AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar ZhongmuNo.1 / MsG0680035874.01

Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsG0680035874.01.T01 MTR_5g019500 86.408 103 13 1 9 111 3 104 6.16e-54 180
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsG0680035874.01.T01 AT5G58100 51.136 88 42 1 24 111 24 110 4.41e-23 92.8
MsG0680035874.01.T01 AT5G58100 51.136 88 42 1 24 111 24 110 4.41e-23 92.8

Find 12 sgRNAs with CRISPR-Local

Find 58 sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
GCGTTTAATTACACCAATTC+AGG 0.246688 6:+113780428 MsG0680035874.01.T01:CDS
GAATGCATTCATACCTGAAT+TGG 0.399766 6:-113780441 None:intergenic
TAAAATAAAGTGATAGGAAC+AGG 0.405126 6:-113781191 None:intergenic
GATAGGAACAGGAAGGTAGA+TGG 0.410377 6:-113781180 None:intergenic
AGTGAGGATGTTATACATAA+TGG 0.411527 6:+113780275 MsG0680035874.01.T01:CDS
GAATTGAAGTTTCCAAATCA+TGG 0.420231 6:+113780395 MsG0680035874.01.T01:CDS
AAAACTTAGCAATCAGGAAA+TGG 0.432712 6:-113780118 None:intergenic
TTCTTAGCTGCTACTTCACT+TGG 0.438229 6:+113780170 MsG0680035874.01.T01:CDS
ATCCTATAAAATAAAGTGAT+AGG 0.441637 6:-113781197 None:intergenic
CCTGTTAAAACTCAGAAAAG+TGG 0.512607 6:+113780197 MsG0680035874.01.T01:CDS
TGCGAATTATCTAAAGCTGC+AGG 0.514977 6:+113781148 MsG0680035874.01.T01:CDS
ATAAAGTGATAGGAACAGGA+AGG 0.604173 6:-113781187 None:intergenic

