AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa ssp. caerulea / MsaG008383

Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsaG008383 MtrunA17_Chr1g0162721 56.311 309 70 9 1 246 1 307 5.09e-96 283
MsaG008383 MtrunA17_Chr2g0302481 49.528 212 62 5 54 246 3 188 2.73e-55 175
MsaG008383 MtrunA17_Chr2g0302501 51.667 120 39 3 1 112 20 128 4.33e-30 109
MsaG008383 MtrunA17_Chr4g0065261 35.808 229 89 8 22 246 1 175 1.42e-29 109
MsaG008383 MtrunA17_Chr8g0373571 46.250 80 43 0 161 240 260 339 8.73e-16 75.5
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsaG008383 AT4G36730.2 40.000 80 48 0 161 240 220 299 7.68e-13 67.4
MsaG008383 AT4G36730.1 40.000 80 48 0 161 240 222 301 8.73e-13 67.0
MsaG008383 AT2G35530.1 42.647 68 39 0 161 228 305 372 3.66e-11 62.8

Find 38 sgRNAs with CRISPR-Local

Find sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
ATCTGGACTGGCACAGAATT+TGG 0.131374 2:-33505408 MsaT008383.1:CDS
CTTTGCTACACGAGGATTAT+AGG 0.238457 2:+33547579 None:intergenic
CTACTTAAGTTGTTGAAATC+TGG 0.244299 2:+33547365 None:intergenic
ACTGGGGAATCCACTAAATA+TGG 0.264921 2:-33547311 MsaT008383.1:CDS
TAATGGTATTATTAGTAATA+TGG 0.291957 2:+33533446 None:intergenic
ACATGATTTACTGACATCTT+AGG 0.315832 2:+33547907 None:intergenic
CGTTAATTAGGTACTGATAA+TGG 0.319774 2:+33533429 None:intergenic
TCTGGACTGGCACAGAATTT+GGG 0.326766 2:-33505407 MsaT008383.1:CDS
GAACAAACTGTACCTCATTA+AGG 0.349941 2:+33547250 None:intergenic
CACTCTTAAGGATGAAAATT+CGG 0.352734 2:-33503721 MsaT008383.1:CDS
TGTGGTAGCAGAGGTTTGTT+TGG 0.386795 2:+33547793 None:intergenic
TACTTAAGTTGTTGAAATCT+GGG 0.387853 2:+33547366 None:intergenic
GAACAGCTAGTTAAAGAGTA+TGG 0.412140 2:-33503258 MsaT008383.1:CDS
AAGATCAAAGTTAAAGAAAC+AGG 0.415399 2:-33503988 MsaT008383.1:intron
AATAGATCTGCAATTGATTC+TGG 0.415707 2:+33503234 None:intergenic
TCAAAAGATAAACACTCTTA+AGG 0.422261 2:-33503733 MsaT008383.1:CDS
CTTAGGTCTGCCAAATGGAT+TGG 0.430052 2:+33547924 None:intergenic
AAGAAAGAATCCAATCCATT+TGG 0.432707 2:-33547934 MsaT008383.1:CDS
CAAACCTCTGCTACCACATT+GGG 0.449196 2:-33547788 MsaT008383.1:CDS
AGACTGGTTTCCATATTTAG+TGG 0.453132 2:+33547301 None:intergenic
TTTGTTGTAGAAAATCCATC+TGG 0.453963 2:-33505425 MsaT008383.1:intron
GCTCAGTAAGCATTTGTGAC+AGG 0.534038 2:+33503697 None:intergenic
GACATCTTAGGTCTGCCAAA+TGG 0.535620 2:+33547919 None:intergenic
AAATTCTGTGCCAGTCCAGA+TGG 0.539538 2:+33505410 None:intergenic
CAATGAAAACGATTCTATTG+AGG 0.546332 2:-33503649 MsaT008383.1:intron
GTCTCCCAATGTGGTAGCAG+AGG 0.553520 2:+33547784 None:intergenic
GGATTATAGGAGAGCTCCGT+GGG 0.562325 2:+33547592 None:intergenic
ACAAACCTCTGCTACCACAT+TGG 0.563405 2:-33547789 MsaT008383.1:CDS
ACATTGGGAGACAACTATGC+AGG 0.573997 2:-33547773 MsaT008383.1:intron
CTATAATCCTCGTGTAGCAA+AGG 0.574242 2:-33547578 MsaT008383.1:intron
TGTAGAAAATCCATCTGGAC+TGG 0.593923 2:-33505420 MsaT008383.1:intron
CTGGACTGGCACAGAATTTG+GGG 0.608435 2:-33505406 MsaT008383.1:CDS
GAATTTGGGGACAGTCGTCA+AGG 0.619324 2:-33505393 MsaT008383.1:CDS
TGATGCTCTACATGATCCCA+CGG 0.627640 2:-33547608 MsaT008383.1:CDS
ATAGGGATGGAACCTTAATG+AGG 0.644156 2:-33547262 MsaT008383.1:intron
TGACCCACCTTTGCTACACG+AGG 0.644198 2:+33547571 None:intergenic
TGCATAGTTGTCTCCCAATG+TGG 0.648736 2:+33547775 None:intergenic
AGGATTATAGGAGAGCTCCG+TGG 0.667369 2:+33547591 None:intergenic

