AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa ssp. caerulea / MsaG005843


Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsaG005843 MtrunA17_Chr1g0212471 72.487 189 48 2 1 187 1 187 8.68e-95 274
MsaG005843 MtrunA17_Chr4g0022641 56.481 216 80 5 1 206 1 212 7.86e-77 236
MsaG005843 MtrunA17_Chr4g0059631 50.000 226 89 4 1 206 1 222 1.15e-64 200
MsaG005843 MtrunA17_Chr2g0303981 43.299 194 95 4 3 193 5 186 3.49e-47 154
MsaG005843 MtrunA17_Chr6g0457851 35.849 159 99 2 1 157 11 168 2.27e-32 119
MsaG005843 MtrunA17_Chr1g0212151 37.736 159 96 2 1 157 1 158 3.79e-32 119
MsaG005843 MtrunA17_Chr6g0449851 35.465 172 108 2 1 170 1 171 3.42e-31 115
MsaG005843 MtrunA17_Chr6g0449861 31.111 180 121 2 1 178 9 187 2.11e-28 109
MsaG005843 MtrunA17_Chr3g0107381 25.373 201 120 7 1 189 1 183 1.08e-12 64.7
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsaG005843 AT5G55690.1 33.557 149 75 5 1 141 1 133 2.57e-14 70.5
MsaG005843 AT5G55690.2 33.557 149 75 5 1 141 1 133 2.57e-14 70.5

Find 31 sgRNAs with CRISPR-Local

Find sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
TTTACAATTGTATGGTCTTC+TGG 0.253429 1:-85812290 None:intergenic
TGGTCTTCTGGCCATGTTAT+TGG 0.266179 1:-85812278 None:intergenic
TCCAGTCTTGTTAGTGTATT+GGG 0.267250 1:-85812195 None:intergenic
TCTTCCATCTTAATTAAATC+TGG 0.297958 1:-85812461 None:intergenic
CTCCAGTCTTGTTAGTGTAT+TGG 0.305175 1:-85812196 None:intergenic
GTCGTTGACATCAAATATCT+TGG 0.367645 1:-85812351 None:intergenic
TCCATGTGTTGTTGCATTTG+AGG 0.399480 1:-85812623 None:intergenic
GCATCCAGATTTAATTAAGA+TGG 0.417713 1:+85812457 MsaT005843.1:CDS
GCATAGAGTTTACAATTGTA+TGG 0.435000 1:-85812298 None:intergenic
TGGAATTTGTAGAATGGGTC+GGG 0.450805 1:+85812085 None:intergenic
ATTAAATCTGGATGCCAAGT+TGG 0.464493 1:-85812449 None:intergenic
CTTGGGTGTTTCAATCACTT+TGG 0.465321 1:-85812333 None:intergenic
GATGATAGCTTTATGCACTT+TGG 0.469421 1:-85812414 None:intergenic
ATCATGTGTTTAAATCAAGT+TGG 0.487349 1:-85812709 None:intergenic
TTGGAATTTGTAGAATGGGT+CGG 0.500741 1:+85812084 None:intergenic
TGATGAATTATGAGGCAAAC+CGG 0.501798 1:-85812681 None:intergenic
TGGTTTGTTGATGAATTATG+AGG 0.510382 1:-85812689 None:intergenic
TGAACGACACTAAGTGGGCT+TGG 0.514956 1:-85812593 None:intergenic
TCCCAATACACTAACAAGAC+TGG 0.520688 1:+85812194 MsaT005843.1:CDS
TCGTTGACATCAAATATCTT+GGG 0.530959 1:-85812350 None:intergenic
ACCTCAAATGCAACAACACA+TGG 0.539597 1:+85812622 MsaT005843.1:CDS
ATGCTATGAACGACACTAAG+TGG 0.542543 1:-85812599 None:intergenic
TCGATATCATGTATCCAACT+TGG 0.557370 1:+85812435 MsaT005843.1:CDS
GATTGCTGTTATAAATGCAA+AGG 0.578620 1:+85812502 MsaT005843.1:CDS
GATGATGGTGGTAATAATGC+GGG 0.602556 1:+85812254 MsaT005843.1:CDS
GGATGATATTAGTGAGACGA+TGG 0.621537 1:+85812643 MsaT005843.1:CDS
TAACATGTTGAAAAGTGAGA+TGG 0.625075 1:+85812547 MsaT005843.1:CDS
TGCTATGAACGACACTAAGT+GGG 0.625498 1:-85812598 None:intergenic
ATGGATATGACTAATCATGC+CGG 0.642387 1:+85812662 MsaT005843.1:CDS
ATAATGCGGGACCAATAACA+TGG 0.644832 1:+85812267 MsaT005843.1:CDS
TGATGATGGTGGTAATAATG+CGG 0.705229 1:+85812253 MsaT005843.1:CDS

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
Chromosome Type Strat End Strand Name
Chr1 gene 85812098 85812730 85812098 ID=MsaG005843
Chr1 mRNA 85812098 85812730 85812098 ID=MsaT005843.1;Parent=MsaG005843
Chr1 exon 85812098 85812730 85812098 ID=MsaT005843.1.exon1;Parent=MsaT005843.1
Chr1 CDS 85812098 85812730 85812098 ID=cds.MsaT005843.1;Parent=MsaT005843.1
Gene Sequence

>MsaT005843.1

ATGGGTCGGGCGAAAATAACTATGAAATACATCAAAAATAAGAAAAATCGCAAAAATACTTTCAAGCAAAGGAAAAATGGACTCATAAAGAAAATTTCCCAATACACTAACAAGACTGGAGCAAAAGCTTGCTTGATTGTGTATGATGATGATGATGATGATGGTGGTAATAATGCGGGACCAATAACATGGCCAGAAGACCATACAATTGTAAACTCTATGCTTCAAGAGTTTACCAAAGTGATTGAAACACCCAAGATATTTGATGTCAACGACTACTTTGAAAATAAGAAAAAAATGGTTGAAACTGAGATTACCAAAGTGCATAAAGCTATCATCGATATCATGTATCCAACTTGGCATCCAGATTTAATTAAGATGGAAGAGAGTGAACTCAAAGACTTGATTGCTGTTATAAATGCAAAGGTAGATGCTTGTAATCTCAAAATTAACATGTTGAAAAGTGAGATGGTGAAAGAGAATGTTGTTTTGAATCCAAGCCCACTTAGTGTCGTTCATAGCATACCTCAAATGCAACAACACATGGATGATATTAGTGAGACGATGGATATGACTAATCATGCCGGTTTGCCTCATAATTCATCAACAAACCAACTTGATTTAAACACATGA

Protein sequence

>MsaT005843.1

MGRAKITMKYIKNKKNRKNTFKQRKNGLIKKISQYTNKTGAKACLIVYDDDDDDGGNNAGPITWPEDHTIVNSMLQEFTKVIETPKIFDVNDYFENKKKMVETEITKVHKAIIDIMYPTWHPDLIKMEESELKDLIAVINAKVDACNLKINMLKSEMVKENVVLNPSPLSVVHSIPQMQQHMDDISETMDMTNHAGLPHNSSTNQLDLNT*