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
!! ATCCTATAAAATAAAGTGAT+AGG - Chr6:113781200-113781219 None:intergenic 20.0%
!! CTTGATTAAAAAATGATTTG+TGG + Chr6:113780664-113780683 MsG0680035874.01.T01:intron 20.0%
!! TCAGAATTAACACAAATAAT+AGG - Chr6:113780879-113780898 None:intergenic 20.0%
!!! TGTTTGATTATACTAGTTTA+GGG + Chr6:113780478-113780497 MsG0680035874.01.T01:intron 20.0%
!!! TTCCTATCACTTTATTTTAT+AGG + Chr6:113781195-113781214 MsG0680035874.01.T01:CDS 20.0%
!!! TTGTTTGATTATACTAGTTT+AGG + Chr6:113780477-113780496 MsG0680035874.01.T01:intron 20.0%
!!! TTTCTAATTTGTTGTATTTC+AGG + Chr6:113781119-113781138 MsG0680035874.01.T01:intron 20.0%
! AAAATAACTACTCATGTGTT+TGG - Chr6:113781009-113781028 None:intergenic 25.0%
! TAAAATAAAGTGATAGGAAC+AGG - Chr6:113781194-113781213 None:intergenic 25.0%
! TCAACTCGAAAAAATAACAA+AGG + Chr6:113780720-113780739 MsG0680035874.01.T01:intron 25.0%
! TGTGTTAATTCCAATTAGTT+AGG - Chr6:113780830-113780849 None:intergenic 25.0%
!! GAAAGATAAATAGTTGGTTT+GGG + Chr6:113780599-113780618 MsG0680035874.01.T01:intron 25.0%
!! TTATTGATTGATTGAGAGTA+GGG + Chr6:113780761-113780780 MsG0680035874.01.T01:intron 25.0%
!! TTTATTGATTGATTGAGAGT+AGG + Chr6:113780760-113780779 MsG0680035874.01.T01:intron 25.0%
!!! AAATGATTTGTGGTATTGAT+AGG + Chr6:113780674-113780693 MsG0680035874.01.T01:intron 25.0%
AAAACTTAGCAATCAGGAAA+TGG - Chr6:113780121-113780140 None:intergenic 30.0%
AGAAGAAAATTGAAGGAAGA+TGG - Chr6:113780315-113780334 None:intergenic 30.0%
AGTGAGGATGTTATACATAA+TGG + Chr6:113780275-113780294 MsG0680035874.01.T01:CDS 30.0%
CAGTAACTATCCTAACTAAT+TGG + Chr6:113780817-113780836 MsG0680035874.01.T01:intron 30.0%
CATCTAGAGAAGAAAATTGA+AGG - Chr6:113780322-113780341 None:intergenic 30.0%
CTCATGGAAAGATAAATAGT+TGG + Chr6:113780593-113780612 MsG0680035874.01.T01:intron 30.0%
GAATTGAAGTTTCCAAATCA+TGG + Chr6:113780395-113780414 MsG0680035874.01.T01:CDS 30.0%
GGAAAGATAAATAGTTGGTT+TGG + Chr6:113780598-113780617 MsG0680035874.01.T01:intron 30.0%
TCATGAAAAACTTAGCAATC+AGG - Chr6:113780127-113780146 None:intergenic 30.0%
TCGAAAAAATAACAAAGGTG+AGG + Chr6:113780725-113780744 MsG0680035874.01.T01:intron 30.0%
TTTCCATGAGTTTCTACATA+AGG - Chr6:113780583-113780602 None:intergenic 30.0%
! AAAAACGACTCTTTTCTTTG+AGG - Chr6:113780253-113780272 None:intergenic 30.0%
!! TCAAAGAAAAGAGTCGTTTT+TGG + Chr6:113780252-113780271 MsG0680035874.01.T01:CDS 30.0%
!! TGAGTTTCTTTTGATTCTCT+TGG + Chr6:113780348-113780367 MsG0680035874.01.T01:intron 30.0%
ATAAAGTGATAGGAACAGGA+AGG - Chr6:113781190-113781209 None:intergenic 35.0%
ATCAAGTGTAACATAGTCTC+CGG - Chr6:113780650-113780669 None:intergenic 35.0%
CAACAATGCAGGAAAAATTG+TGG - Chr6:113780986-113781005 None:intergenic 35.0%
CATCCTTATGTAGAAACTCA+TGG + Chr6:113780577-113780596 MsG0680035874.01.T01:intron 35.0%
CCTGTTAAAACTCAGAAAAG+TGG + Chr6:113780197-113780216 MsG0680035874.01.T01:CDS 35.0%
GAATGCATTCATACCTGAAT+TGG - Chr6:113780444-113780463 None:intergenic 35.0%
GCGTTTAATTACACCAATTC+AGG + Chr6:113780428-113780447 MsG0680035874.01.T01:CDS 35.0%
! GTTGTTCGCTACATCTATTT+TGG + Chr6:113780552-113780571 MsG0680035874.01.T01:intron 35.0%
