AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa ssp. caerulea / MsaG009612

Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsaG009612 MtrunA17_Chr2g0315391 70.000 120 24 7 6 120 4 116 2.23e-44 142
MsaG009612 MtrunA17_Chr2g0315351 70.833 120 23 7 6 120 4 116 3.49e-44 141
MsaG009612 MtrunA17_Chr2g0315371 43.636 165 65 6 8 155 8 161 4.21e-33 118
MsaG009612 MtrunA17_Chr2g0315361 45.679 162 73 6 8 155 8 168 2.58e-26 100
MsaG009612 MtrunA17_Chr2g0315381 47.647 170 68 10 1 155 1 164 5.96e-25 97.4
MsaG009612 MtrunA17_Chr7g0244971 38.732 142 66 3 19 155 18 143 8.05e-22 89.0
MsaG009612 MtrunA17_Chr7g0244981 36.691 139 73 3 19 155 17 142 3.18e-19 81.6
MsaG009612 MtrunA17_Chr8g0350621 32.609 138 78 3 18 155 9 131 3.08e-17 76.3
MsaG009612 MtrunA17_Chr8g0334541 40.000 145 59 7 14 155 4 123 3.20e-16 73.6
MsaG009612 MtrunA17_Chr8g0350641 37.383 107 55 4 52 155 42 139 1.33e-14 66.6
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsaG009612 AT3G56400.1 36.111 144 75 7 15 155 11 140 3.05e-14 68.6

Find 25 sgRNAs with CRISPR-Local

Find sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
GCTTGTGACAAATCTTTGAT+AGG 0.326468 2:+62404462 None:intergenic
TGAAGTAATTACTTACAAAT+TGG 0.332466 2:-62404619 MsaT009612.1:CDS
GGCTATGAATGGAGAAAGTA+TGG 0.339396 2:-62390870 MsaT009612.1:CDS
TTGAAGGATGTTGTTGAATC+TGG 0.341475 2:+62404706 None:intergenic
GTATCCTCAACTTCAAGCTT+TGG 0.356206 2:+62404432 None:intergenic
TATCCTCAACTTCAAGCTTT+GGG 0.383267 2:+62404433 None:intergenic
TAAGATCAAAAGCACTTACT+TGG 0.396882 2:-62390923 MsaT009612.1:intron
ATTTCCTTTCTCCAGTTTGA+AGG 0.404054 2:+62404690 None:intergenic
TGCTCAAGATCTTGCTAAGA+AGG 0.423276 2:-62404556 MsaT009612.1:CDS
ATGAAACAAAAGCTAATTAG+AGG 0.424324 2:-62404666 MsaT009612.1:CDS
TTCAACAACATCCTTCAAAC+TGG 0.426733 2:-62404701 MsaT009612.1:CDS
TTAGCAAGATCTTGAGCAAA+GGG 0.464218 2:+62404561 None:intergenic
TTGCCCAAAGCTTGAAGTTG+AGG 0.497135 2:-62404436 MsaT009612.1:CDS
AGAAGATTATAAAGCTTGCA+AGG 0.506891 2:-62404409 MsaT009612.1:CDS
TGTTTGAAGATGGCTATGAA+TGG 0.519567 2:-62390881 MsaT009612.1:CDS
ACATCCTTCAAACTGGAGAA+AGG 0.530528 2:-62404694 MsaT009612.1:CDS
GAAGATTATAAAGCTTGCAA+GGG 0.531348 2:-62404408 MsaT009612.1:CDS
TAATCAATGCAAAATACCTC+AGG 0.531627 2:-62390836 MsaT009612.1:intron
AAGATCAAAAGCACTTACTT+GGG 0.571753 2:-62390922 MsaT009612.1:CDS
AAAAGCACTTACTTGGGAGA+AGG 0.572656 2:-62390916 MsaT009612.1:CDS
CTTAGCAAGATCTTGAGCAA+AGG 0.579837 2:+62404560 None:intergenic
GTAATTGATCTAAATCTCCA+TGG 0.593575 2:+62404583 None:intergenic
TGATCTAAATCTCCATGGTG+AGG 0.622472 2:+62404588 None:intergenic
TTGGTCAATATTCCTCACCA+TGG 0.642266 2:-62404600 MsaT009612.1:CDS
TAGTAATGATGTCTTCAATG+AGG 0.677130 2:-62404493 MsaT009612.1:CDS

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
Chromosome Type Strat End Strand Name
Chr2 gene 62387418 62404733 62387418 ID=MsaG009612
Chr2 mRNA 62387418 62404733 62387418 ID=MsaT009612.1;Parent=MsaG009612
Chr2 exon 62387418 62387427 62387418 ID=MsaT009612.1.exon3;Parent=MsaT009612.1
Chr2 CDS 62387418 62387427 62387418 ID=cds.MsaT009612.1;Parent=MsaT009612.1
Chr2 exon 62390837 62390941 62390837 ID=MsaT009612.1.exon2;Parent=MsaT009612.1
Chr2 CDS 62390837 62390941 62390837 ID=cds.MsaT009612.1;Parent=MsaT009612.1
Chr2 exon 62404375 62404733 62404375 ID=MsaT009612.1.exon1;Parent=MsaT009612.1
Chr2 CDS 62404375 62404733 62404375 ID=cds.MsaT009612.1;Parent=MsaT009612.1
Gene Sequence

>MsaT009612.1

ATGGACCAGATTCAACAACATCCTTCAAACTGGAGAAAGGAAATTATGAAACAAAAGCTAATTAGAGGTCGTGACACAGCAAATCAATTACTTGAAGTAATTACTTACAAATTGGTCAATATTCCTCACCATGGAGATTTAGATCAATTACCCTTTGCTCAAGATCTTGCTAAGAAGGTACTTAGATCATTCACAAATTCTCTTTTTCTATTGAACACTAGTAATGATGTCTTCAATGAGGAGTTTTTGCCTATCAAAGATTTGTCACAAGCAAATTGCCCAAAGCTTGAAGTTGAGGATACAGAAGATTATAAAGCTTGCAAGGGTTTTAAAACTCAAAGAGGCTGCTCCAAAAGAAAATCAAAAGCACTTACTTGGGAGAAGGATAGCTCAATTTTGTTTGAAGATGGCTATGAATGGAGAAAGTATGGACAAAAGAAGATAATCAATGCAAAATACCTCAGGAGAAAATAA
Protein sequence

>MsaT009612.1

MDQIQQHPSNWRKEIMKQKLIRGRDTANQLLEVITYKLVNIPHHGDLDQLPFAQDLAKKVLRSFTNSLFLLNTSNDVFNEEFLPIKDLSQANCPKLEVEDTEDYKACKGFKTQRGCSKRKSKALTWEKDSSILFEDGYEWRKYGQKKIINAKYLRRK*