AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa ssp. caerulea / MsaG014313

Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsaG014313 MtrunA17_Chr7g0223471 68.235 85 22 1 1 85 66 145 2.67e-25 100
MsaG014313 MtrunA17_Chr4g0046231 71.831 71 17 2 1 69 1 70 5.01e-24 95.9
MsaG014313 MtrunA17_Chr2g0283141 76.744 43 10 0 1 43 74 116 3.74e-17 77.8
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsaG014313 AT2G33880.1 68.750 48 15 0 1 48 74 121 1.45e-17 79.0
MsaG014313 AT2G33880.2 68.750 48 15 0 1 48 74 121 1.70e-17 79.0
MsaG014313 AT5G45980.1 60.000 50 19 1 2 51 75 123 7.11e-15 70.9

Find 43 sgRNAs with CRISPR-Local

Find sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
GTTGCATTTGGTTGTGTTTC+TGG 0.090039 3:-70869955 None:intergenic
CGTGAACAATTACAAGAATT+TGG 0.113481 3:+70869844 MsaT014313.1:CDS
TGTTTCTGGTCTCTTGTTGT+AGG 0.261301 3:-70869941 None:intergenic
GAAAGATGATGAAGATGATT+TGG 0.341139 3:-70870016 None:intergenic
ACAGTGCCGTTGAAGTTGTT+GGG 0.351365 3:+70870978 MsaT014313.1:intron
CGTAGATTTCCCTTTAAGTT+GGG 0.351878 3:+70872361 MsaT014313.1:CDS
ATTTGTGTGAGAGAGTTATT+AGG 0.365608 3:-70869979 None:intergenic
TTCCTTCATGGGGCCCTCCT+AGG 0.365697 3:+70872388 MsaT014313.1:CDS
GTGAACAATTACAAGAATTT+GGG 0.368349 3:+70869845 MsaT014313.1:CDS
TACAGTGCCGTTGAAGTTGT+TGG 0.370350 3:+70870977 MsaT014313.1:intron
GGAGGATGTTGGAGAGGTGC+AGG 0.397082 3:+70872053 MsaT014313.1:CDS
TTCTTAATCTCATCTCTTGG+TGG 0.415394 3:-70869817 None:intergenic
GTTTCTGGTCTCTTGTTGTA+GGG 0.424258 3:-70869940 None:intergenic
GAGAGGTGGGTGGAGGATGT+TGG 0.433882 3:+70872042 MsaT014313.1:CDS
CTCTTGTTAAGCCTAAGGTA+GGG 0.436219 3:+70872261 MsaT014313.1:CDS
ATCTTCTTAATCTCATCTCT+TGG 0.440501 3:-70869820 None:intergenic
TGTTGGAGAGGTGCAGGAAG+AGG 0.452180 3:+70872059 MsaT014313.1:CDS
CGTTGGTGAGAGGTGGGTGG+AGG 0.456768 3:+70872035 MsaT014313.1:CDS
TTACAAGAATTTGGGCAACT+TGG 0.466911 3:+70869853 MsaT014313.1:CDS
AAATAATAAGAGAAGCTTTG+AGG 0.469083 3:-70872320 None:intergenic
ACGTAGATTTCCCTTTAAGT+TGG 0.469332 3:+70872360 MsaT014313.1:CDS
GAGTTATTAGGAGTTGCATT+TGG 0.477754 3:-70869967 None:intergenic
GCTCTTGTTAAGCCTAAGGT+AGG 0.482603 3:+70872260 MsaT014313.1:CDS
TATTATGATTTCACCGGGAG+AGG 0.484380 3:-70870055 None:intergenic
TTAACACTAACCCCTACCTT+AGG 0.493308 3:-70872272 None:intergenic
TTCTAGGCGTTGGTGAGAGG+TGG 0.521491 3:+70872028 MsaT014313.1:intron
GATGATGAAGATGATTTGGA+AGG 0.542768 3:-70870012 None:intergenic
CAGTGCCGTTGAAGTTGTTG+GGG 0.550217 3:+70870979 MsaT014313.1:intron
TCTTGTTAAGCCTAAGGTAG+GGG 0.554282 3:+70872262 MsaT014313.1:CDS
TGATTCTAGGCGTTGGTGAG+AGG 0.557954 3:+70872025 MsaT014313.1:intron
GTAGATTTCCCTTTAAGTTG+GGG 0.562933 3:+70872362 MsaT014313.1:CDS
AACCTAGGAGGGCCCCATGA+AGG 0.563726 3:-70872390 None:intergenic
TTTCTGGTCTCTTGTTGTAG+GGG 0.566911 3:-70869939 None:intergenic
TCTAGGCGTTGGTGAGAGGT+GGG 0.571968 3:+70872029 MsaT014313.1:intron
GTGGGTGGAGGATGTTGGAG+AGG 0.581028 3:+70872047 MsaT014313.1:CDS
AGGCGTTGGTGAGAGGTGGG+TGG 0.582695 3:+70872032 MsaT014313.1:intron
GATGAAGATGATTTGGAAGG+AGG 0.596007 3:-70870009 None:intergenic
TTTGTCTGCTTATGGACTTG+CGG 0.603126 3:-70869906 None:intergenic
AATAAGAGAAGCTTTGAGGA+AGG 0.607829 3:-70872316 None:intergenic
TAGATTTCCCTTTAAGTTGG+GGG 0.612899 3:+70872363 MsaT014313.1:CDS
CTTACAAAATGAACCTAGGA+GGG 0.639336 3:-70872401 None:intergenic
ACTTACAAAATGAACCTAGG+AGG 0.645597 3:-70872402 None:intergenic
AGTGCCGTTGAAGTTGTTGG+GGG 0.690098 3:+70870980 MsaT014313.1:intron

