AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar ZhongmuNo.1 / MsG0380014050.01


Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score

Find 9 sgRNAs with CRISPR-Local

Find 24 sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
GAAAGAAAACATAGAGATTA+TGG 0.215607 3:+48731143 MsG0380014050.01.T01:CDS
TACGTAAATTATAAGTAAAA+AGG 0.320012 3:-48731220 None:intergenic
TTATTTCTAATAAATACTTC+GGG 0.385730 3:-48731116 None:intergenic
TTATCTCGATGATATAAAAT+CGG 0.425719 3:-48731038 None:intergenic
AATATCACGAATAACAATAT+CGG 0.432137 3:-48731012 None:intergenic
TTTATTTCTAATAAATACTT+CGG 0.454517 3:-48731117 None:intergenic
TATACATAGGGTACTTAATG+AGG 0.568798 3:-48730796 None:intergenic
TTAAGTACCCTATGTATACT+CGG 0.602064 3:+48730801 MsG0380014050.01.T01:CDS
TCTTTCGTCAGTAAATTCAG+TGG 0.659250 3:-48731069 None:intergenic

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
!! ATTATACTAAAAAAGAAAAA+AGG - Chr3:48730856-48730875 None:intergenic 10.0%
!!! TTTATTTCTAATAAATACTT+CGG - Chr3:48731120-48731139 None:intergenic 10.0%
!!! TTTTTTTTTTTTATTTGGTA+TGG + Chr3:48730930-48730949 MsG0380014050.01.T01:intron 10.0%
!! ACTTATAATTTACGTAAAAA+CGG + Chr3:48731227-48731246 MsG0380014050.01.T01:CDS 15.0%
!! AGAATTAAATAGTATAACAT+AGG - Chr3:48730968-48730987 None:intergenic 15.0%
!! TACGTAAATTATAAGTAAAA+AGG - Chr3:48731223-48731242 None:intergenic 15.0%
!!! TCTTTTTTAGTATAATGTAA+AGG + Chr3:48730860-48730879 MsG0380014050.01.T01:intron 15.0%
!!! TTATTTCTAATAAATACTTC+GGG - Chr3:48731119-48731138 None:intergenic 15.0%
!! AAAAAAATCTCATTTCTAAC+AGG + Chr3:48730826-48730845 MsG0380014050.01.T01:intron 20.0%
!! AAAAAATCTCATTTCTAACA+GGG + Chr3:48730827-48730846 MsG0380014050.01.T01:intron 20.0%
!! AATATCACGAATAACAATAT+CGG - Chr3:48731015-48731034 None:intergenic 20.0%
!! TTATCTCGATGATATAAAAT+CGG - Chr3:48731041-48731060 None:intergenic 20.0%
!! TTTAGTATAATGTAAAGGTT+CGG + Chr3:48730865-48730884 MsG0380014050.01.T01:intron 20.0%
!!! GAAAGATTTTTCATTTCTAT+GGG + Chr3:48731086-48731105 MsG0380014050.01.T01:CDS 20.0%
! ATTATAAGTAAAAAGGCAGT+AGG - Chr3:48731216-48731235 None:intergenic 25.0%
! GAAAGAAAACATAGAGATTA+TGG + Chr3:48731143-48731162 MsG0380014050.01.T01:CDS 25.0%
!! CGAAAGATTTTTCATTTCTA+TGG + Chr3:48731085-48731104 MsG0380014050.01.T01:CDS 25.0%
!!! TTTTTTACCGAGTATACATA+GGG - Chr3:48730811-48730830 None:intergenic 25.0%
!!! TTTTTTTACCGAGTATACAT+AGG - Chr3:48730812-48730831 None:intergenic 25.0%
TTAAGTACCCTATGTATACT+CGG + Chr3:48730801-48730820 MsG0380014050.01.T01:CDS 30.0%
! TATACATAGGGTACTTAATG+AGG - Chr3:48730799-48730818 None:intergenic 30.0%
TCTTTCGTCAGTAAATTCAG+TGG - Chr3:48731072-48731091 None:intergenic 35.0%
GTTCGGACGAAGAAAGAAAA+AGG + Chr3:48730882-48730901 MsG0380014050.01.T01:intron 40.0%
!!! AGTAATTTTTTTTTTTTATT+TGG + Chr3:48730925-48730944 MsG0380014050.01.T01:intron 5.0%
Chromosome Type Strat End Strand Name
Chr3 gene 48730782 48731262 48730782 ID=MsG0380014050.01;Name=MsG0380014050.01
Chr3 mRNA 48730782 48731262 48730782 ID=MsG0380014050.01.T01;Parent=MsG0380014050.01;Name=MsG0380014050.01.T01;_AED=0.50;_eAED=1.00;_QI=0|0|0|1|0|0|2|0|97
Chr3 exon 48730782 48730822 48730782 ID=MsG0380014050.01.T01:exon:8575;Parent=MsG0380014050.01.T01
Chr3 exon 48731010 48731262 48731010 ID=MsG0380014050.01.T01:exon:8576;Parent=MsG0380014050.01.T01
Chr3 CDS 48730782 48730822 48730782 ID=MsG0380014050.01.T01:cds;Parent=MsG0380014050.01.T01
Chr3 CDS 48731010 48731262 48731010 ID=MsG0380014050.01.T01:cds;Parent=MsG0380014050.01.T01
Gene Sequence

>MsG0380014050.01.T01

ATGGAATATGTATGCCTCATTAAGTACCCTATGTATACTCGCTCCGATATTGTTATTCGTGATATTGATCCGATTTTATATCATCGAGATAAAATTTATACCACTGAATTTACTGACGAAAGATTTTTCATTTCTATGGGATTAAATCCCGAAGTATTTATTAGAAATAAAAGAGAAAGAAAACATAGAGATTATGGAAGTCAATATTCTCGCATTTATAGCTACTGCACTCTTCATTCTAGTTCCTACTGCCTTTTTACTTATAATTTACGTAAAAACGGTAAGTCAAAGTGA

Protein sequence

>MsG0380014050.01.T01

MEYVCLIKYPMYTRSDIVIRDIDPILYHRDKIYTTEFTDERFFISMGLNPEVFIRNKRERKHRDYGSQYSRIYSYCTLHSSSYCLFTYNLRKNGKSK*