AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa ssp. caerulea / MsaG043317

Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsaG043317 MtrunA17_Chr8g0362331 92.821 195 10 1 6 196 73 267 4.48e-128 361
MsaG043317 MtrunA17_Chr5g0416091 62.827 191 66 2 7 196 75 261 6.75e-84 249
MsaG043317 MtrunA17_Chr7g0274781 36.364 198 117 3 2 196 35 226 7.27e-48 156
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsaG043317 AT1G14410.1 71.123 187 54 0 10 196 77 263 1.39e-101 294
MsaG043317 AT2G02740.1 69.892 186 55 1 12 196 83 268 7.06e-96 280
MsaG043317 AT1G71260.1 43.293 164 93 0 13 176 53 216 6.42e-51 164

Find 57 sgRNAs with CRISPR-Local

Find sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
TGCGGAATACTCCGGATTTA+TGG 0.234925 8:+43250259 None:intergenic
AGCAGCCTTCCCTTTGTAAA+TGG 0.248567 8:+43253448 None:intergenic
ACCACCGGAATTTGCGCCTT+TGG 0.304072 8:-43253408 MsaT043317.1:CDS
TATATCATGCCATACCTTCT+AGG 0.331839 8:-43250302 MsaT043317.1:CDS
CAGGGGCATACAAGATATCT+AGG 0.351989 8:-43252879 MsaT043317.1:CDS
TGTATCTAAAGCAGAGTTAT+CGG 0.376960 8:-43251004 MsaT043317.1:CDS
CAAAGGTATGCCAACCTAGA+AGG 0.381461 8:+43250288 None:intergenic
ACATCCAAAGGCGCAAATTC+CGG 0.383906 8:+43253404 None:intergenic
GATAACTCTGCTTTAGATAC+AGG 0.397032 8:+43251006 None:intergenic
AACAATGCTAATCCAAGATA+TGG 0.413675 8:-43250230 MsaT043317.1:CDS
CTTCAGTTTGCGCCCTCTGT+TGG 0.417534 8:-43252841 MsaT043317.1:CDS
CATGTTATCTGTGGATGAAA+TGG 0.422705 8:-43252205 MsaT043317.1:CDS
TCGTAGTCTCCACCATATCT+TGG 0.423400 8:+43250218 None:intergenic
TTGGTCCACGTCAATATGAT+TGG 0.450450 8:-43252822 MsaT043317.1:CDS
AGTTGGAGCTTTGCCACCTA+GGG 0.463185 8:-43253486 MsaT043317.1:CDS
GGCGCAAATTCCGGTGGTCT+AGG 0.463296 8:+43253413 None:intergenic
TAGTTGGAGCTTTGCCACCT+AGG 0.466878 8:-43253487 MsaT043317.1:CDS
CTTTGCAAACTCCATAAATC+CGG 0.480571 8:-43250270 MsaT043317.1:CDS
ATATGATTGGAATAGAAAAC+AGG 0.497404 8:-43252809 MsaT043317.1:intron
AAACCAGAACCATCCGGAAA+AGG 0.498684 8:+43251553 None:intergenic
AGACTACGAATGGAACAGAT+AGG 0.502738 8:-43250204 None:intergenic
TTGGTCATTCCATTTACAAA+GGG 0.507287 8:-43253457 MsaT043317.1:CDS
AACTACCTTCCGCCTTTGAA+AGG 0.515428 8:+43252132 None:intergenic
GTGTGATTAGCCTTGGTGCA+AGG 0.517803 8:-43252179 MsaT043317.1:CDS
ATGTTATCTGTGGATGAAAT+GGG 0.526542 8:-43252204 MsaT043317.1:CDS
CGGATTTATGGAGTTTGCAA+AGG 0.530016 8:+43250271 None:intergenic
TTGCCACCTAGGGTTTATGT+TGG 0.531185 8:-43253476 MsaT043317.1:CDS
GTATGCCAACCTAGAAGGTA+TGG 0.531319 8:+43250293 None:intergenic
CACTATCACTCCTAGACCAC+CGG 0.536143 8:-43253423 MsaT043317.1:CDS
GTTGGTCATTCCATTTACAA+AGG 0.542041 8:-43253458 MsaT043317.1:CDS
TGTGATTAGCCTTGGTGCAA+GGG 0.548806 8:-43252178 MsaT043317.1:CDS
TTCGCCGCTGCGGAATACTC+CGG 0.560202 8:+43250251 None:intergenic
TCATGCCATACCTTCTAGGT+TGG 0.568540 8:-43250298 MsaT043317.1:CDS
TCATTCCATTTACAAAGGGA+AGG 0.568592 8:-43253453 MsaT043317.1:CDS
TGATGAAGGCAAAGTCAGAA+AGG 0.570422 8:-43251590 MsaT043317.1:CDS
ACTATGGATAATGAAATTGT+TGG 0.577127 8:-43253590 MsaT043317.1:intron
CTATTCCAATCATATTGACG+TGG 0.581031 8:+43252817 None:intergenic
GACTACGAATGGAACAGATA+GGG 0.588595 8:-43250203 None:intergenic
ATTAGCATTGTTCGCCGCTG+CGG 0.595298 8:+43250241 None:intergenic
TCAAGACAAAACTGCGAACG+TGG 0.600551 8:-43251046 MsaT043317.1:CDS
AATGCTAATCCAAGATATGG+TGG 0.607036 8:-43250227 MsaT043317.1:CDS
ATGGGAAGTGTGATTAGCCT+TGG 0.609938 8:-43252186 MsaT043317.1:CDS
ATGATCCTTTCAAAGGCGGA+AGG 0.610678 8:-43252137 MsaT043317.1:intron
TTTCATGATCCTTTCAAAGG+CGG 0.614878 8:-43252141 MsaT043317.1:CDS
GAATGACCAACATAAACCCT+AGG 0.616287 8:+43253470 None:intergenic
AGGGGCATACAAGATATCTA+GGG 0.628813 8:-43252878 MsaT043317.1:CDS
ACGCTTATACTTACATCCAA+AGG 0.634632 8:+43253392 None:intergenic
TATTGACGTGGACCAACAGA+GGG 0.638400 8:+43252829 None:intergenic
ATAACTCTGCTTTAGATACA+GGG 0.647998 8:+43251007 None:intergenic
GCAGCTGTTCATGTTATCTG+TGG 0.648047 8:-43252214 MsaT043317.1:intron
TCCAAAGGCGCAAATTCCGG+TGG 0.648910 8:+43253407 None:intergenic
GATATGGTGGAGACTACGAA+TGG 0.656703 8:-43250214 MsaT043317.1:CDS
ATATTGACGTGGACCAACAG+AGG 0.661885 8:+43252828 None:intergenic
GCATACAAGATATCTAGGGA+TGG 0.666950 8:-43252874 MsaT043317.1:CDS
CACAAGACTCCCTTGCACCA+AGG 0.667591 8:+43252169 None:intergenic
TGACCAACATAAACCCTAGG+TGG 0.694993 8:+43253473 None:intergenic
AAATCCGGAGTATTCCGCAG+CGG 0.752636 8:-43250255 MsaT043317.1:CDS

