AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa ssp. caerulea / MsaG010440

Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsaG010440 MtrunA17_Chr2g0324511 82.209 163 19 2 1 153 1 163 2.88e-90 262
MsaG010440 MtrunA17_Chr4g0040201 66.495 194 57 4 9 194 8 201 1.23e-84 249
MsaG010440 MtrunA17_Chr2g0324521 86.957 115 9 2 45 153 2 116 1.34e-63 193
MsaG010440 MtrunA17_Chr2g0324571 80.342 117 15 1 45 153 2 118 3.12e-62 189
MsaG010440 MtrunA17_Chr2g0324531 86.441 59 8 0 152 210 2 60 4.26e-31 108
MsaG010440 MtrunA17_Chr2g0282341 39.552 134 69 3 48 173 4 133 4.51e-28 103
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsaG010440 AT4G20970.1 40.884 181 87 6 12 175 11 188 4.96e-34 120
MsaG010440 AT1G10585.1 29.825 171 114 3 7 175 9 175 1.85e-15 71.6
MsaG010440 AT1G10586.1 26.471 170 119 3 7 174 9 174 1.91e-12 63.5
MsaG010440 AT5G51780.1 30.247 162 99 3 21 169 10 170 2.12e-11 60.5
MsaG010440 AT5G51780.2 30.247 162 99 3 21 169 33 193 3.40e-11 60.5

Find 43 sgRNAs with CRISPR-Local

Find sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
CCGCAAACTTTGTTACAATT+TGG 0.160686 2:-73455088 MsaT010440.1:CDS
TATCTCTTCAAATTCTTCTT+TGG 0.234992 2:-73455823 MsaT010440.1:CDS
CAATTGTGGGATCTTGAAAT+TGG 0.244456 2:-73454995 MsaT010440.1:CDS
AACAAGAAAGAAAGTTTAAA+AGG 0.273993 2:-73455978 MsaT010440.1:CDS
AGAGAAGAAAGAAAGTTTAA+TGG 0.275748 2:-73456003 MsaT010440.1:CDS
ATATTTCTTAATTAAGGATT+TGG 0.279536 2:+73454926 None:intergenic
GAGAGTTGAGTTTGGAATAG+AGG 0.319433 2:+73457305 None:intergenic
AGAGTTTGTGAACGGATCTA+TGG 0.326191 2:-73455038 MsaT010440.1:CDS
TCTTCCTAGCTATAATTCTA+AGG 0.332366 2:-73457281 MsaT010440.1:intron
AGGAAGAAGAGAGTTGAGTT+TGG 0.335218 2:+73457297 None:intergenic
GAGAAGAAAGAAAGTTTAAT+GGG 0.355968 2:-73456002 MsaT010440.1:CDS
CCAACTTTAGATTTGTCTCT+AGG 0.356186 2:+73456030 None:intergenic
TCTTCAAATTCTTCTTTGGC+TGG 0.403407 2:-73455819 MsaT010440.1:CDS
AACAACCTTTCTTTCGACTT+TGG 0.406325 2:+73457357 None:intergenic
CTTTCGACTTTGGTTGAAGA+AGG 0.411324 2:+73457367 None:intergenic
TAATTTCACAGAAAATAAAA+TGG 0.425918 2:+73455877 None:intergenic
ATAGCCTCATCTACTTGATC+AGG 0.429867 2:+73456068 None:intergenic
TTGAAATTGGATCTGAGAGT+TGG 0.440265 2:-73454982 MsaT010440.1:CDS
CCAAATTGTAACAAAGTTTG+CGG 0.448789 2:+73455088 None:intergenic
TTCAACCAAAGTCGAAAGAA+AGG 0.454979 2:-73457362 MsaT010440.1:CDS
AAAATAGAGATTCATGAAAT+GGG 0.456591 2:-73455939 MsaT010440.1:CDS
TGAAATTGGATCTGAGAGTT+GGG 0.479805 2:-73454981 MsaT010440.1:CDS
CCTAGAGACAAATCTAAAGT+TGG 0.498284 2:-73456030 MsaT010440.1:CDS
ATTTCAAGATCCCACAATTG+AGG 0.509351 2:+73454998 None:intergenic
TTAAGGATTTGGTAAACTCA+TGG 0.514490 2:+73454937 None:intergenic
TCTTCATACCGTACATGCTC+AGG 0.517547 2:-73455787 MsaT010440.1:intron
TCATCTACTTGATCAGGTAA+TGG 0.522136 2:+73456074 None:intergenic
TGGAACATAATCAACAAGAA+TGG 0.524412 2:-73457393 MsaT010440.1:CDS
GAGTTTGTGAACGGATCTAT+GGG 0.526348 2:-73455037 MsaT010440.1:CDS
TATATATACCTGAGCATGTA+CGG 0.538419 2:+73455779 None:intergenic
TACAAGTGATTGTAACATGT+GGG 0.544345 2:-73455908 MsaT010440.1:CDS
GGAAACACAGCCTCAATTGT+GGG 0.559018 2:-73455008 MsaT010440.1:CDS
TGGAAACACAGCCTCAATTG+TGG 0.568137 2:-73455009 MsaT010440.1:CDS
TTCACCTTAGAATTATAGCT+AGG 0.582785 2:+73457277 None:intergenic
GAGCAATCAAAATAAGTGAG+AGG 0.593941 2:-73455066 MsaT010440.1:CDS
TGTTACAATCACTTGTAGAG+TGG 0.604182 2:+73455914 None:intergenic
GTTACAATCACTTGTAGAGT+GGG 0.605139 2:+73455915 None:intergenic
CTACAAGTGATTGTAACATG+TGG 0.615945 2:-73455909 MsaT010440.1:CDS
AGGTTGAAAGAGTTTGTGAA+CGG 0.618184 2:-73455046 MsaT010440.1:CDS
ATTACCTGATCAAGTAGATG+AGG 0.636526 2:-73456072 MsaT010440.1:CDS
GAACGGATCTATGGGCGATG+TGG 0.672622 2:-73455029 MsaT010440.1:CDS
ACAAGTGATTGTAACATGTG+GGG 0.739715 2:-73455907 MsaT010440.1:CDS
ACTGCATGAAGAGAACGTCG+AGG 0.768331 2:-73455847 MsaT010440.1:CDS