! TAGGATAGTTACTGATTGAG+AGG - Chr6:113780811-113780830 None:intergenic 35.0%
!! ATAAATAGTTGGTTTGGGCT+TGG + Chr6:113780604-113780623 MsG0680035874.01.T01:intron 35.0%
!! CCACTTTTCTGAGTTTTAAC+AGG - Chr6:113780200-113780219 None:intergenic 35.0%
!! TAAATAGTTGGTTTGGGCTT+GGG + Chr6:113780605-113780624 MsG0680035874.01.T01:intron 35.0%
! TGCGAATTATCTAAAGCTGC+AGG + Chr6:113781148-113781167 MsG0680035874.01.T01:CDS 40.0%
! TTCTTAGCTGCTACTTCACT+TGG + Chr6:113780170-113780189 MsG0680035874.01.T01:CDS 40.0%
!! GCGCTTACTTTTCCATGATT+TGG - Chr6:113780410-113780429 None:intergenic 40.0%
!! TTCGCCACATTTATTTTCGC+CGG + Chr6:113780628-113780647 MsG0680035874.01.T01:intron 40.0%
!!! AAAGAGTCGTTTTTGGAGTG+AGG + Chr6:113780259-113780278 MsG0680035874.01.T01:CDS 40.0%
AGGGAAGACATGTAGCTGTA+TGG + Chr6:113780780-113780799 MsG0680035874.01.T01:intron 45.0%
CATGTGTTTGGCAACAATGC+AGG - Chr6:113780997-113781016 None:intergenic 45.0%
CCTGTAATGTTCCTTGCCAT+GGG + Chr6:113780517-113780536 MsG0680035874.01.T01:intron 45.0%
GATAGGAACAGGAAGGTAGA+TGG - Chr6:113781183-113781202 None:intergenic 45.0%
GTCTCCGGCGAAAATAAATG+TGG - Chr6:113780635-113780654 None:intergenic 45.0%
TCCTGTAATGTTCCTTGCCA+TGG + Chr6:113780516-113780535 MsG0680035874.01.T01:intron 45.0%
CCCATGGCAAGGAACATTAC+AGG - Chr6:113780520-113780539 None:intergenic 50.0%
TAGCTGCACTAGAGTGCGAT+TGG + Chr6:113781055-113781074 MsG0680035874.01.T01:intron 50.0%
TGTTCCTTGCCATGGGACAA+TGG + Chr6:113780524-113780543 MsG0680035874.01.T01:intron 50.0%
TTGCCATGGGACAATGGCTT+CGG + Chr6:113780530-113780549 MsG0680035874.01.T01:intron 50.0%
CAACCGAAGCCATTGTCCCA+TGG - Chr6:113780536-113780555 None:intergenic 55.0%
GAAGCCATTGTCCCATGGCA+AGG - Chr6:113780531-113780550 None:intergenic 55.0%
Chromosome Type Strat End Strand Name
Chr6 gene 113780101 113781223 113780101 ID=MsG0680035874.01;Name=MsG0680035874.01
Chr6 mRNA 113780101 113781223 113780101 ID=MsG0680035874.01.T01;Parent=MsG0680035874.01;Name=MsG0680035874.01.T01;_AED=0.49;_eAED=0.49;_QI=0|1|0.95|1|0.17|0.16|24|0|113
Chr6 exon 113780101 113780296 113780101 ID=MsG0680035874.01.T01:exon:15314;Parent=MsG0680035874.01.T01
Chr6 exon 113780387 113780449 113780387 ID=MsG0680035874.01.T01:exon:15315;Parent=MsG0680035874.01.T01
Chr6 exon 113781141 113781223 113781141 ID=MsG0680035874.01.T01:exon:15316;Parent=MsG0680035874.01.T01
Chr6 CDS 113780101 113780296 113780101 ID=MsG0680035874.01.T01:cds;Parent=MsG0680035874.01.T01
Chr6 CDS 113780387 113780449 113780387 ID=MsG0680035874.01.T01:cds;Parent=MsG0680035874.01.T01
Chr6 CDS 113781141 113781223 113781141 ID=MsG0680035874.01.T01:cds;Parent=MsG0680035874.01.T01
Gene Sequence

>MsG0680035874.01.T01

ATGGATGTTTCATTCTTCCATTTCCTGATTGCTAAGTTTTTCATGATGCTTATTAATTTTCTTTATCAGTTCTTAGCTGCTACTTCACTTGGTTCTCCTGTTAAAACTCAGAAAAGTGGCAGATTATCATCTGTGTTCTCACTGTTTAACCTCAAAGAAAAGAGTCGTTTTTGGAGTGAGGATGTTATACATAATGATATTGATGAATTGAAGTTTCCAAATCATGGAAAAGTAAGCGCGTTTAATTACACCAATTCAGGTAATATTGCGAATTATCTAAAGCTGCAGGAAGTTGATTCCATCTACCTTCCTGTTCCTATCACTTTATTTTATAGGATTTGA
Protein sequence

>MsG0680035874.01.T01

MDVSFFHFLIAKFFMMLINFLYQFLAATSLGSPVKTQKSGRLSSVFSLFNLKEKSRFWSEDVIHNDIDELKFPNHGKVSAFNYTNSGNIANYLKLQEVDSIYLPVPITLFYRI*