AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar XinJiangDaYe / MS.gene20805

Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene20805.t1 MTR_1g087040 96.639 119 4 0 1 119 32 150 7.46e-83 239
MS.gene20805.t1 MTR_7g109510 46.610 118 55 1 1 118 27 136 5.06e-21 82.0
MS.gene20805.t1 MTR_4g070860 35.088 114 59 2 1 99 35 148 4.11e-18 75.1
MS.gene20805.t1 MTR_1g022495 36.585 123 71 3 3 118 37 159 5.83e-17 72.4
MS.gene20805.t1 MTR_3g117120 43.421 76 43 0 1 76 35 110 2.20e-16 70.9
MS.gene20805.t1 MTR_8g086020 35.537 121 73 2 1 118 40 158 2.37e-16 70.9
MS.gene20805.t1 MTR_3g112220 40.580 69 41 0 3 71 11 79 1.67e-12 59.3
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene20805.t1 AT3G62420 42.056 107 59 2 1 107 30 133 1.66e-22 86.3
MS.gene20805.t1 AT2G18160 41.758 91 52 1 1 91 36 125 1.60e-18 76.6
MS.gene20805.t1 AT1G75390 36.364 110 66 1 3 108 48 157 5.14e-18 75.5
MS.gene20805.t1 AT4G34590 38.053 113 63 2 1 106 32 144 6.71e-18 74.7
MS.gene20805.t1 AT1G75390 51.724 58 28 0 3 60 48 105 7.92e-14 63.2

Find 24 sgRNAs with CRISPR-Local

Find 25 sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
TGTGATGCCATAGAATAATT+TGG 0.207768 1.2:+65425584 None:intergenic
ACCTTATCCAAATTATTCTA+TGG 0.288233 1.2:-65425591 MS.gene20805:CDS
CTGTTGTTGCTTCCTCAGTC+TGG 0.324562 1.2:+65425871 None:intergenic
CCGTCTCGCGCGGAGTATTA+AGG 0.331337 1.2:-65425801 MS.gene20805:CDS
ATGATCCTCTTCTCAAACCT+TGG 0.395871 1.2:-65425619 MS.gene20805:CDS
CAGAGCGCAGACTAAAGAAT+TGG 0.417439 1.2:-65425732 MS.gene20805:CDS
TTTCAATCTACCGGCTTCTC+CGG 0.421529 1.2:+65425835 None:intergenic
AAGAATTGGAGGCTCAGTTT+CGG 0.469404 1.2:-65425718 MS.gene20805:CDS
GCCATAGAATAATTTGGATA+AGG 0.470081 1.2:+65425590 None:intergenic
GGAGGAAGCGTATGTGAAGA+TGG 0.510835 1.2:-65425774 MS.gene20805:CDS
TGGATCGTCTCGCGGATTCA+CGG 0.514018 1.2:+65425891 None:intergenic
CAGACTGAGGAAGCAACAAC+AGG 0.520449 1.2:-65425870 MS.gene20805:CDS
AGCGCAGACTAAAGAATTGG+AGG 0.533603 1.2:-65425729 MS.gene20805:CDS
GAAGATCTGACCGGAGAAGC+CGG 0.539519 1.2:-65425845 MS.gene20805:CDS
CGCGCGGAGTATTAAGGCGA+CGG 0.554524 1.2:-65425795 MS.gene20805:CDS
CCTTAATACTCCGCGCGAGA+CGG 0.575439 1.2:+65425801 None:intergenic
AGAAGAGGATCATCAATCAA+AGG 0.595685 1.2:+65425629 None:intergenic
ATGAACCAAGGTTTGAGAAG+AGG 0.601064 1.2:+65425614 None:intergenic
TTTGGATAAGGTATGAACCA+AGG 0.606535 1.2:+65425602 None:intergenic
CCTCAGTCTGGATCGTCTCG+CGG 0.620361 1.2:+65425883 None:intergenic
CCGCGAGACGATCCAGACTG+AGG 0.625229 1.2:-65425883 MS.gene20805:CDS
CAACAGGTTGAAGATCTGAC+CGG 0.629630 1.2:-65425854 MS.gene20805:CDS
TCGAGAATGACCGTCTCGCG+CGG 0.638159 1.2:-65425811 MS.gene20805:CDS
GCGGAGTATTAAGGCGACGG+AGG 0.691194 1.2:-65425792 MS.gene20805:CDS

