa1438640


Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
Msa1438640 MtrunA17_Chr3g0145311 95.652 92 3 1 1 92 1 91 1.32e-58 174
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
Msa1438640 AT2G21290.1 62.651 83 29 1 10 92 18 98 1.25e-20 79.0

Find 26 sgRNAs with CRISPR-Local

Find 26 sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
TCGATCATTTGTTCTCTCTT+CGG 0.404252 tig0028593:+52587 None:intergenic
AAAAGATTCAAGGGCTCGTA+TGG 0.464506 tig0028593:-52620 Msa1438640:CDS
AAAGAAAGGGAAAAGATTCA+AGG 0.481880 tig0028593:-52630 Msa1438640:CDS
TGAAATCAAATGAGCTTGAA+AGG 0.487197 tig0028593:+52515 None:intergenic
AAGTTCCCAGGTCTACTCCT+TGG 0.493148 tig0028593:-52544 Msa1438640:CDS
ACGCCTTGTGCTTCTTCTGC+CGG 0.494602 tig0028593:-52698 Msa1438640:CDS
GCTGCACGGTGGTTGATAAG+AGG 0.503001 tig0028593:-52734 Msa1438640:CDS
GATCGAACGAATCAAAGATA+AGG 0.533385 tig0028593:-52570 Msa1438640:CDS
CAAATGAGCTTGAAAGGAAG+AGG 0.534374 tig0028593:+52521 None:intergenic
GCTCCGATAGTGTGCGGACG+CGG 0.535798 tig0028593:-52665 Msa1438640:CDS
AGCTTGAAAGGAAGAGGCCA+AGG 0.539805 tig0028593:+52527 None:intergenic
TATCAACCACCGTGCAGCTA+CGG 0.541002 tig0028593:+52739 None:intergenic
AAGATAAGGTTGAAGTTCCC+AGG 0.546325 tig0028593:-52556 Msa1438640:CDS
AAGAGGCCAAGGAGTAGACC+TGG 0.562320 tig0028593:+52538 None:intergenic
TATCGGAGCAGCTGTTACGC+CGG 0.576176 tig0028593:+52679 None:intergenic
AAGAAAGGGAAAAGATTCAA+GGG 0.576778 tig0028593:-52629 Msa1438640:CDS
AGCGGTGCACCGTAGCTGCA+CGG 0.586905 tig0028593:-52748 Msa1438640:CDS
GTTGATAAGAGGAGCGTCGT+CGG 0.589779 tig0028593:-52723 Msa1438640:CDS
AGAGGCCAAGGAGTAGACCT+GGG 0.623067 tig0028593:+52539 None:intergenic
AAAGATTCAAGGGCTCGTAT+GGG 0.635720 tig0028593:-52619 Msa1438640:CDS
GTGGCGCTAGTGTGATGCAG+CGG 0.656151 tig0028593:-52766 Msa1438640:CDS
AAAGTGTGTATGGCGAGTGG+TGG 0.695087 tig0028593:-52785 None:intergenic
ACAGCTGCTCCGATAGTGTG+CGG 0.696198 tig0028593:-52671 Msa1438640:CDS
AGAAAAGTGTGTATGGCGAG+TGG 0.701894 tig0028593:-52788 None:intergenic
ACGCCGGCAGAAGAAGCACA+AGG 0.711011 tig0028593:+52695 None:intergenic
GGTGCACCGTAGCTGCACGG+TGG 0.772757 tig0028593:-52745 Msa1438640:CDS

