AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar ZhongmuNo.1 / MsG0280010144.01


Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsG0280010144.01.T01 MTR_7g033770 98.077 104 2 0 1 104 1 104 2.48e-71 211
MsG0280010144.01.T01 MTR_4g051270 98.077 104 2 0 1 104 1 104 8.17e-69 213
MsG0280010144.01.T01 MTR_7g021770 98.077 104 2 0 1 104 1 104 1.62e-68 212
MsG0280010144.01.T01 MTR_7g117930 97.115 104 3 0 1 104 1 104 9.16e-68 210
MsG0280010144.01.T01 MTR_6g055010 97.115 104 3 0 1 104 1 104 7.27e-67 208
MsG0280010144.01.T01 MTR_0002s0660 92.308 104 8 0 1 104 1 104 1.66e-56 181
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsG0280010144.01.T01 ATCG00490 94.231 104 6 0 1 104 1 104 1.35e-57 184

Find 29 sgRNAs with CRISPR-Local

Find 29 sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
AACCAAAGATACTGATATTT+TGG 0.189663 2:-65301819 MsG0280010144.01.T01:CDS
TGCCAAAATATCAGTATCTT+TGG 0.261849 2:+65301817 None:intergenic
ACCAGTCTTGATCGTTATAA+AGG 0.335616 2:-65301686 MsG0280010144.01.T01:CDS
GTTGCTTTAGTTTCTGTTTG+TGG 0.405159 2:+65301902 None:intergenic
TGAGTCTCTTCTCCAGCAAC+AGG 0.406130 2:+65301644 None:intergenic
AAGTCCGCAACCTGGAGTTC+CGG 0.411431 2:-65301783 MsG0280010144.01.T01:CDS
TACCACATCGAACCTGTTGC+TGG 0.448326 2:-65301656 MsG0280010144.01.T01:CDS
CCATGTCCCAGTGGAAGATT+CGG 0.455307 2:+65301733 None:intergenic
GTATCTTTGGTTTCATACTC+AGG 0.455809 2:+65301830 None:intergenic
GCTTCTTCAGCCGGAACTCC+AGG 0.475175 2:+65301773 None:intergenic
CTCCAGGTTGCGGACTTACT+CGG 0.482249 2:+65301789 None:intergenic
GGAGTTCCGGCTGAAGAAGC+AGG 0.501912 2:-65301770 MsG0280010144.01.T01:CDS
GCAACGGTTGGGTTCAAAGC+TGG 0.510113 2:-65301884 MsG0280010144.01.T01:CDS
GCTGCACCTGCTTCTTCAGC+CGG 0.517443 2:+65301764 None:intergenic
CCGAATCTTCCACTGGGACA+TGG 0.521266 2:-65301733 MsG0280010144.01.T01:CDS
ACAGAAACTAAAGCAACGGT+TGG 0.522484 2:-65301896 MsG0280010144.01.T01:CDS
TCCTTTATAACGATCAAGAC+TGG 0.551429 2:+65301685 None:intergenic
TCAGCCGGAACTCCAGGTTG+CGG 0.552531 2:+65301779 None:intergenic
GTAGCTGCCGAATCTTCCAC+TGG 0.558944 2:-65301740 MsG0280010144.01.T01:CDS
TGGACAACTGTGTGGACCGA+TGG 0.563050 2:-65301713 MsG0280010144.01.T01:CDS
TTCCGAGTAAGTCCGCAACC+TGG 0.563107 2:-65301791 MsG0280010144.01.T01:CDS
CAGAAACTAAAGCAACGGTT+GGG 0.575347 2:-65301895 MsG0280010144.01.T01:CDS
GGCTGAAGAAGCAGGTGCAG+CGG 0.610301 2:-65301762 MsG0280010144.01.T01:CDS
ATCAAGACTGGTAAGTCCAT+CGG 0.625313 2:+65301697 None:intergenic
ACAAACAGAAACTAAAGCAA+CGG 0.643993 2:-65301900 MsG0280010144.01.T01:CDS
CTCCAGCAACAGGTTCGATG+TGG 0.653396 2:+65301654 None:intergenic
CACAGTTGTCCATGTCCCAG+TGG 0.656758 2:+65301724 None:intergenic
TAGCTGCCGAATCTTCCACT+GGG 0.676943 2:-65301739 MsG0280010144.01.T01:CDS
CTGGGACATGGACAACTGTG+TGG 0.707072 2:-65301721 MsG0280010144.01.T01:CDS

