AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar zhongmu-4 / Msa0385580


Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
Msa0385580 MtrunA17_Chr6g0453811 100.000 65 0 0 1 65 1 65 6.66e-42 130
Msa0385580 MtrunA17_Chr4g0041861 90.769 65 6 0 1 65 1 65 3.30e-37 118
Msa0385580 MtrunA17_Chr6g0453911 81.538 65 11 1 1 65 1 64 1.49e-31 103
Msa0385580 MtrunA17_Chr8g0381481 83.673 49 8 0 1 49 1 49 8.05e-25 86.7
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
Msa0385580 AT5G03850.1 90.769 65 5 1 1 65 1 64 1.33e-35 114
Msa0385580 AT3G10090.1 90.769 65 5 1 1 65 1 64 1.33e-35 114
Msa0385580 AT5G64140.1 89.231 65 6 1 1 65 1 64 1.14e-34 112

Find 20 sgRNAs with CRISPR-Local

Find 21 sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
GCTGTTGTTGTGAAAGTTAT+GGG 0.420809 3_1:+89125307 Msa0385580:CDS
AGGATGTCTCCCTCCCTAAC+TGG 0.425936 3_1:-89125418 None:intergenic
TGCTGTTGTTGTGAAAGTTA+TGG 0.441002 3_1:+89125306 Msa0385580:CDS
TTATGGGTCGTACTGGATCC+AGG 0.451262 3_1:+89125323 Msa0385580:CDS
AACCTGAGTGACTTGTCCCC+TGG 0.461687 3_1:-89125341 None:intergenic
GAATGTGAAGGGACCAGTTA+GGG 0.464736 3_1:+89125405 Msa0385580:CDS
GGAATGTGAAGGGACCAGTT+AGG 0.473428 3_1:+89125404 Msa0385580:CDS
TCTCAGACTCGAGGAGGGTA+AGG 0.488938 3_1:-89125438 None:intergenic
GTGAAAGTTATGGGTCGTAC+TGG 0.530087 3_1:+89125316 Msa0385580:CDS
TGTGAAGGGACCAGTTAGGG+AGG 0.582336 3_1:+89125408 Msa0385580:CDS
ATCAGAATCGTCACATCATG+AGG 0.584464 3_1:+89125383 Msa0385580:CDS
TTGCTTCTCTCTCAGACTCG+AGG 0.586554 3_1:-89125447 None:intergenic
CTTCTCTCTCAGACTCGAGG+AGG 0.606831 3_1:-89125444 None:intergenic
TATGGGTCGTACTGGATCCA+GGG 0.613108 3_1:+89125324 Msa0385580:CDS
TCACATCATGAGGAATGTGA+AGG 0.626309 3_1:+89125393 Msa0385580:CDS
CACATCATGAGGAATGTGAA+GGG 0.632733 3_1:+89125394 Msa0385580:CDS
ATCCAGGGGACAAGTCACTC+AGG 0.638739 3_1:+89125339 Msa0385580:CDS
TTCTCTCTCAGACTCGAGGA+GGG 0.644799 3_1:-89125443 None:intergenic
GTGAAGGGACCAGTTAGGGA+GGG 0.647685 3_1:+89125409 Msa0385580:CDS
ATGGGTCGTACTGGATCCAG+GGG 0.674814 3_1:+89125325 Msa0385580:CDS

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
TGCTGTTGTTGTGAAAGTTA+TGG + chr3_1:89125306-89125325 Msa0385580:CDS 35.0%
GCTGTTGTTGTGAAAGTTAT+GGG + chr3_1:89125307-89125326 Msa0385580:CDS 35.0%
! TCAGGTTAGAGTGAAGTTTT+TGG + chr3_1:89125357-89125376 Msa0385580:CDS 35.0%
ATCAGAATCGTCACATCATG+AGG + chr3_1:89125383-89125402 Msa0385580:CDS 40.0%
TCACATCATGAGGAATGTGA+AGG + chr3_1:89125393-89125412 Msa0385580:CDS 40.0%
CACATCATGAGGAATGTGAA+GGG + chr3_1:89125394-89125413 Msa0385580:CDS 40.0%
GTGAAAGTTATGGGTCGTAC+TGG + chr3_1:89125316-89125335 Msa0385580:CDS 45.0%
GAATGTGAAGGGACCAGTTA+GGG + chr3_1:89125405-89125424 Msa0385580:CDS 45.0%
TTATGGGTCGTACTGGATCC+AGG + chr3_1:89125323-89125342 Msa0385580:CDS 50.0%
TATGGGTCGTACTGGATCCA+GGG + chr3_1:89125324-89125343 Msa0385580:CDS 50.0%
GGAATGTGAAGGGACCAGTT+AGG + chr3_1:89125404-89125423 Msa0385580:CDS 50.0%
TTCTCTCTCAGACTCGAGGA+GGG - chr3_1:89125446-89125465 None:intergenic 50.0%
TTGCTTCTCTCTCAGACTCG+AGG - chr3_1:89125450-89125469 None:intergenic 50.0%
ATGGGTCGTACTGGATCCAG+GGG + chr3_1:89125325-89125344 Msa0385580:CDS 55.0%
ATCCAGGGGACAAGTCACTC+AGG + chr3_1:89125339-89125358 Msa0385580:CDS 55.0%
! AACCTGAGTGACTTGTCCCC+TGG - chr3_1:89125344-89125363 None:intergenic 55.0%
TGTGAAGGGACCAGTTAGGG+AGG + chr3_1:89125408-89125427 Msa0385580:CDS 55.0%
GTGAAGGGACCAGTTAGGGA+GGG + chr3_1:89125409-89125428 Msa0385580:CDS 55.0%
AGGATGTCTCCCTCCCTAAC+TGG - chr3_1:89125421-89125440 None:intergenic 55.0%
TCTCAGACTCGAGGAGGGTA+AGG - chr3_1:89125441-89125460 None:intergenic 55.0%
CTTCTCTCTCAGACTCGAGG+AGG - chr3_1:89125447-89125466 None:intergenic 55.0%
Chromosome Type Strat End Strand Name
chr3_1 gene 89125286 89125483 89125286 ID=Msa0385580;Name=Msa0385580
chr3_1 mRNA 89125286 89125483 89125286 ID=Msa0385580-mRNA-1;Parent=Msa0385580;Name=Msa0385580-mRNA-1;_AED=0.26;_eAED=0.26;_QI=0|-1|0|1|-1|1|1|0|65
chr3_1 exon 89125286 89125483 89125286 ID=Msa0385580-mRNA-1:exon:24231;Parent=Msa0385580-mRNA-1
chr3_1 CDS 89125286 89125483 89125286 ID=Msa0385580-mRNA-1:cds;Parent=Msa0385580-mRNA-1
Gene Sequence

>Msa0385580

ATGGAATCACAGATTAAGCATGCTGTTGTTGTGAAAGTTATGGGTCGTACTGGATCCAGGGGACAAGTCACTCAGGTTAGAGTGAAGTTTTTGGATGATCAGAATCGTCACATCATGAGGAATGTGAAGGGACCAGTTAGGGAGGGAGACATCCTTACCCTCCTCGAGTCTGAGAGAGAAGCAAGAAGACTCCGATAG

Protein sequence

>Msa0385580

MESQIKHAVVVKVMGRTGSRGQVTQVRVKFLDDQNRHIMRNVKGPVREGDILTLLESEREARRLR*