AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar ZhongmuNo.1 / MsG0380016231.01


Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsG0380016231.01.T01 MTR_3g086050 98.529 68 1 0 1 68 81 148 4.87e-45 144
MsG0380016231.01.T01 MTR_3g052760 44.928 69 31 3 1 68 88 150 4.08e-15 67.4
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score

Find 30 sgRNAs with CRISPR-Local

Find 29 sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
AAGGAGTAGGTGGGTATAGA+AGG 0.294040 3:+80740989 MsG0380016231.01.T01:CDS
ACAAAGAGGATGTTAAAGTT+TGG 0.296691 3:+80741085 MsG0380016231.01.T01:CDS
CAAAGAGGATGTTAAAGTTT+GGG 0.367241 3:+80741086 MsG0380016231.01.T01:CDS
TCTCCTTCTTTAACCTCCCA+TGG 0.463067 3:-80741024 None:intergenic
TCATCACCGCTACCGATTGA+AGG 0.473747 3:+80740970 MsG0380016231.01.T01:CDS
TCAATTGTACTCATTGCAAA+CGG 0.479546 3:-80740940 None:intergenic
CAATTGTACTCATTGCAAAC+GGG 0.496144 3:-80740939 None:intergenic
AGTAGGTGGGTATAGAAGGA+GGG 0.522121 3:+80740993 MsG0380016231.01.T01:CDS
ACATCCTCTTTGTTCATACC+AGG 0.528873 3:-80741075 None:intergenic
GAGTAGGTGGGTATAGAAGG+AGG 0.533601 3:+80740992 MsG0380016231.01.T01:CDS
TACCCACCTACTCCTTCAAT+CGG 0.537111 3:-80740982 None:intergenic
TCAATCGGTAGCGGTGATGA+AGG 0.537337 3:-80740967 None:intergenic
GTAGGTGGGTATAGAAGGAG+GGG 0.548522 3:+80740994 MsG0380016231.01.T01:CDS
GAGAAAGTGAATACAAGATG+AGG 0.559520 3:+80741043 MsG0380016231.01.T01:CDS
AGAGGATGTTAAAGTTTGGG+TGG 0.565386 3:+80741089 MsG0380016231.01.T01:CDS
AAGATGAGGTTTGATATGCC+TGG 0.574216 3:+80741057 MsG0380016231.01.T01:CDS
GAGGATGTTAAAGTTTGGGT+GGG 0.575465 3:+80741090 MsG0380016231.01.T01:CDS
ACACCATGGGAGGTTAAAGA+AGG 0.575898 3:+80741021 MsG0380016231.01.T01:CDS
GGAAACAATGGAAAGCATGA+TGG 0.576838 3:+80740912 MsG0380016231.01.T01:CDS
CCGCTACCGATTGAAGGAGT+AGG 0.588922 3:+80740976 MsG0380016231.01.T01:CDS
GCAAGAGATGATGGAAACAA+TGG 0.589078 3:+80740900 None:intergenic
GAGGGGAAGAACACCATGGG+AGG 0.617779 3:+80741011 MsG0380016231.01.T01:CDS
CCTACTCCTTCAATCGGTAG+CGG 0.626745 3:-80740976 None:intergenic
TTGCAATGAGTACAATTGAG+TGG 0.632366 3:+80740944 MsG0380016231.01.T01:CDS
TGGGTGGGAAGAGAAGATGT+TGG 0.643556 3:+80741105 MsG0380016231.01.T01:CDS
CTACCGATTGAAGGAGTAGG+TGG 0.644787 3:+80740979 MsG0380016231.01.T01:CDS
AAGGAGGGGAAGAACACCAT+GGG 0.659587 3:+80741008 MsG0380016231.01.T01:CDS
TACCGATTGAAGGAGTAGGT+GGG 0.683545 3:+80740980 MsG0380016231.01.T01:CDS
GAAGGAGGGGAAGAACACCA+TGG 0.687857 3:+80741007 MsG0380016231.01.T01:CDS
TATGCCTGGTATGAACAAAG+AGG 0.732695 3:+80741071 MsG0380016231.01.T01:CDS

