AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa ssp. caerulea / MsaG040791

Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsaG040791 MtrunA17_Chr7g0274781 79.310 203 9 2 1 186 5 191 1.47e-109 312
MsaG040791 MtrunA17_Chr5g0416091 37.126 167 74 3 37 186 76 228 1.99e-29 109
MsaG040791 MtrunA17_Chr8g0362331 33.129 163 74 3 37 180 75 221 3.55e-28 106
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsaG040791 AT1G71260.1 50.463 216 61 5 1 186 1 200 2.01e-61 191
MsaG040791 AT1G14410.1 36.585 164 69 3 42 186 80 227 4.09e-32 116
MsaG040791 AT2G02740.1 37.500 168 69 4 39 186 81 232 4.67e-32 116

Find 43 sgRNAs with CRISPR-Local

Find sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
GCTTGCTTCCTTCATCTTCC+AGG 0.275752 7:+103886986 MsaT040791.1:CDS
TTGCCCTTGTAAACAGAATA+AGG 0.288907 7:-103887275 None:intergenic
AGGAACACTAAAATTCTCTT+TGG 0.325050 7:-103888900 None:intergenic
ATGAGTTTCATGCCTGCTAT+TGG 0.341936 7:+103887625 MsaT040791.1:intron
GAAAGAATTCACATGAATCT+TGG 0.354145 7:-103888478 None:intergenic
AAAGAATTCACATGAATCTT+GGG 0.363397 7:-103888477 None:intergenic
TGAGTTTCATGCCTGCTATT+GGG 0.372914 7:+103887626 MsaT040791.1:intron
GCAAACTCAGCAGTTGTAAC+AGG 0.373789 7:-103888920 None:intergenic
GTGAAACAGGAATCATCTAT+TGG 0.407409 7:+103887087 MsaT040791.1:intron
AGCAGAATAGTTGTTATTTG+TGG 0.411050 7:-103887140 None:intergenic
TGCTCCTTATTCTGTTTACA+AGG 0.424645 7:+103887271 MsaT040791.1:CDS
AACCGACTTCAGTAGCTGAT+AGG 0.440719 7:-103888436 None:intergenic
ATATACCTTGATTTCATTGA+GGG 0.447907 7:-103888506 None:intergenic
GTCGGTTCTTTGATAGCCAT+TGG 0.458218 7:+103888452 MsaT040791.1:CDS
TTCTTATGCTGCAGTAATGC+TGG 0.463315 7:+103888688 MsaT040791.1:intron
TTGGGGAGCGCAAATATGAC+TGG 0.493872 7:+103887644 MsaT040791.1:CDS
GCAGTAATGCTGGTCAAGTA+AGG 0.498490 7:+103888698 MsaT040791.1:intron
AATAACAACTATTCTGCTAA+AGG 0.500782 7:+103887145 MsaT040791.1:CDS
GAGTTTCATGCCTGCTATTG+GGG 0.513089 7:+103887627 MsaT040791.1:intron
ATTGGAAGTTCTTTCCGCTA+GGG 0.516317 7:+103887105 MsaT040791.1:CDS
ATGACCCCTCAATGAAATCA+AGG 0.516531 7:+103888501 MsaT040791.1:CDS
TGAGAAACTAAGCAGAAAAG+AGG 0.524337 7:-103888970 None:intergenic
AATATACCTTGATTTCATTG+AGG 0.524866 7:-103888507 None:intergenic
GCCCTATCAGCTACTGAAGT+CGG 0.527679 7:+103888434 MsaT040791.1:CDS
AAGAGGGAGACAAAATCATA+AGG 0.532532 7:-103888847 None:intergenic
ACCGACTTCAGTAGCTGATA+GGG 0.538316 7:-103888435 None:intergenic
AGGGAGTACCTGGAAGATGA+AGG 0.540073 7:-103886994 None:intergenic
TATTTGCGCTCCCCAATAGC+AGG 0.541622 7:-103887637 None:intergenic
TATTGGAAGTTCTTTCCGCT+AGG 0.545874 7:+103887104 MsaT040791.1:CDS
GTTAACAACAGCTGTCAAAG+AGG 0.556253 7:-103888864 None:intergenic
ACAAAGTAGCCATTGCTATG+AGG 0.558527 7:-103888739 None:intergenic
ACATGAATCTTGGGGACCAA+TGG 0.561311 7:-103888468 None:intergenic
TCAATTAAGCCTCATAGCAA+TGG 0.569726 7:+103888730 MsaT040791.1:CDS
ACATCCAACTTAGTAAAAGT+AGG 0.596084 7:-103887326 None:intergenic
GCTCCTTATTCTGTTTACAA+GGG 0.608711 7:+103887272 MsaT040791.1:CDS
ATTCTCTTTGGTATTTAACA+CGG 0.610530 7:-103888888 None:intergenic
TATACCTTGATTTCATTGAG+GGG 0.613978 7:-103888505 None:intergenic
TTAACAACAGCTGTCAAAGA+GGG 0.636716 7:-103888863 None:intergenic
AAGAATTCACATGAATCTTG+GGG 0.637953 7:-103888476 None:intergenic
AAAGAGGCATACACTGCAAG+CGG 0.640513 7:-103888954 None:intergenic
TGGGGAGCGCAAATATGACT+GGG 0.642764 7:+103887645 MsaT040791.1:CDS
TTAGTAAAAGTAGGAAGACA+AGG 0.653333 7:-103887317 None:intergenic
GGCAGTAGAGAAATCCCTAG+CGG 0.738730 7:-103887119 None:intergenic

