AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar XinJiangDaYe / MS.gene20780

Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene20780.t1 MTR_1g087710 96.757 185 6 0 1 185 1 185 2.13e-134 373
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene20780.t1 AT5G38700 47.568 185 73 8 4 178 7 177 7.16e-43 141
MS.gene20780.t1 AT4G02170 44.444 180 72 8 3 178 9 164 1.20e-37 128

Find 31 sgRNAs with CRISPR-Local

Find 31 sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
TGTATTGTAGAAGAGAAATT+TGG 0.265595 1.2:+65758135 None:intergenic
CAATCAGTTCGTGTCTCTGC+TGG 0.266163 1.2:+65758103 None:intergenic
CCAAAGTATTTGAAACGTTT+AGG 0.333723 1.2:-65758521 MS.gene20780:CDS
AAGTAGTGAATTTGATTAGT+AGG 0.363808 1.2:+65758485 None:intergenic
CCTAAACGTTTCAAATACTT+TGG 0.411626 1.2:+65758521 None:intergenic
GGTTGAACTATGTGAAGAAA+TGG 0.440425 1.2:-65758249 MS.gene20780:CDS
ATGCTCTACGACCAACATTA+CGG 0.446197 1.2:+65758627 None:intergenic
CACGTAAAAGTGGTGTGTTT+AGG 0.450583 1.2:-65758574 MS.gene20780:CDS
AATTTCTCTTCTACAATACA+AGG 0.499143 1.2:-65758132 MS.gene20780:CDS
GTTGCGGCTCTCATTGTTGT+GGG 0.511706 1.2:-65758597 MS.gene20780:CDS
GGGTTTATACACGGAATATG+AGG 0.528412 1.2:+65758383 None:intergenic
AATCAGTTCGTGTCTCTGCT+GGG 0.530386 1.2:+65758104 None:intergenic
AAGTGAAAGCGCAACGATGA+TGG 0.530892 1.2:+65758407 None:intergenic
AAGAGTGATCTAGTCGATGA+AGG 0.538924 1.2:-65758299 MS.gene20780:CDS
GAAGAAGTGCAAGAAGGTGA+AGG 0.541678 1.2:-65758218 MS.gene20780:CDS
GATATTGTTGAATATGACAA+TGG 0.565185 1.2:-65758326 MS.gene20780:CDS
TGTTGCGGCTCTCATTGTTG+TGG 0.565724 1.2:-65758598 MS.gene20780:CDS
GTAATGTTGGTCGTAGAGCA+TGG 0.569096 1.2:-65758625 MS.gene20780:CDS
ATATTGTTGAATATGACAAT+GGG 0.571171 1.2:-65758325 MS.gene20780:CDS
GAACATAGGTGTCTCATCAA+AGG 0.572782 1.2:+65758448 None:intergenic
TCATAATCAAAATCAACATG+TGG 0.573660 1.2:+65758362 None:intergenic
TCTTTGAAGAACCGTAATGT+TGG 0.586513 1.2:-65758638 MS.gene20780:CDS
GTTGAACTATGTGAAGAAAT+GGG 0.594093 1.2:-65758248 MS.gene20780:CDS
CATAATCAAAATCAACATGT+GGG 0.597783 1.2:+65758363 None:intergenic
TCTAGAGAAGAAGTGCAAGA+AGG 0.611860 1.2:-65758224 MS.gene20780:CDS
TTGTTGTGGGCACGTAAAAG+TGG 0.612261 1.2:-65758584 MS.gene20780:CDS
GCTGTAGTCTCATTTGCTGA+CGG 0.612685 1.2:+65758159 None:intergenic
TCAACATGTGGGTTTATACA+CGG 0.620730 1.2:+65758374 None:intergenic
ATTACGGTTCTTCAAAGACA+TGG 0.628084 1.2:+65758643 None:intergenic
GTAGAGCATGGAATATGTTG+CGG 0.642910 1.2:-65758613 MS.gene20780:CDS
TACATCTTGACATTGAACAT+AGG 0.655429 1.2:+65758434 None:intergenic

