AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar ZhongmuNo.1 / MsG0480021171.01

Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsG0480021171.01.T01 MTR_4g068310 88.024 167 20 0 1 167 32 198 3.85e-103 294
MsG0480021171.01.T01 MTR_4g068300 55.090 167 54 6 2 149 33 197 4.18e-43 144
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsG0480021171.01.T01 AT5G18090 32.039 103 68 1 11 113 50 150 7.19e-11 59.7

Find 35 sgRNAs with CRISPR-Local

Find 39 sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
CTCTTTCTCTTGGCCACAAT+TGG 0.131130 4:-54648014 None:intergenic
ATGTTCAAGGTGGAAATTTA+TGG 0.176554 4:+54647936 MsG0480021171.01.T01:CDS
ACCGAAGATTGTTATGGATT+TGG 0.260147 4:+54647731 None:intergenic
GAAGAAAGCATCAATTATTC+TGG 0.262336 4:+54647767 MsG0480021171.01.T01:CDS
TGGATTTGGGTGAAGAGTTT+TGG 0.266007 4:+54647745 MsG0480021171.01.T01:CDS
CCGAAGATTGTTATGGATTT+GGG 0.289825 4:+54647732 None:intergenic
AGTGGGACTTGAAGAGTTCT+TGG 0.304248 4:+54647890 MsG0480021171.01.T01:CDS
TTTCCAACGCATACTCTCTT+TGG 0.308501 4:-54648134 None:intergenic
CCCTTCTTTGTCACAATTGT+TGG 0.332631 4:-54648176 None:intergenic
TCTTTCTCTTGGCCACAATT+GGG 0.346000 4:-54648013 None:intergenic
GTGGAAATTTATGGTAAGAA+TGG 0.371009 4:+54647945 MsG0480021171.01.T01:CDS
TTTGTCTTAGCCACAATTGT+TGG 0.398096 4:-54648092 None:intergenic
TGGTCTACCCCTCTTTCTCT+TGG 0.402146 4:-54648024 None:intergenic
TGGAAATTTATGGTAAGAAT+GGG 0.420098 4:+54647946 MsG0480021171.01.T01:CDS
CTTTCTCTTGGCCACAATTG+GGG 0.448018 4:-54648012 None:intergenic
GACATTTATCTGCGAAACAT+TGG 0.475455 4:+54647840 MsG0480021171.01.T01:CDS
ACCAACAATTGTGACAAAGA+AGG 0.484661 4:+54648175 MsG0480021171.01.T01:CDS
TCTACTAAAATAACAGAAAG+AGG 0.490912 4:-54648221 None:intergenic
CAATTGTGGCCAAGAGAAAG+AGG 0.520539 4:+54648015 MsG0480021171.01.T01:CDS
CCAACAATTGTGACAAAGAA+GGG 0.536191 4:+54648176 MsG0480021171.01.T01:CDS
TATTGGAGATAACATGTTCA+AGG 0.538893 4:+54647923 MsG0480021171.01.T01:CDS
AAAATAACAGAAAGAGGAGC+AGG 0.548640 4:-54648215 None:intergenic
TTTATCTGCGAAACATTGGT+TGG 0.556011 4:+54647844 MsG0480021171.01.T01:CDS
AGTTGTTGCAGCCCCAATTG+TGG 0.571592 4:+54648001 MsG0480021171.01.T01:CDS
AATTGTGGCTAAGACAAAGA+TGG 0.585870 4:+54648097 MsG0480021171.01.T01:CDS
AGAAGCTGCACCAACAATTG+TGG 0.589864 4:+54648082 MsG0480021171.01.T01:CDS
TATGCTCTTCGAGTGAGAAG+TGG 0.604662 4:+54647790 MsG0480021171.01.T01:CDS
ATGCTCTTCGAGTGAGAAGT+GGG 0.605893 4:+54647791 MsG0480021171.01.T01:CDS
TTTCTGAAAGACAACTCAGT+GGG 0.610997 4:+54647873 MsG0480021171.01.T01:CDS
AATCCAAAGAGAGTATGCGT+TGG 0.611249 4:+54648131 MsG0480021171.01.T01:CDS
AATTGTGGCCAAGAGAAAGA+GGG 0.618437 4:+54648016 MsG0480021171.01.T01:CDS
TGGAGATAACATGTTCAAGG+TGG 0.674338 4:+54647926 MsG0480021171.01.T01:CDS
CGTTGGAAAACAAAACGCAG+AGG 0.680803 4:+54648148 MsG0480021171.01.T01:CDS
ATTGTGGCCAAGAGAAAGAG+GGG 0.688040 4:+54648017 MsG0480021171.01.T01:CDS
GTTTCTGAAAGACAACTCAG+TGG 0.730659 4:+54647872 MsG0480021171.01.T01:CDS