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
! ACCTTATCCAAATTATTCTA+TGG - chr1.2:65425876-65425895 MS.gene20805:CDS 25.0%
GCCATAGAATAATTTGGATA+AGG + chr1.2:65425880-65425899 None:intergenic 30.0%
TGTGATGCCATAGAATAATT+TGG + chr1.2:65425886-65425905 None:intergenic 30.0%
! ATTCTCGATTTTCAATCTAC+CGG + chr1.2:65425644-65425663 None:intergenic 30.0%
AGAAGAGGATCATCAATCAA+AGG + chr1.2:65425841-65425860 None:intergenic 35.0%
TTTGGATAAGGTATGAACCA+AGG + chr1.2:65425868-65425887 None:intergenic 35.0%
AAGAATTGGAGGCTCAGTTT+CGG - chr1.2:65425749-65425768 MS.gene20805:CDS 40.0%
ATGAACCAAGGTTTGAGAAG+AGG + chr1.2:65425856-65425875 None:intergenic 40.0%
ATGATCCTCTTCTCAAACCT+TGG - chr1.2:65425848-65425867 MS.gene20805:CDS 40.0%
AGCGCAGACTAAAGAATTGG+AGG - chr1.2:65425738-65425757 MS.gene20805:CDS 45.0%
CAGAGCGCAGACTAAAGAAT+TGG - chr1.2:65425735-65425754 MS.gene20805:CDS 45.0%
! CAACAGGTTGAAGATCTGAC+CGG - chr1.2:65425613-65425632 MS.gene20805:CDS 45.0%
!! TTTCAATCTACCGGCTTCTC+CGG + chr1.2:65425635-65425654 None:intergenic 45.0%
CAGACTGAGGAAGCAACAAC+AGG - chr1.2:65425597-65425616 MS.gene20805:CDS 50.0%
! CTGTTGTTGCTTCCTCAGTC+TGG + chr1.2:65425599-65425618 None:intergenic 50.0%
! GGAGGAAGCGTATGTGAAGA+TGG - chr1.2:65425693-65425712 MS.gene20805:CDS 50.0%
CCTTAATACTCCGCGCGAGA+CGG + chr1.2:65425669-65425688 None:intergenic 55.0%
GAAGATCTGACCGGAGAAGC+CGG - chr1.2:65425622-65425641 MS.gene20805:CDS 55.0%
TGGATCGTCTCGCGGATTCA+CGG + chr1.2:65425579-65425598 None:intergenic 55.0%
CCTCAGTCTGGATCGTCTCG+CGG + chr1.2:65425587-65425606 None:intergenic 60.0%
TCGAGAATGACCGTCTCGCG+CGG - chr1.2:65425656-65425675 MS.gene20805:CDS 60.0%
! CCGTCTCGCGCGGAGTATTA+AGG - chr1.2:65425666-65425685 MS.gene20805:CDS 60.0%
! CGCGCGGAGTATTAAGGCGA+CGG - chr1.2:65425672-65425691 MS.gene20805:CDS 60.0%
! GCGGAGTATTAAGGCGACGG+AGG - chr1.2:65425675-65425694 MS.gene20805:CDS 60.0%
CCGCGAGACGATCCAGACTG+AGG - chr1.2:65425584-65425603 MS.gene20805:CDS 65.0%


Chromosome Type Strat End Strand Name
chr1.2 gene 65425565 65425924 65425565 ID=MS.gene20805
chr1.2 mRNA 65425565 65425924 65425565 ID=MS.gene20805.t1;Parent=MS.gene20805
chr1.2 exon 65425565 65425924 65425565 ID=MS.gene20805.t1.exon1;Parent=MS.gene20805.t1
chr1.2 CDS 65425565 65425924 65425565 ID=cds.MS.gene20805.t1;Parent=MS.gene20805.t1
Gene Sequence

>MS.gene20805

ATGCTGTCAAACCGTGAATCCGCGAGACGATCCAGACTGAGGAAGCAACAACAGGTTGAAGATCTGACCGGAGAAGCCGGTAGATTGAAAATCGAGAATGACCGTCTCGCGCGGAGTATTAAGGCGACGGAGGAAGCGTATGTGAAGATGGAAGCTGCTAATGATGTTATCAGAGCGCAGACTAAAGAATTGGAGGCTCAGTTTCGGTTTCTGAATTCTGTAATTGATGCTGCTGCTGCTGAAGAGACTAATAGTTTCTCTGTTGATGATGTGCCTTTGATTGATGATCCTCTTCTCAAACCTTGGTTCATACCTTATCCAAATTATTCTATGGCATCACATGAAATGATGCTGCGTTGA
Protein sequence

>MS.gene20805.t1

MLSNRESARRSRLRKQQQVEDLTGEAGRLKIENDRLARSIKATEEAYVKMEAANDVIRAQTKELEAQFRFLNSVIDAAAAEETNSFSVDDVPLIDDPLLKPWFIPYPNYSMASHEMMLR