AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa ssp. caerulea / MsaG042511


Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsaG042511 MtrunA17_Chr8g0353111 98.990 99 1 0 5 103 229 327 1.39e-68 208
MsaG042511 MtrunA17_Chr3g0082511 77.320 97 18 4 7 102 235 328 1.88e-41 138
MsaG042511 MtrunA17_Chr5g0441921 58.571 70 28 1 5 74 223 291 6.53e-22 87.8
MsaG042511 MtrunA17_Chr5g0404781 50.000 52 26 0 9 60 202 253 1.07e-11 59.3
MsaG042511 MtrunA17_Chr8g0372461 53.191 47 22 0 12 58 204 250 5.59e-11 57.4
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsaG042511 AT5G12330.1 46.739 92 48 1 7 98 218 308 5.68e-21 85.1
MsaG042511 AT5G12330.2 46.739 92 48 1 7 98 218 308 5.68e-21 85.1
MsaG042511 AT5G12330.4 46.739 92 48 1 7 98 305 395 7.39e-21 85.9
MsaG042511 AT3G54430.1 56.061 66 27 2 7 71 118 182 3.62e-17 72.8
MsaG042511 AT1G19790.2 57.447 47 20 0 12 58 223 269 2.29e-12 61.6
MsaG042511 AT1G19790.1 57.447 47 20 0 12 58 223 269 2.29e-12 61.6
MsaG042511 AT1G75520.1 56.863 51 20 1 10 58 232 282 5.80e-12 60.5
MsaG042511 AT5G66350.1 48.148 54 28 0 12 65 214 267 5.86e-11 57.8
MsaG042511 AT5G66350.3 48.148 54 28 0 12 65 214 267 5.97e-11 57.8
MsaG042511 AT5G66350.2 48.148 54 28 0 12 65 214 267 6.27e-11 57.8
MsaG042511 AT2G18120.2 47.059 51 27 0 12 62 156 206 7.02e-11 57.0
MsaG042511 AT2G18120.1 47.059 51 27 0 12 62 158 208 7.69e-11 56.6
MsaG042511 AT3G51060.1 53.333 45 21 0 12 56 238 282 8.61e-11 57.4

Find 21 sgRNAs with CRISPR-Local

Find sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
TGAAGATGAACTTGCTTACT+TGG 0.373159 8:+23206965 MsaT042511.1:CDS
TGCCAATAGCAGATACTCTA+TGG 0.417109 8:-23206938 None:intergenic
TTGGCTACTGTGAATATTAG+TGG 0.419206 8:+23206984 MsaT042511.1:CDS
ATGTTCTTCCTCTGCAATTG+AGG 0.420350 8:+23207121 MsaT042511.1:CDS
TGCCATAGAGTATCTGCTAT+TGG 0.440334 8:+23206936 MsaT042511.1:CDS
GAATTGCAACTTGGAAGTAA+TGG 0.469782 8:+23207077 MsaT042511.1:CDS
CAATCTCAACAAGCAGAAGC+AGG 0.470698 8:-23207161 None:intergenic
AAAGGGTTTCTCTATGATCA+AGG 0.488489 8:+23207017 MsaT042511.1:CDS
ATTAGTGGCCATGTATTCAA+AGG 0.512383 8:+23206999 MsaT042511.1:CDS
GAAGCAGGGTAAGCACTAGT+TGG 0.512667 8:-23207146 None:intergenic
CAACTTGGAAGTAATGGAAG+TGG 0.519956 8:+23207083 MsaT042511.1:CDS
AGAGAAACCCTTTGAATACA+TGG 0.531479 8:-23207007 None:intergenic
TTAGTGGCCATGTATTCAAA+GGG 0.533384 8:+23207000 MsaT042511.1:CDS
GGCAAAGTCTGCTTGAAACC+AGG 0.539099 8:-23206882 None:intergenic
GCAGGCGCGCGAACATAGCG+CGG 0.551999 8:-23206903 None:intergenic
CTATGGCACTTGAAAACAGC+AGG 0.559201 8:-23206921 None:intergenic
AGAGTATCTGCTATTGGCAA+TGG 0.570693 8:+23206942 MsaT042511.1:CDS
TGTGTTTCAGAATTGCAACT+TGG 0.580875 8:+23207068 MsaT042511.1:CDS
AATCTCAACAAGCAGAAGCA+GGG 0.625538 8:-23207160 None:intergenic
AGTTGGAACCTCAATTGCAG+AGG 0.675832 8:-23207129 None:intergenic
AGTTGCAATTCTGAAACACA+AGG 0.685469 8:-23207065 None:intergenic

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
Chromosome Type Strat End Strand Name
Chr8 gene 23206256 23207178 23206256 ID=MsaG042511
Chr8 mRNA 23206256 23207178 23206256 ID=MsaT042511.1;Parent=MsaG042511
Chr8 exon 23206256 23206268 23206256 ID=MsaT042511.1.exon1;Parent=MsaT042511.1
Chr8 CDS 23206256 23206268 23206256 ID=cds.MsaT042511.1;Parent=MsaT042511.1
Chr8 exon 23206880 23207178 23206880 ID=MsaT042511.1.exon2;Parent=MsaT042511.1
Chr8 CDS 23206880 23207178 23206880 ID=cds.MsaT042511.1;Parent=MsaT042511.1
Gene Sequence

>MsaT042511.1

ATGTGGACTCCAAATCCTGGTTTCAAGCAGACTTTGCCGCGCTATGTTCGCGCGCCTGCTGTTTTCAAGTGCCATAGAGTATCTGCTATTGGCAATGGTGAAGATGAACTTGCTTACTTGGCTACTGTGAATATTAGTGGCCATGTATTCAAAGGGTTTCTCTATGATCAAGGTGTTGATGACAAAAATGAAACAATGCCTTGTGTTTCAGAATTGCAACTTGGAAGTAATGGAAGTGGAAAGAGTAATAGAGAATGTTCTTCCTCTGCAATTGAGGTTCCAACTAGTGCTTACCCTGCTTCTGCTTGTTGA

Protein sequence

>MsaT042511.1

MWTPNPGFKQTLPRYVRAPAVFKCHRVSAIGNGEDELAYLATVNISGHVFKGFLYDQGVDDKNETMPCVSELQLGSNGSGKSNRECSSSAIEVPTSAYPASAC*