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
!!! GAAGTTAAAATTTTGAAGAA+AGG + Chr4:54647813-54647832 MsG0480021171.01.T01:CDS 20.0%
! TCTACTAAAATAACAGAAAG+AGG - Chr4:54648224-54648243 None:intergenic 25.0%
! TGGAAATTTATGGTAAGAAT+GGG + Chr4:54647946-54647965 MsG0480021171.01.T01:CDS 25.0%
!!! TTCTTGGTTTTCACATATAT+TGG + Chr4:54647906-54647925 MsG0480021171.01.T01:CDS 25.0%
ATGTTCAAGGTGGAAATTTA+TGG + Chr4:54647936-54647955 MsG0480021171.01.T01:CDS 30.0%
GTGGAAATTTATGGTAAGAA+TGG + Chr4:54647945-54647964 MsG0480021171.01.T01:CDS 30.0%
TATTGGAGATAACATGTTCA+AGG + Chr4:54647923-54647942 MsG0480021171.01.T01:CDS 30.0%
!! GAAGAAAGCATCAATTATTC+TGG + Chr4:54647767-54647786 MsG0480021171.01.T01:CDS 30.0%
AAAAAATCCTGCTGATGTCA+AGG + Chr4:54648049-54648068 MsG0480021171.01.T01:CDS 35.0%
AAAATAACAGAAAGAGGAGC+AGG - Chr4:54648218-54648237 None:intergenic 35.0%
AATTGTGGCTAAGACAAAGA+TGG + Chr4:54648097-54648116 MsG0480021171.01.T01:CDS 35.0%
ACCAACAATTGTGACAAAGA+AGG + Chr4:54648175-54648194 MsG0480021171.01.T01:CDS 35.0%
CCAACAATTGTGACAAAGAA+GGG + Chr4:54648176-54648195 MsG0480021171.01.T01:CDS 35.0%
GACATTTATCTGCGAAACAT+TGG + Chr4:54647840-54647859 MsG0480021171.01.T01:CDS 35.0%
TTTATCTGCGAAACATTGGT+TGG + Chr4:54647844-54647863 MsG0480021171.01.T01:CDS 35.0%
TTTGTCTTAGCCACAATTGT+TGG - Chr4:54648095-54648114 None:intergenic 35.0%
! TTTCTGAAAGACAACTCAGT+GGG + Chr4:54647873-54647892 MsG0480021171.01.T01:CDS 35.0%
!!! ACATCAGCAGGATTTTTTCT+TGG - Chr4:54648047-54648066 None:intergenic 35.0%
!!! TCTTGCTTTTTCTTGAAGCA+TGG - Chr4:54647981-54648000 None:intergenic 35.0%
AATTGTGGCCAAGAGAAAGA+GGG + Chr4:54648016-54648035 MsG0480021171.01.T01:CDS 40.0%
CCCTTCTTTGTCACAATTGT+TGG - Chr4:54648179-54648198 None:intergenic 40.0%
TCTTTCTCTTGGCCACAATT+GGG - Chr4:54648016-54648035 None:intergenic 40.0%
TGGAGATAACATGTTCAAGG+TGG + Chr4:54647926-54647945 MsG0480021171.01.T01:CDS 40.0%
TTTCCAACGCATACTCTCTT+TGG - Chr4:54648137-54648156 None:intergenic 40.0%
! AATCCAAAGAGAGTATGCGT+TGG + Chr4:54648131-54648150 MsG0480021171.01.T01:CDS 40.0%
! GTTTCTGAAAGACAACTCAG+TGG + Chr4:54647872-54647891 MsG0480021171.01.T01:CDS 40.0%
! TGGATTTGGGTGAAGAGTTT+TGG + Chr4:54647745-54647764 MsG0480021171.01.T01:CDS 40.0%
! TTTTCTTCCTTGACATCAGC+AGG - Chr4:54648059-54648078 None:intergenic 40.0%
AGAAGCTGCACCAACAATTG+TGG + Chr4:54648082-54648101 MsG0480021171.01.T01:CDS 45.0%
AGTGGGACTTGAAGAGTTCT+TGG + Chr4:54647890-54647909 MsG0480021171.01.T01:CDS 45.0%
ATGCTCTTCGAGTGAGAAGT+GGG + Chr4:54647791-54647810 MsG0480021171.01.T01:CDS 45.0%
ATTGTGGCCAAGAGAAAGAG+GGG + Chr4:54648017-54648036 MsG0480021171.01.T01:CDS 45.0%
CAATTGTGGCCAAGAGAAAG+AGG + Chr4:54648015-54648034 MsG0480021171.01.T01:CDS 45.0%
CGTTGGAAAACAAAACGCAG+AGG + Chr4:54648148-54648167 MsG0480021171.01.T01:CDS 45.0%
CTCTTTCTCTTGGCCACAAT+TGG - Chr4:54648017-54648036 None:intergenic 45.0%
CTTTCTCTTGGCCACAATTG+GGG - Chr4:54648015-54648034 None:intergenic 45.0%
TATGCTCTTCGAGTGAGAAG+TGG + Chr4:54647790-54647809 MsG0480021171.01.T01:CDS 45.0%
AGTTGTTGCAGCCCCAATTG+TGG + Chr4:54648001-54648020 MsG0480021171.01.T01:CDS 50.0%
TGGTCTACCCCTCTTTCTCT+TGG - Chr4:54648027-54648046 None:intergenic 50.0%
Chromosome Type Strat End Strand Name
Chr4 gene 54647744 54648247 54647744 ID=MsG0480021171.01;Name=MsG0480021171.01
Chr4 mRNA 54647744 54648247 54647744 ID=MsG0480021171.01.T01;Parent=MsG0480021171.01;Name=MsG0480021171.01.T01;_AED=0.45;_eAED=0.45;_QI=0|-1|0|1|-1|1|1|0|167
Chr4 exon 54647744 54648247 54647744 ID=MsG0480021171.01.T01:exon:20243;Parent=MsG0480021171.01.T01
Chr4 CDS 54647744 54648247 54647744 ID=MsG0480021171.01.T01:cds;Parent=MsG0480021171.01.T01
Gene Sequence