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
Chromosome Type Strat End Strand Name
Chr3 gene 70869808 70872409 70869808 ID=MsaG014313
Chr3 mRNA 70869808 70872409 70869808 ID=MsaT014313.1;Parent=MsaG014313
Chr3 exon 70869808 70870063 70869808 ID=MsaT014313.1.exon1;Parent=MsaT014313.1
Chr3 CDS 70869808 70870063 70869808 ID=cds.MsaT014313.1;Parent=MsaT014313.1
Chr3 exon 70870982 70871023 70870982 ID=MsaT014313.1.exon2;Parent=MsaT014313.1
Chr3 CDS 70870982 70871023 70870982 ID=cds.MsaT014313.1;Parent=MsaT014313.1
Chr3 exon 70872034 70872080 70872034 ID=MsaT014313.1.exon3;Parent=MsaT014313.1
Chr3 CDS 70872034 70872080 70872034 ID=cds.MsaT014313.1;Parent=MsaT014313.1
Chr3 exon 70872254 70872409 70872254 ID=MsaT014313.1.exon4;Parent=MsaT014313.1
Chr3 CDS 70872254 70872409 70872254 ID=cds.MsaT014313.1;Parent=MsaT014313.1
Gene Sequence

>MsaT014313.1

ATGGTGAATCCACCAAGAGATGAGATTAAGAAGATACGTGAACAATTACAAGAATTTGGGCAACTTGGTGATGCTAGTGTCTTTTACTGGTTTCAAAACCGCAAGTCCATAAGCAGACAAAAGAAAAGAATCCCCTACAACAAGAGACCAGAAACACAACCAAATGCAACTCCTAATAACTCTCTCACACAAATTAATACACCTCCTTCCAAATCATCTTCATCATCTTTCATTGATCATCAAAAAGCCTCTCCCGTGCCGTTGAAGTTGTTGGGGGTGGAGATGAGACAAAATTCAAGCGTTGGTGAGAGGTGGGTGGAGGATGTTGGAGAGGTGCAGGAAGAGGTTTTTGCTCTTGTTAAGCCTAAGGTAGGGGTTAGTGTTAAGCAATTCTTTGCAAATGCTAGCCTTCCTCAAAGCTTCTCTTATTATTTTGTTAATCTGGTTCTTAACGTAGATTTCCCTTTAAGTTGGGGGATTTCCTTCATGGGGCCCTCCTAG
Protein sequence

>MsaT014313.1

MVNPPRDEIKKIREQLQEFGQLGDASVFYWFQNRKSISRQKKRIPYNKRPETQPNATPNNSLTQINTPPSKSSSSSFIDHQKASPVPLKLLGVEMRQNSSVGERWVEDVGEVQEEVFALVKPKVGVSVKQFFANASLPQSFSYYFVNLVLNVDFPLSWGISFMGPS*