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
Chromosome Type Strat End Strand Name
Chr2 gene 73454937 73457416 73454937 ID=MsaG010440
Chr2 mRNA 73454937 73457416 73454937 ID=MsaT010440.1;Parent=MsaG010440
Chr2 exon 73454937 73455113 73454937 ID=MsaT010440.1.exon3;Parent=MsaT010440.1
Chr2 CDS 73454937 73455113 73454937 ID=cds.MsaT010440.1;Parent=MsaT010440.1
Chr2 exon 73455788 73456108 73455788 ID=MsaT010440.1.exon2;Parent=MsaT010440.1
Chr2 CDS 73455788 73456108 73455788 ID=cds.MsaT010440.1;Parent=MsaT010440.1
Chr2 exon 73457282 73457416 73457282 ID=MsaT010440.1.exon1;Parent=MsaT010440.1
Chr2 CDS 73457282 73457416 73457282 ID=cds.MsaT010440.1;Parent=MsaT010440.1
Gene Sequence

>MsaT010440.1

ATGGAACATAATCAACAAGAATGGCAACCTTCTTCAACCAAAGTCGAAAGAAAGGTTGTTGAGAAAAATAGGAGAAATCAGATGAAGATCCTCTATTCCAAACTCAACTCTCTTCTTCCTAGCTATAATTCTAAGGAATTAACGTTACCATTACCTGATCAAGTAGATGAGGCTATAAACTACATAAAGAGCCTAGAGACAAATCTAAAGTTGGCAAAAGAGAAGAAAGAAAGTTTAATGGGAAACAAGAAAGAAAGTTTAAAAGGAAGCATAAAGTTGCCAAAAATAGAGATTCATGAAATGGGACCCACTCTACAAGTGATTGTAACATGTGGGGTTGATGACCATTTTATTTTCTGTGAAATTATGAGAATACTGCATGAAGAGAACGTCGAGGTTATCTCTTCAAATTCTTCTTTGGCTGGTGATTCACTTCTTCATACCGTACATGCTCAGATTCCGCAAACTTTGTTACAATTTGGAGCAATCAAAATAAGTGAGAGGTTGAAAGAGTTTGTGAACGGATCTATGGGCGATGTGGAAACACAGCCTCAATTGTGGGATCTTGAAATTGGATCTGAGAGTTGGGAGCTTCTACATTCTGTAGTAACCATGAGTTTACCAAATCCTTAA
Protein sequence

>MsaT010440.1

MEHNQQEWQPSSTKVERKVVEKNRRNQMKILYSKLNSLLPSYNSKELTLPLPDQVDEAINYIKSLETNLKLAKEKKESLMGNKKESLKGSIKLPKIEIHEMGPTLQVIVTCGVDDHFIFCEIMRILHEENVEVISSNSSLAGDSLLHTVHAQIPQTLLQFGAIKISERLKEFVNGSMGDVETQPQLWDLEIGSESWELLHSVVTMSLPNP*