AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa ssp. caerulea / MsaG008384


Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsaG008384 MtrunA17_Chr1g0162721 75.225 222 46 5 29 245 90 307 3.64e-104 304
MsaG008384 MtrunA17_Chr1g0162721 71.053 38 10 1 1 37 1 38 6.70e-13 67.0
MsaG008384 MtrunA17_Chr2g0302481 67.619 210 42 2 36 245 5 188 1.97e-91 267
MsaG008384 MtrunA17_Chr2g0302501 77.778 108 7 1 1 91 20 127 1.76e-53 169
MsaG008384 MtrunA17_Chr4g0065261 35.000 220 97 5 27 245 1 175 5.20e-25 97.4
MsaG008384 MtrunA17_Chr8g0373571 44.318 88 49 0 152 239 252 339 1.95e-17 80.1
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsaG008384 AT4G36730.2 36.190 105 61 1 135 239 201 299 7.56e-14 70.1
MsaG008384 AT4G36730.1 36.190 105 61 1 135 239 203 301 7.89e-14 70.1

Find 45 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:-33555541 MsaT008384.1:CDS
GCAAATAATTTGTTGAAATC+AGG 0.241071 2:+33556087 None:intergenic
TGGCAGACCTTACAATTTCT+TGG 0.294838 2:-33556734 MsaT008384.1:CDS
CGGAAATCTAACATGATTAC+TGG 0.322511 2:-33555686 MsaT008384.1:CDS
GTTTCTTCTGTGTACCATTT+CGG 0.323377 2:+33556110 None:intergenic
TCTGGACTGGCACAGAATTT+GGG 0.326766 2:-33555540 MsaT008384.1:CDS
GATTTCAACAAATTATTTGC+TGG 0.331658 2:-33556084 MsaT008384.1:CDS
ACTGGCGAATCAAGAGAATA+TGG 0.350738 2:-33556033 MsaT008384.1:CDS
CACTCTTAAGGATGAAAATT+CGG 0.352734 2:-33554615 MsaT008384.1:CDS
GCTCAGTGAGCATTTGTGTT+AGG 0.359601 2:+33554591 None:intergenic
AAAGTTTCAAGTAGGCTTCA+TGG 0.384295 2:+33554243 None:intergenic
TGGAACAGGAAGAGCTAGTT+AGG 0.389858 2:-33554300 MsaT008384.1:intron
CACACCTATGCTACCACATT+GGG 0.421663 2:-33556589 MsaT008384.1:CDS
TCAAGAAATAAACACTCTTA+AGG 0.422261 2:-33554627 MsaT008384.1:CDS
AATAGATCTGCAATTGATTC+TGG 0.425545 2:+33554268 None:intergenic
AAGAAAGAATCCATTCCATT+TGG 0.432084 2:-33556754 MsaT008384.1:CDS
AAGATCAAAGATAAAGAAAC+AGG 0.437513 2:-33554864 MsaT008384.1:intron
CCAGTCATTAAACTTACATC+AGG 0.439376 2:+33556051 None:intergenic
CAAATAATTTGTTGAAATCA+GGG 0.443190 2:+33556088 None:intergenic
TGTGGTAGCATAGGTGTGTT+TGG 0.450209 2:+33556594 None:intergenic
TTTGTTGCAGAAAATCCATC+TGG 0.471248 2:-33555558 MsaT008384.1:intron
GAAGAGCTAGTTAGGATGTA+TGG 0.483100 2:-33554292 MsaT008384.1:CDS
TGAGGCACCAAGAAATTGTA+AGG 0.489679 2:+33556727 None:intergenic
AAGTTTCAAGTAGGCTTCAT+GGG 0.491094 2:+33554244 None:intergenic
AAATTGTAAGGTCTGCCAAA+TGG 0.515741 2:+33556739 None:intergenic
AAATTCTGTGCCAGTCCAGA+TGG 0.539538 2:+33555543 None:intergenic
GGAAATCTAACATGATTACT+GGG 0.546159 2:-33555685 MsaT008384.1:CDS
CAATGAAAACGATTCTATTG+AGG 0.546332 2:-33554543 MsaT008384.1:intron
GTAAGGTCTGCCAAATGGAA+TGG 0.548289 2:+33556744 None:intergenic
TCTAACATGATTACTGGGGA+TGG 0.558549 2:-33555680 MsaT008384.1:intron
GTATCCCAATGTGGTAGCAT+AGG 0.563643 2:+33556585 None:intergenic
ACACACCTATGCTACCACAT+TGG 0.564050 2:-33556590 MsaT008384.1:CDS
CCTGATGTAAGTTTAATGAC+TGG 0.574077 2:-33556051 MsaT008384.1:CDS
TGCAGAAAATCCATCTGGAC+TGG 0.574891 2:-33555553 MsaT008384.1:intron
TACATCTGCAGTGCAGCAAG+TGG 0.589547 2:-33555887 MsaT008384.1:intron
ACATTGGGATACATCTATGC+AGG 0.593850 2:-33556574 MsaT008384.1:intron
CATGATTTACTGACATCTTG+AGG 0.595565 2:+33556709 None:intergenic
CTGGACTGGCACAGAATTTG+GGG 0.608435 2:-33555539 MsaT008384.1:CDS
GAATTTGGGGACAGTCGTCA+AGG 0.619324 2:-33555526 MsaT008384.1:CDS
GAACAATCTATACCTCATTG+AGG 0.632955 2:+33555972 None:intergenic
GGAAGCAAGAGATTGACAGA+TGG 0.638909 2:-33555866 MsaT008384.1:CDS
GAAATCTAACATGATTACTG+GGG 0.696860 2:-33555684 MsaT008384.1:CDS
ATTCTCACTTAAGCACGAAG+CGG 0.709549 2:-33555706 MsaT008384.1:CDS
TGCATAGATGTATCCCAATG+TGG 0.712115 2:+33556576 None:intergenic
ATAGGGATGGAACCTCAATG+AGG 0.736670 2:-33555984 MsaT008384.1:intron