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
!! ATATTGTTGAATATGACAAT+GGG - chr1.2:65758422-65758441 MS.gene20780:CDS 20.0%
! AAGTAGTGAATTTGATTAGT+AGG + chr1.2:65758265-65758284 None:intergenic 25.0%
! AATTTCTCTTCTACAATACA+AGG - chr1.2:65758615-65758634 MS.gene20780:CDS 25.0%
! CATAATCAAAATCAACATGT+GGG + chr1.2:65758387-65758406 None:intergenic 25.0%
! GATATTGTTGAATATGACAA+TGG - chr1.2:65758421-65758440 MS.gene20780:CDS 25.0%
! TCATAATCAAAATCAACATG+TGG + chr1.2:65758388-65758407 None:intergenic 25.0%
! TGTATTGTAGAAGAGAAATT+TGG + chr1.2:65758615-65758634 None:intergenic 25.0%
!! ATGACGAAGAATTTTATCAT+GGG - chr1.2:65758476-65758495 MS.gene20780:CDS 25.0%
!! TATGACGAAGAATTTTATCA+TGG - chr1.2:65758475-65758494 MS.gene20780:CDS 25.0%
CCTAAACGTTTCAAATACTT+TGG + chr1.2:65758229-65758248 None:intergenic 30.0%
GTTGAACTATGTGAAGAAAT+GGG - chr1.2:65758499-65758518 MS.gene20780:CDS 30.0%
TACATCTTGACATTGAACAT+AGG + chr1.2:65758316-65758335 None:intergenic 30.0%
! CCAAAGTATTTGAAACGTTT+AGG - chr1.2:65758226-65758245 MS.gene20780:CDS 30.0%
! TGACGAAGAATTTTATCATG+GGG - chr1.2:65758477-65758496 MS.gene20780:CDS 30.0%
GGTTGAACTATGTGAAGAAA+TGG - chr1.2:65758498-65758517 MS.gene20780:CDS 35.0%
TCAACATGTGGGTTTATACA+CGG + chr1.2:65758376-65758395 None:intergenic 35.0%
! TCTTTGAAGAACCGTAATGT+TGG - chr1.2:65758109-65758128 MS.gene20780:CDS 35.0%
AAGAGTGATCTAGTCGATGA+AGG - chr1.2:65758448-65758467 MS.gene20780:CDS 40.0%
ATGCTCTACGACCAACATTA+CGG + chr1.2:65758123-65758142 None:intergenic 40.0%
CACGTAAAAGTGGTGTGTTT+AGG - chr1.2:65758173-65758192 MS.gene20780:CDS 40.0%
GAACATAGGTGTCTCATCAA+AGG + chr1.2:65758302-65758321 None:intergenic 40.0%
GGGTTTATACACGGAATATG+AGG + chr1.2:65758367-65758386 None:intergenic 40.0%
GTAGAGCATGGAATATGTTG+CGG - chr1.2:65758134-65758153 MS.gene20780:CDS 40.0%
! TCTAGAGAAGAAGTGCAAGA+AGG - chr1.2:65758523-65758542 MS.gene20780:CDS 40.0%
GTAATGTTGGTCGTAGAGCA+TGG - chr1.2:65758122-65758141 MS.gene20780:CDS 45.0%
TTGTTGTGGGCACGTAAAAG+TGG - chr1.2:65758163-65758182 MS.gene20780:CDS 45.0%
! AAGTGAAAGCGCAACGATGA+TGG + chr1.2:65758343-65758362 None:intergenic 45.0%
! GAAGAAGTGCAAGAAGGTGA+AGG - chr1.2:65758529-65758548 MS.gene20780:CDS 45.0%
! GCTGTAGTCTCATTTGCTGA+CGG + chr1.2:65758591-65758610 None:intergenic 45.0%
GTTGCGGCTCTCATTGTTGT+GGG - chr1.2:65758150-65758169 MS.gene20780:CDS 50.0%
TGTTGCGGCTCTCATTGTTG+TGG - chr1.2:65758149-65758168 MS.gene20780:CDS 50.0%


Chromosome Type Strat End Strand Name
chr1.2 gene 65758106 65758663 65758106 ID=MS.gene20780
chr1.2 mRNA 65758106 65758663 65758106 ID=MS.gene20780.t1;Parent=MS.gene20780
chr1.2 exon 65758106 65758663 65758106 ID=MS.gene20780.t1.exon1;Parent=MS.gene20780.t1
chr1.2 CDS 65758106 65758663 65758106 ID=cds.MS.gene20780.t1;Parent=MS.gene20780.t1
Gene Sequence

>MS.gene20780

ATGTCTTTGAAGAACCGTAATGTTGGTCGTAGAGCATGGAATATGTTGCGGCTCTCATTGTTGTGGGCACGTAAAAGTGGTGTGTTTAGGCGCAAGCTAGCGACAGAGCTGCGTCTTGTACCAAAGTATTTGAAACGTTTAGGACACACAACAACACCTACTAATCAAATTCACTACTTTGAACGTGAGCTCTCCTTTGATGAGACACCTATGTTCAATGTCAAGATGTATCGTCCATCATCGTTGCGCTTTCACTTGCCTCATATTCCGTGTATAAACCCACATGTTGATTTTGATTATGATTTTAATGATGATGATATTGTTGAATATGACAATGGGAGAAAGAGTGATCTAGTCGATGAAGGAGATTATGACGAAGAATTTTATCATGGGGTTGAACTATGTGAAGAAATGGGTTCTAGAGAAGAAGTGCAAGAAGGTGAAGGAATAGATAAACGTGCTGATGAGTTCATTGCTAAATTCCGTCAGCAAATGAGACTACAGCGCCAAATTTCTCTTCTACAATACAAGGAAACACCCAGCAGAGACACGAACTGA
Protein sequence

>MS.gene20780.t1

MSLKNRNVGRRAWNMLRLSLLWARKSGVFRRKLATELRLVPKYLKRLGHTTTPTNQIHYFERELSFDETPMFNVKMYRPSSLRFHLPHIPCINPHVDFDYDFNDDDIVEYDNGRKSDLVDEGDYDEEFYHGVELCEEMGSREEVQEGEGIDKRADEFIAKFRQQMRLQRQISLLQYKETPSRDTN