AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa ssp. caerulea / MsaG020682

Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsaG020682 MtrunA17_Chr4g0029841 84.615 169 14 1 87 255 61 217 3.31e-98 288
MsaG020682 MtrunA17_Chr5g0447111 35.075 268 150 10 2 255 7 264 6.61e-36 130
MsaG020682 MtrunA17_Chr3g0103031 30.943 265 164 7 3 255 6 263 1.96e-31 118
MsaG020682 MtrunA17_Chr3g0124921 28.782 271 171 7 1 258 1 262 4.37e-20 87.8
MsaG020682 MtrunA17_Chr5g0447191 47.917 96 46 1 160 251 27 122 3.53e-19 82.8
MsaG020682 MtrunA17_Chr1g0159831 28.464 267 168 9 5 255 6 265 2.02e-17 80.5
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsaG020682 AT1G55760.1 30.943 265 165 7 2 255 5 262 1.48e-30 116
MsaG020682 AT1G21780.2 27.547 265 167 9 5 255 6 259 1.91e-18 83.6
MsaG020682 AT1G21780.1 27.547 265 167 9 5 255 6 259 1.91e-18 83.6

Find 47 sgRNAs with CRISPR-Local

Find sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
GAAGAATCTTTCCGCGCTAA+TGG 0.291784 4:-56997171 MsaT020682.1:CDS
TTGAACCAAGAGCAAACTTA+TGG 0.314969 4:+56997052 None:intergenic
TGCATCTAAACAAACTATTA+TGG 0.335324 4:-56997076 MsaT020682.1:CDS
GAATGTATCGGATATGTGTT+TGG 0.335881 4:+56998377 None:intergenic
CAGTGGGTTACCTTGCTCAT+TGG 0.357342 4:-56998434 MsaT020682.1:CDS
TGATGTAATTGATCTGATAA+AGG 0.372083 4:-56996860 MsaT020682.1:CDS
TGAACCAAGAGCAAACTTAT+GGG 0.415322 4:+56997053 None:intergenic
ATGGCCCATAAGTTTGCTCT+TGG 0.423668 4:-56997057 MsaT020682.1:CDS
TCTTTATCTCCTCGAATCAA+TGG 0.456728 4:+56997117 None:intergenic
CTAATTTGAAAAGATGCAAT+GGG 0.468513 4:+56998161 None:intergenic
TATCCCAATTATAAAATTGT+GGG 0.469552 4:-56998197 MsaT020682.1:CDS
AATGTATCGGATATGTGTTT+GGG 0.487287 4:+56998378 None:intergenic
TCCGATGATCCATTGATTCG+AGG 0.496781 4:-56997126 MsaT020682.1:CDS
GTATCCCAATTATAAAATTG+TGG 0.499736 4:-56998198 MsaT020682.1:CDS
ACCTCAATGTAGTATGCCTC+AGG 0.505531 4:+56997363 None:intergenic
CCTAATTTGAAAAGATGCAA+TGG 0.514627 4:+56998160 None:intergenic
GAAAGTGGATGTCAACTACT+TGG 0.515256 4:-56998412 MsaT020682.1:CDS
CCCAATTATAAAATTGTGGG+TGG 0.521991 4:-56998194 MsaT020682.1:CDS
AGTCAAATTCTAGCCATGTC+AGG 0.532541 4:-56998113 MsaT020682.1:intron
GCCTATCTTGTCAAATCAGT+GGG 0.535790 4:-56998450 MsaT020682.1:CDS
TCCTCGAATCAATGGATCAT+CGG 0.540017 4:+56997125 None:intergenic
GCTCATAATTGATCTGATAG+AGG 0.540460 4:-56996824 MsaT020682.1:CDS
TGATAAAGGATATTGAGAAA+AGG 0.542250 4:-56996846 MsaT020682.1:CDS
ATGTAGAAGAAGTTAGAGAC+TGG 0.556201 4:-56997443 MsaT020682.1:intron
ACCCACTGATTTGACAAGAT+AGG 0.557206 4:+56998449 None:intergenic
TCAAAATTGATATGTGGCAG+TGG 0.558226 4:-56998356 MsaT020682.1:intron
AATAATGATATCTCGCTCGT+GGG 0.572526 4:-56998240 MsaT020682.1:CDS
ATACATTCAAAATTGATATG+TGG 0.583691 4:-56998362 MsaT020682.1:CDS
GAATAATGATATCTCGCTCG+TGG 0.590489 4:-56998241 MsaT020682.1:CDS
TTACCTTGCTCATTGGAAAG+TGG 0.591036 4:-56998427 MsaT020682.1:CDS
GGCCTATCTTGTCAAATCAG+TGG 0.591536 4:-56998451 MsaT020682.1:CDS
TATAGTAGTCATATCTGAGA+TGG 0.593241 4:+56996978 None:intergenic
CTACGATATCGTGAGAGACG+AGG 0.603148 4:-56996929 MsaT020682.1:CDS
TATAATTAAATCACCTGACA+TGG 0.604631 4:+56998100 None:intergenic
CATCCACTTTCCAATGAGCA+AGG 0.612077 4:+56998424 None:intergenic
TTTGAAAAGATGCAATGGGG+GGG 0.625376 4:+56998165 None:intergenic
ATCGCTTAAATCCATTAGCG+CGG 0.632936 4:+56997160 None:intergenic
ATTTGAAAAGATGCAATGGG+GGG 0.636859 4:+56998164 None:intergenic
AATTTGAAAAGATGCAATGG+GGG 0.637932 4:+56998163 None:intergenic
TAATCTATAAATATTTGACA+TGG 0.652304 4:+56996955 None:intergenic
TAATTTGAAAAGATGCAATG+GGG 0.657617 4:+56998162 None:intergenic
GGAACTTCTGAATTATAGTG+AGG 0.661567 4:-56996908 MsaT020682.1:CDS
GCCTGAGGCATACTACATTG+AGG 0.668232 4:-56997364 MsaT020682.1:CDS
GTGTGATATTGAGCTGCCTG+AGG 0.690565 4:-56997379 MsaT020682.1:CDS
ATAATGATATCTCGCTCGTG+GGG 0.700344 4:-56998239 MsaT020682.1:CDS
TTCAACTTAAGCTTAGAACG+AGG 0.728389 4:-56997417 MsaT020682.1:CDS
TCAAAGTCTTCAAGTCATAG+CGG 0.741786 4:+56996787 None:intergenic