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
! GTGATAAAAAGACAAAGAAA+GGG - tig0028593:52653-52672 Msa1438640:CDS 25.0%
GGTGATAAAAAGACAAAGAA+AGG - tig0028593:52652-52671 Msa1438640:CDS 30.0%
AAAGAAAGGGAAAAGATTCA+AGG - tig0028593:52666-52685 Msa1438640:CDS 30.0%
AAGAAAGGGAAAAGATTCAA+GGG - tig0028593:52667-52686 Msa1438640:CDS 30.0%
TCGATCATTTGTTCTCTCTT+CGG + tig0028593:52712-52731 None:intergenic 35.0%
GATCGAACGAATCAAAGATA+AGG - tig0028593:52726-52745 Msa1438640:CDS 35.0%
AAAAGATTCAAGGGCTCGTA+TGG - tig0028593:52676-52695 Msa1438640:CDS 40.0%
AAAGATTCAAGGGCTCGTAT+GGG - tig0028593:52677-52696 Msa1438640:CDS 40.0%
AAGATAAGGTTGAAGTTCCC+AGG - tig0028593:52740-52759 Msa1438640:CDS 40.0%
CAAATGAGCTTGAAAGGAAG+AGG + tig0028593:52778-52797 None:intergenic 40.0%
TATCAACCACCGTGCAGCTA+CGG + tig0028593:52560-52579 None:intergenic 50.0%
!! GTTGATAAGAGGAGCGTCGT+CGG - tig0028593:52573-52592 Msa1438640:CDS 50.0%
AAGTTCCCAGGTCTACTCCT+TGG - tig0028593:52752-52771 Msa1438640:CDS 50.0%
AGCTTGAAAGGAAGAGGCCA+AGG + tig0028593:52772-52791 None:intergenic 50.0%
!! GCTGCACGGTGGTTGATAAG+AGG - tig0028593:52562-52581 Msa1438640:CDS 55.0%
ACGCCTTGTGCTTCTTCTGC+CGG - tig0028593:52598-52617 Msa1438640:CDS 55.0%
TATCGGAGCAGCTGTTACGC+CGG + tig0028593:52620-52639 None:intergenic 55.0%
ACAGCTGCTCCGATAGTGTG+CGG - tig0028593:52625-52644 Msa1438640:CDS 55.0%
AGAGGCCAAGGAGTAGACCT+GGG + tig0028593:52760-52779 None:intergenic 55.0%
AAGAGGCCAAGGAGTAGACC+TGG + tig0028593:52761-52780 None:intergenic 55.0%
GTGGCGCTAGTGTGATGCAG+CGG - tig0028593:52530-52549 Msa1438640:CDS 60.0%
! ACGCCGGCAGAAGAAGCACA+AGG + tig0028593:52604-52623 None:intergenic 60.0%
TCACCGCGTCCGCACACTAT+CGG + tig0028593:52637-52656 None:intergenic 60.0%
AGCGGTGCACCGTAGCTGCA+CGG - tig0028593:52548-52567 Msa1438640:CDS 65.0%
GCTCCGATAGTGTGCGGACG+CGG - tig0028593:52631-52650 Msa1438640:CDS 65.0%
GGTGCACCGTAGCTGCACGG+TGG - tig0028593:52551-52570 Msa1438640:CDS 70.0%
Chromosome Type Strat End Strand Name
tig0028593 gene 52520 52798 52520 ID=Msa1438640;Name=Msa1438640
tig0028593 mRNA 52520 52798 52520 ID=Msa1438640-mRNA-1;Parent=Msa1438640;Name=Msa1438640-mRNA-1;_AED=0.01;_eAED=0.01;_QI=0|-1|0|1|-1|1|1|0|92
tig0028593 exon 52520 52798 52520 ID=Msa1438640-mRNA-1:exon:11337;Parent=Msa1438640-mRNA-1
tig0028593 CDS 52520 52798 52520 ID=Msa1438640-mRNA-1:cds;Parent=Msa1438640-mRNA-1
Gene Sequence

>Msa1438640

ATGGCGAGTGGTGGCGCTAGTGTGATGCAGCGGTGCACCGTAGCTGCACGGTGGTTGATAAGAGGAGCGTCGTCGGAGACGCCTTGTGCTTCTTCTGCCGGCGTAACAGCTGCTCCGATAGTGTGCGGACGCGGTGATAAAAAGACAAAGAAAGGGAAAAGATTCAAGGGCTCGTATGGGAAATCTCGTCCGAAGAGAGAACAAATGATCGAACGAATCAAAGATAAGGTTGAAGTTCCCAGGTCTACTCCTTGGCCTCTTCCTTTCAAGCTCATTTGA

Protein sequence

>Msa1438640

MASGGASVMQRCTVAARWLIRGASSETPCASSAGVTAAPIVCGRGDKKTKKGKRFKGSYGKSRPKREQMIERIKDKVEVPRSTPWPLPFKLI*