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
!! AACCAAAGATACTGATATTT+TGG - Chr2:65301705-65301724 MsG0280010144.01.T01:CDS 25.0%
ACAAACAGAAACTAAAGCAA+CGG - Chr2:65301624-65301643 MsG0280010144.01.T01:CDS 30.0%
TGCCAAAATATCAGTATCTT+TGG + Chr2:65301710-65301729 None:intergenic 30.0%
ACCAGTCTTGATCGTTATAA+AGG - Chr2:65301838-65301857 MsG0280010144.01.T01:CDS 35.0%
TCCTTTATAACGATCAAGAC+TGG + Chr2:65301842-65301861 None:intergenic 35.0%
! GTATCTTTGGTTTCATACTC+AGG + Chr2:65301697-65301716 None:intergenic 35.0%
! GTTGCTTTAGTTTCTGTTTG+TGG + Chr2:65301625-65301644 None:intergenic 35.0%
ACAGAAACTAAAGCAACGGT+TGG - Chr2:65301628-65301647 MsG0280010144.01.T01:CDS 40.0%
ATCAAGACTGGTAAGTCCAT+CGG + Chr2:65301830-65301849 None:intergenic 40.0%
CAGAAACTAAAGCAACGGTT+GGG - Chr2:65301629-65301648 MsG0280010144.01.T01:CDS 40.0%
CCATGTCCCAGTGGAAGATT+CGG + Chr2:65301794-65301813 None:intergenic 50.0%
TACCACATCGAACCTGTTGC+TGG - Chr2:65301868-65301887 MsG0280010144.01.T01:CDS 50.0%
TAGCTGCCGAATCTTCCACT+GGG - Chr2:65301785-65301804 MsG0280010144.01.T01:CDS 50.0%
TGAGTCTCTTCTCCAGCAAC+AGG + Chr2:65301883-65301902 None:intergenic 50.0%
AAGTCCGCAACCTGGAGTTC+CGG - Chr2:65301741-65301760 MsG0280010144.01.T01:CDS 55.0%
CACAGTTGTCCATGTCCCAG+TGG + Chr2:65301803-65301822 None:intergenic 55.0%
CCGAATCTTCCACTGGGACA+TGG - Chr2:65301791-65301810 MsG0280010144.01.T01:CDS 55.0%
CTCCAGCAACAGGTTCGATG+TGG + Chr2:65301873-65301892 None:intergenic 55.0%
CTCCAGGTTGCGGACTTACT+CGG + Chr2:65301738-65301757 None:intergenic 55.0%
CTGGGACATGGACAACTGTG+TGG - Chr2:65301803-65301822 MsG0280010144.01.T01:CDS 55.0%
GCAACGGTTGGGTTCAAAGC+TGG - Chr2:65301640-65301659 MsG0280010144.01.T01:CDS 55.0%
GTAGCTGCCGAATCTTCCAC+TGG - Chr2:65301784-65301803 MsG0280010144.01.T01:CDS 55.0%
TGGACAACTGTGTGGACCGA+TGG - Chr2:65301811-65301830 MsG0280010144.01.T01:CDS 55.0%
TTCCGAGTAAGTCCGCAACC+TGG - Chr2:65301733-65301752 MsG0280010144.01.T01:CDS 55.0%
GCTGCACCTGCTTCTTCAGC+CGG + Chr2:65301763-65301782 None:intergenic 60.0%
GCTTCTTCAGCCGGAACTCC+AGG + Chr2:65301754-65301773 None:intergenic 60.0%
GGAGTTCCGGCTGAAGAAGC+AGG - Chr2:65301754-65301773 MsG0280010144.01.T01:CDS 60.0%
GGCTGAAGAAGCAGGTGCAG+CGG - Chr2:65301762-65301781 MsG0280010144.01.T01:CDS 60.0%
TCAGCCGGAACTCCAGGTTG+CGG + Chr2:65301748-65301767 None:intergenic 60.0%
Chromosome Type Strat End Strand Name
Chr2 gene 65301616 65301930 65301616 ID=MsG0280010144.01;Name=MsG0280010144.01
Chr2 mRNA 65301616 65301930 65301616 ID=MsG0280010144.01.T01;Parent=MsG0280010144.01;Name=MsG0280010144.01.T01;_AED=0.48;_eAED=0.48;_QI=0|-1|0|1|-1|1|1|0|104
Chr2 exon 65301616 65301930 65301616 ID=MsG0280010144.01.T01:exon:18044;Parent=MsG0280010144.01.T01
Chr2 CDS 65301616 65301930 65301616 ID=MsG0280010144.01.T01:cds;Parent=MsG0280010144.01.T01
Gene Sequence

>MsG0280010144.01.T01

ATGTCACCACAAACAGAAACTAAAGCAACGGTTGGGTTCAAAGCTGGTGTTAAAGATTATAGATTGACTTATTATACTCCTGAGTATGAAACCAAAGATACTGATATTTTGGCAGCATTCCGAGTAAGTCCGCAACCTGGAGTTCCGGCTGAAGAAGCAGGTGCAGCGGTAGCTGCCGAATCTTCCACTGGGACATGGACAACTGTGTGGACCGATGGACTTACCAGTCTTGATCGTTATAAAGGACGCTGCTACCACATCGAACCTGTTGCTGGAGAAGAGACTCAATTTATTGCTTATGTAGCTTATCCTTAG

Protein sequence

>MsG0280010144.01.T01

MSPQTETKATVGFKAGVKDYRLTYYTPEYETKDTDILAAFRVSPQPGVPAEEAGAAVAAESSTGTWTTVWTDGLTSLDRYKGRCYHIEPVAGEETQFIAYVAYP*