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
Chromosome Type Strat End Strand Name
Chr2 gene 33554249 33556782 33554249 ID=MsaG008384
Chr2 mRNA 33554249 33556782 33554249 ID=MsaT008384.1;Parent=MsaG008384
Chr2 exon 33554249 33554314 33554249 ID=MsaT008384.1.exon9;Parent=MsaT008384.1
Chr2 CDS 33554249 33554314 33554249 ID=cds.MsaT008384.1;Parent=MsaT008384.1
Chr2 exon 33554544 33554669 33554544 ID=MsaT008384.1.exon8;Parent=MsaT008384.1
Chr2 CDS 33554544 33554669 33554544 ID=cds.MsaT008384.1;Parent=MsaT008384.1
Chr2 exon 33554865 33554942 33554865 ID=MsaT008384.1.exon7;Parent=MsaT008384.1
Chr2 CDS 33554865 33554942 33554865 ID=cds.MsaT008384.1;Parent=MsaT008384.1
Chr2 exon 33555482 33555570 33555482 ID=MsaT008384.1.exon6;Parent=MsaT008384.1
Chr2 CDS 33555482 33555570 33555482 ID=cds.MsaT008384.1;Parent=MsaT008384.1
Chr2 exon 33555681 33555729 33555681 ID=MsaT008384.1.exon5;Parent=MsaT008384.1
Chr2 CDS 33555681 33555729 33555681 ID=cds.MsaT008384.1;Parent=MsaT008384.1
Chr2 exon 33555844 33555898 33555844 ID=MsaT008384.1.exon4;Parent=MsaT008384.1
Chr2 CDS 33555844 33555898 33555844 ID=cds.MsaT008384.1;Parent=MsaT008384.1
Chr2 exon 33555985 33556151 33555985 ID=MsaT008384.1.exon3;Parent=MsaT008384.1
Chr2 CDS 33555985 33556151 33555985 ID=cds.MsaT008384.1;Parent=MsaT008384.1
Chr2 exon 33556575 33556622 33556575 ID=MsaT008384.1.exon2;Parent=MsaT008384.1
Chr2 CDS 33556575 33556622 33556575 ID=cds.MsaT008384.1;Parent=MsaT008384.1
Chr2 exon 33556723 33556782 33556723 ID=MsaT008384.1.exon1;Parent=MsaT008384.1
Chr2 CDS 33556723 33556782 33556723 ID=cds.MsaT008384.1;Parent=MsaT008384.1
Gene Sequence

>MsaT008384.1

ATGGGGAAGAAAGAATCCATTCCATTTGGCAGACCTTACAATTTCTTGGTGCCTCAAGATCAATCTCCAAACACACCTATGCTACCACATTGGGATACATCTATGCAGGTTGCTGCACAGGCTTTTTCCGAAATGGTACACAGAAGAAACCCTGATTTCAACAAATTATTTGCTGGAAACTCAAAGCCTGATGTAAGTTTAATGACTGGCGAATCAAGAGAATATGGAAACCAGTCTTCTTCACCAAAAAATGATAGGGATGGAACCTCAATGAGTGCAGCAAGTGGAAGCAAGAGATTGACAGATGGTGATCAAGATGACAGTAACAAAGATTCTCACTTAAGCACGAAGCGGAAATCTAACATGATTACTGGGGATGAAAATCCATCTGGACTGGCACAGAATTTGGGGACAGTCGTCAAGGAATCTGACACTGACGTTGATGTTGATGCTCAACTAAAAAATATGGAAGATGATGAAAGAAGAAAAGAAAGAAAAAGACTGTCGAACAGGAAATCAGCTAAAAGATCAAAGATAAAGAAACAGAAAGAATATGAAGAGCAATGTCAAGAAATAAACACTCTTAAGGATGAAAATTCGGTCCTAACACAAATGCTCACTGAGCTTTCAGAGAAATGTCTCGAGCTCACCAATGAAAACGATTCTATTGAGGAAGAGCTAGTTAGGATGTATGGACCAGAATCAATTGCAGATCTATTGCCCATGAAGCCTACTTGA

Protein sequence

>MsaT008384.1

MGKKESIPFGRPYNFLVPQDQSPNTPMLPHWDTSMQVAAQAFSEMVHRRNPDFNKLFAGNSKPDVSLMTGESREYGNQSSSPKNDRDGTSMSAASGSKRLTDGDQDDSNKDSHLSTKRKSNMITGDENPSGLAQNLGTVVKESDTDVDVDAQLKNMEDDERRKERKRLSNRKSAKRSKIKKQKEYEEQCQEINTLKDENSVLTQMLTELSEKCLELTNENDSIEEELVRMYGPESIADLLPMKPT*