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
Chromosome Type Strat End Strand Name
Chr7 gene 103886970 103888985 103886970 ID=MsaG040791
Chr7 mRNA 103886970 103888985 103886970 ID=MsaT040791.1;Parent=MsaG040791
Chr7 exon 103886970 103887007 103886970 ID=MsaT040791.1.exon1;Parent=MsaT040791.1
Chr7 CDS 103886970 103887007 103886970 ID=cds.MsaT040791.1;Parent=MsaT040791.1
Chr7 exon 103887096 103887166 103887096 ID=MsaT040791.1.exon2;Parent=MsaT040791.1
Chr7 CDS 103887096 103887166 103887096 ID=cds.MsaT040791.1;Parent=MsaT040791.1
Chr7 exon 103887249 103887339 103887249 ID=MsaT040791.1.exon3;Parent=MsaT040791.1
Chr7 CDS 103887249 103887339 103887249 ID=cds.MsaT040791.1;Parent=MsaT040791.1
Chr7 exon 103887630 103887678 103887630 ID=MsaT040791.1.exon4;Parent=MsaT040791.1
Chr7 CDS 103887630 103887678 103887630 ID=cds.MsaT040791.1;Parent=MsaT040791.1
Chr7 exon 103888428 103888522 103888428 ID=MsaT040791.1.exon5;Parent=MsaT040791.1
Chr7 CDS 103888428 103888522 103888428 ID=cds.MsaT040791.1;Parent=MsaT040791.1
Chr7 exon 103888702 103888767 103888702 ID=MsaT040791.1.exon6;Parent=MsaT040791.1
Chr7 CDS 103888702 103888767 103888702 ID=cds.MsaT040791.1;Parent=MsaT040791.1
Chr7 exon 103888826 103888985 103888826 ID=MsaT040791.1.exon7;Parent=MsaT040791.1
Chr7 CDS 103888826 103888985 103888826 ID=cds.MsaT040791.1;Parent=MsaT040791.1
Gene Sequence

>MsaT040791.1

ATGTTGAAGTTCTCTCGCTTGCTTCCTTCATCTTCCAGGAATCATCTATTGGAAGTTCTTTCCGCTAGGGATTTCTCTACTGCCACAAATAACAACTATTCTGCTAAAGGATATACTTCAGATCGTATATTTGCTCCTTATTCTGTTTACAAGGGCAAAGCTGCATTCTCACTCAGTCCTTGTCTTCCTACTTTTACTAATTTCATGCCTGCTATTGGGGAGCGCAAATATGACTGGGAGAAGAGACAAAGATTTGCCCTATCAGCTACTGAAGTCGGTTCTTTGATAGCCATTGGTCCCCAAGATTCATGTGAATTCTTTCATGACCCCTCAATGAAATCAAGTAATGCTGGTCAAGTAAGGAAGAGTTTGTCAATTAAGCCTCATAGCAATGGCTACTTTGTCTCTCTTGCACAATATAATACTATATTCCTTATGATTTTGTCTCCCTCTTTGACAGCTGTTGTTAACTCCGTGTTAAATACCAAAGAGAATTTTAGTGTTCCTGTTACAACTGCTGAGTTTGCTGTGATGAAGACCGCTTGCAGTGTATGCCTCTTTTCTGCTTAG
Protein sequence

>MsaT040791.1

MLKFSRLLPSSSRNHLLEVLSARDFSTATNNNYSAKGYTSDRIFAPYSVYKGKAAFSLSPCLPTFTNFMPAIGERKYDWEKRQRFALSATEVGSLIAIGPQDSCEFFHDPSMKSSNAGQVRKSLSIKPHSNGYFVSLAQYNTIFLMILSPSLTAVVNSVLNTKENFSVPVTTAEFAVMKTACSVCLFSA*