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
Chromosome Type Strat End Strand Name
Chr2 gene 33503215 33547962 33503215 ID=MsaG008383
Chr2 mRNA 33503215 33547962 33503215 ID=MsaT008383.1;Parent=MsaG008383
Chr2 exon 33503215 33503280 33503215 ID=MsaT008383.1.exon9;Parent=MsaT008383.1
Chr2 CDS 33503215 33503280 33503215 ID=cds.MsaT008383.1;Parent=MsaT008383.1
Chr2 exon 33503650 33503775 33503650 ID=MsaT008383.1.exon8;Parent=MsaT008383.1
Chr2 CDS 33503650 33503775 33503650 ID=cds.MsaT008383.1;Parent=MsaT008383.1
Chr2 exon 33503989 33504066 33503989 ID=MsaT008383.1.exon7;Parent=MsaT008383.1
Chr2 CDS 33503989 33504066 33503989 ID=cds.MsaT008383.1;Parent=MsaT008383.1
Chr2 exon 33505349 33505437 33505349 ID=MsaT008383.1.exon6;Parent=MsaT008383.1
Chr2 CDS 33505349 33505437 33505349 ID=cds.MsaT008383.1;Parent=MsaT008383.1
Chr2 exon 33533443 33533489 33533443 ID=MsaT008383.1.exon5;Parent=MsaT008383.1
Chr2 CDS 33533443 33533489 33533443 ID=cds.MsaT008383.1;Parent=MsaT008383.1
Chr2 exon 33547263 33547429 33547263 ID=MsaT008383.1.exon4;Parent=MsaT008383.1
Chr2 CDS 33547263 33547429 33547263 ID=cds.MsaT008383.1;Parent=MsaT008383.1
Chr2 exon 33547579 33547653 33547579 ID=MsaT008383.1.exon3;Parent=MsaT008383.1
Chr2 CDS 33547579 33547653 33547579 ID=cds.MsaT008383.1;Parent=MsaT008383.1
Chr2 exon 33547774 33547821 33547774 ID=MsaT008383.1.exon2;Parent=MsaT008383.1
Chr2 CDS 33547774 33547821 33547774 ID=cds.MsaT008383.1;Parent=MsaT008383.1
Chr2 exon 33547918 33547962 33547918 ID=MsaT008383.1.exon1;Parent=MsaT008383.1
Chr2 CDS 33547918 33547962 33547918 ID=cds.MsaT008383.1;Parent=MsaT008383.1
Gene Sequence

>MsaT008383.1

ATGGAGAAGAAAGAATCCAATCCATTTGGCAGACCTAAGATGTCACAAACTCCAAACAAACCTCTGCTACCACATTGGGAGACAACTATGCAGGCAAATAATGCACTACTTCAATGTGATGCTCTACATGATCCCACGGAGCTCTCCTATAATCCTCGTGTAGCAAAGGATGCTGCAAAGGCTTTTTCAGGAATTGTGCGCGAAAGAAACCCAGATTTCAACAACTTAAGTAGTATAAACTCAGAGTCTGTTTTAAGTTTAATGACTGGGGAATCCACTAAATATGGAAACCAGTCTTCTGCACCAAAAAATGATAGGGATGGAACCTTAATGAGGGAAACATGTAGAGATGATATCCATATTACTAATAATACCATTATCAAAAATCCATCTGGACTGGCACAGAATTTGGGGACAGTCGTCAAGGAATCTGACACTGATGTTGATGTTGATGCTCAACTAAAAAATATGGAAGTTGATGAAATAAGAAAAGAAAGAAAAAGACTGTCAAACAGGAAATCAGCTAAAAGATCAAAGTTAAAGAAACAGAAAGAATATGAAGAACAATGTCAAAAGATAAACACTCTTAAGGATGAAAATTCGGTCCTGTCACAAATGCTTACTGAGCTTTCAGAGAAATGTCTCGAGCTCACCAATGAAAACGATTCTATTGAGGAACAGCTAGTTAAAGAGTATGGACCAGAATCAATTGCAGATCTATTGCACATGAAGCCTACTTGA
Protein sequence

>MsaT008383.1

MEKKESNPFGRPKMSQTPNKPLLPHWETTMQANNALLQCDALHDPTELSYNPRVAKDAAKAFSGIVRERNPDFNNLSSINSESVLSLMTGESTKYGNQSSAPKNDRDGTLMRETCRDDIHITNNTIIKNPSGLAQNLGTVVKESDTDVDVDAQLKNMEVDEIRKERKRLSNRKSAKRSKLKKQKEYEEQCQKINTLKDENSVLSQMLTELSEKCLELTNENDSIEEQLVKEYGPESIADLLHMKPT*