>MsG0480021171.01.T01

ATGGATTTGGGTGAAGAGTTTTGGAAGAAAGCATCAATTATTCTGGTATGCTCTTCGAGTGAGAAGTGGGAAGTTAAAATTTTGAAGAAAGGAAATGACATTTATCTGCGAAACATTGGTTGGCAAAAGTTTCTGAAAGACAACTCAGTGGGACTTGAAGAGTTCTTGGTTTTCACATATATTGGAGATAACATGTTCAAGGTGGAAATTTATGGTAAGAATGGGTTAGAGAAACCATGCTTCAAGAAAAAGCAAGAAGTTGTTGCAGCCCCAATTGTGGCCAAGAGAAAGAGGGGTAGACCAAGAAAAAATCCTGCTGATGTCAAGGAAGAAAAAGAAGAAGCTGCACCAACAATTGTGGCTAAGACAAAGATGGTACAAAGAAAAAATCCAAAGAGAGTATGCGTTGGAAAACAAAACGCAGAGGTTTCACCAACAATTGTGACAAAGAAGGGTATATCAAGAAAATGTCCTGCTCCTCTTTCTGTTATTTTAGTAGACTGA
Protein sequence

>MsG0480021171.01.T01

MDLGEEFWKKASIILVCSSSEKWEVKILKKGNDIYLRNIGWQKFLKDNSVGLEEFLVFTYIGDNMFKVEIYGKNGLEKPCFKKKQEVVAAPIVAKRKRGRPRKNPADVKEEKEEAAPTIVAKTKMVQRKNPKRVCVGKQNAEVSPTIVTKKGISRKCPAPLSVILVD*