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
ACAAAGAGGATGTTAAAGTT+TGG + Chr3:80741085-80741104 MsG0380016231.01.T01:CDS 30.0%
CAAAGAGGATGTTAAAGTTT+GGG + Chr3:80741086-80741105 MsG0380016231.01.T01:CDS 30.0%
TCAATTGTACTCATTGCAAA+CGG - Chr3:80740943-80740962 None:intergenic 30.0%
CAATTGTACTCATTGCAAAC+GGG - Chr3:80740942-80740961 None:intergenic 35.0%
GAGAAAGTGAATACAAGATG+AGG + Chr3:80741043-80741062 MsG0380016231.01.T01:CDS 35.0%
TTGCAATGAGTACAATTGAG+TGG + Chr3:80740944-80740963 MsG0380016231.01.T01:CDS 35.0%
AAGATGAGGTTTGATATGCC+TGG + Chr3:80741057-80741076 MsG0380016231.01.T01:CDS 40.0%
ACATCCTCTTTGTTCATACC+AGG - Chr3:80741078-80741097 None:intergenic 40.0%
AGAGGATGTTAAAGTTTGGG+TGG + Chr3:80741089-80741108 MsG0380016231.01.T01:CDS 40.0%
GAGGATGTTAAAGTTTGGGT+GGG + Chr3:80741090-80741109 MsG0380016231.01.T01:CDS 40.0%
TATGCCTGGTATGAACAAAG+AGG + Chr3:80741071-80741090 MsG0380016231.01.T01:CDS 40.0%
! GGAAACAATGGAAAGCATGA+TGG + Chr3:80740912-80740931 MsG0380016231.01.T01:CDS 40.0%
AAGGAGTAGGTGGGTATAGA+AGG + Chr3:80740989-80741008 MsG0380016231.01.T01:CDS 45.0%
ACACCATGGGAGGTTAAAGA+AGG + Chr3:80741021-80741040 MsG0380016231.01.T01:CDS 45.0%
AGTAGGTGGGTATAGAAGGA+GGG + Chr3:80740993-80741012 MsG0380016231.01.T01:CDS 45.0%
TACCCACCTACTCCTTCAAT+CGG - Chr3:80740985-80741004 None:intergenic 45.0%
TCTCCTTCTTTAACCTCCCA+TGG - Chr3:80741027-80741046 None:intergenic 45.0%
! TACCGATTGAAGGAGTAGGT+GGG + Chr3:80740980-80740999 MsG0380016231.01.T01:CDS 45.0%
AAGGAGGGGAAGAACACCAT+GGG + Chr3:80741008-80741027 MsG0380016231.01.T01:CDS 50.0%
CCTACTCCTTCAATCGGTAG+CGG - Chr3:80740979-80740998 None:intergenic 50.0%
GAGTAGGTGGGTATAGAAGG+AGG + Chr3:80740992-80741011 MsG0380016231.01.T01:CDS 50.0%
GTAGGTGGGTATAGAAGGAG+GGG + Chr3:80740994-80741013 MsG0380016231.01.T01:CDS 50.0%
TGGGTGGGAAGAGAAGATGT+TGG + Chr3:80741105-80741124 MsG0380016231.01.T01:CDS 50.0%
! CTACCGATTGAAGGAGTAGG+TGG + Chr3:80740979-80740998 MsG0380016231.01.T01:CDS 50.0%
! TCAATCGGTAGCGGTGATGA+AGG - Chr3:80740970-80740989 None:intergenic 50.0%
! TCATCACCGCTACCGATTGA+AGG + Chr3:80740970-80740989 MsG0380016231.01.T01:CDS 50.0%
GAAGGAGGGGAAGAACACCA+TGG + Chr3:80741007-80741026 MsG0380016231.01.T01:CDS 55.0%
! CCGCTACCGATTGAAGGAGT+AGG + Chr3:80740976-80740995 MsG0380016231.01.T01:CDS 55.0%
GAGGGGAAGAACACCATGGG+AGG + Chr3:80741011-80741030 MsG0380016231.01.T01:CDS 60.0%
Chromosome Type Strat End Strand Name
Chr3 gene 80740907 80741140 80740907 ID=MsG0380016231.01;Name=MsG0380016231.01
Chr3 mRNA 80740907 80741140 80740907 ID=MsG0380016231.01.T01;Parent=MsG0380016231.01;Name=MsG0380016231.01.T01;_AED=0.49;_eAED=0.49;_QI=0|-1|0|1|-1|0|1|0|77
Chr3 exon 80740907 80741140 80740907 ID=MsG0380016231.01.T01:exon:10530;Parent=MsG0380016231.01.T01
Chr3 CDS 80740907 80741140 80740907 ID=MsG0380016231.01.T01:cds;Parent=MsG0380016231.01.T01
Gene Sequence

>MsG0380016231.01.T01

ATGATGGAAACAATGGAAAGCATGATGGAAGACCCGTTTGCAATGAGTACAATTGAGTGGCCTTCATCACCGCTACCGATTGAAGGAGTAGGTGGGTATAGAAGGAGGGGAAGAACACCATGGGAGGTTAAAGAAGGAGAAAGTGAATACAAGATGAGGTTTGATATGCCTGGTATGAACAAAGAGGATGTTAAAGTTTGGGTGGGAAGAGAAGATGTTGGTTGTGAAAGCTGA

Protein sequence

>MsG0380016231.01.T01

MMETMESMMEDPFAMSTIEWPSSPLPIEGVGGYRRRGRTPWEVKEGESEYKMRFDMPGMNKEDVKVWVGREDVGCES*