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
Chromosome Type Strat End Strand Name
Chr8 gene 43250205 43253609 43250205 ID=MsaG043317
Chr8 mRNA 43250205 43253609 43250205 ID=MsaT043317.1;Parent=MsaG043317
Chr8 exon 43250205 43250324 43250205 ID=MsaT043317.1.exon7;Parent=MsaT043317.1
Chr8 CDS 43250205 43250324 43250205 ID=cds.MsaT043317.1;Parent=MsaT043317.1
Chr8 exon 43250984 43251072 43250984 ID=MsaT043317.1.exon6;Parent=MsaT043317.1
Chr8 CDS 43250984 43251072 43250984 ID=cds.MsaT043317.1;Parent=MsaT043317.1
Chr8 exon 43251539 43251612 43251539 ID=MsaT043317.1.exon5;Parent=MsaT043317.1
Chr8 CDS 43251539 43251612 43251539 ID=cds.MsaT043317.1;Parent=MsaT043317.1
Chr8 exon 43252138 43252232 43252138 ID=MsaT043317.1.exon4;Parent=MsaT043317.1
Chr8 CDS 43252138 43252232 43252138 ID=cds.MsaT043317.1;Parent=MsaT043317.1
Chr8 exon 43252810 43252902 43252810 ID=MsaT043317.1.exon3;Parent=MsaT043317.1
Chr8 CDS 43252810 43252902 43252810 ID=cds.MsaT043317.1;Parent=MsaT043317.1
Chr8 exon 43253406 43253506 43253406 ID=MsaT043317.1.exon2;Parent=MsaT043317.1
Chr8 CDS 43253406 43253506 43253406 ID=cds.MsaT043317.1;Parent=MsaT043317.1
Chr8 exon 43253591 43253609 43253591 ID=MsaT043317.1.exon1;Parent=MsaT043317.1
Chr8 CDS 43253591 43253609 43253591 ID=cds.MsaT043317.1;Parent=MsaT043317.1
Gene Sequence

>MsaT043317.1

ATGGATAATGAAATTGTTGTTGGAGCTTTGCCACCTAGGGTTTATGTTGGTCATTCCATTTACAAAGGGAAGGCTGCTCTCACTATCACTCCTAGACCACCGGAATTTGCGCCTTTGGATTCAGGGGCATACAAGATATCTAGGGATGGTTGTTTGCTGCTTCAGTTTGCGCCCTCTGTTGGTCCACGTCAATATGATTGGAATAGAAAACAGCTGTTCATGTTATCTGTGGATGAAATGGGAAGTGTGATTAGCCTTGGTGCAAGGGAGTCTTGTGAATTTTTTCATGATCCTTTCAAAGGCGGAAGTGATGAAGGCAAAGTCAGAAAGGTTTTGAAGATTGAGCCTTTTCCGGATGGTTCTGGTTTCTTTTTTAACCTCAGTGTTCAAGACAAAACTGCGAACGTGGATGTAAGCATGAATATCCCTGTATCTAAAGCAGAGTTATCGGTTCTACGCTCAATTTTCAAGTATATCATGCCATACCTTCTAGGTTGGCATACCTTTGCAAACTCCATAAATCCGGAGTATTCCGCAGCGGCGAACAATGCTAATCCAAGATATGGTGGAGACTACGAATGGAACAGATAG
Protein sequence

>MsaT043317.1

MDNEIVVGALPPRVYVGHSIYKGKAALTITPRPPEFAPLDSGAYKISRDGCLLLQFAPSVGPRQYDWNRKQLFMLSVDEMGSVISLGARESCEFFHDPFKGGSDEGKVRKVLKIEPFPDGSGFFFNLSVQDKTANVDVSMNIPVSKAELSVLRSIFKYIMPYLLGWHTFANSINPEYSAAANNANPRYGGDYEWNR*