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
Chromosome Type Strat End Strand Name
Chr4 gene 56996801 56998475 56996801 ID=MsaG020682
Chr4 mRNA 56996801 56998475 56996801 ID=MsaT020682.1;Parent=MsaG020682
Chr4 exon 56996801 56997196 56996801 ID=MsaT020682.1.exon4;Parent=MsaT020682.1
Chr4 CDS 56996801 56997196 56996801 ID=cds.MsaT020682.1;Parent=MsaT020682.1
Chr4 exon 56997329 56997456 56997329 ID=MsaT020682.1.exon3;Parent=MsaT020682.1
Chr4 CDS 56997329 56997456 56997329 ID=cds.MsaT020682.1;Parent=MsaT020682.1
Chr4 exon 56998114 56998265 56998114 ID=MsaT020682.1.exon2;Parent=MsaT020682.1
Chr4 CDS 56998114 56998265 56998114 ID=cds.MsaT020682.1;Parent=MsaT020682.1
Chr4 exon 56998357 56998475 56998357 ID=MsaT020682.1.exon1;Parent=MsaT020682.1
Chr4 CDS 56998357 56998475 56998357 ID=cds.MsaT020682.1;Parent=MsaT020682.1
Gene Sequence

>MsaT020682.1

ATGGCCTATCTTGTCAAATCAGTGGGTTACCTTGCTCATTGGAAAGTGGATGTCAACTACTTGGATCAGAATGAACCCAAACACATATCCGATACATTCAAAATTGATATGTGGCAGTGGAGAATAATGATATCTCGCTCGTGGGGTGCTTCTAATATCTCATTGTATCCCAATTATAAAATTGTGGGTGGTTTAAACCCCCCCATTGCATCTTTTCAAATTAGGGTTTTGGACACCATCGGAAAACAAAGTCAAATTCTAGCCATGTCAGAAGTTAGAGACTGGCAGTTCAACTTAAGCTTAGAACGAGGCACTTTTACTTGGATGTGTGATATTGAGCTGCCTGAGGCATACTACATTGAGGTAGAGTTCTCAAGTTTGCAATCTTCAAACACAGCTAACGAAGAATCTTTCCGCGCTAATGGATTTAAGCGATATAAATTATCATCCGATGATCCATTGATTCGAGGAGATAAAGACACAACAATCTATGTTGATGCATCTAAACAAACTATTATGGCCCATAAGTTTGCTCTTGGTTCAAAGTCAAGTGTTTTTAAGCAAATGTTCAAGGAGGATTCTGTTGATAGTATTACCATCTCAGATATGACTACTATACCATGTCAAATATTTATAGATTACTTCTACGATATCGTGAGAGACGAGGAACTTCTGAATTATAGTGAGGAGTTATTAGAAGCTGCAAAGAAATATGATGTAATTGATCTGATAAAGGATATTGAGAAAAGGCTCATAATTGATCTGATAGAGGATGAAGATAGCATACCGCTATGA
Protein sequence

>MsaT020682.1

MAYLVKSVGYLAHWKVDVNYLDQNEPKHISDTFKIDMWQWRIMISRSWGASNISLYPNYKIVGGLNPPIASFQIRVLDTIGKQSQILAMSEVRDWQFNLSLERGTFTWMCDIELPEAYYIEVEFSSLQSSNTANEESFRANGFKRYKLSSDDPLIRGDKDTTIYVDASKQTIMAHKFALGSKSSVFKQMFKEDSVDSITISDMTTIPCQIFIDYFYDIVRDEELLNYSEELLEAAKKYDVIDLIKDIEKRLIIDLIEDEDSIPL*