AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar ZhongmuNo.1 / MsG0780041165.01

Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsG0780041165.01.T01 MTR_7g105630 95.266 169 8 0 4 172 249 417 1.73e-118 341
MsG0780041165.01.T01 MTR_7g105630 96.000 75 3 0 4 78 249 323 4.23e-45 151
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsG0780041165.01.T01 AT4G02220 54.819 166 74 1 4 168 253 418 2.83e-61 195

Find 47 sgRNAs with CRISPR-Local

Find 79 sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
CCACAGCTGTTGTATTATTT+TGG 0.041799 7:+87397003 MsG0780041165.01.T01:CDS
GGATGGCCGACCACTTAAAA+TGG 0.194924 7:-87396807 None:intergenic
TGGCGATGCGTTCCTGAAAA+TGG 0.222371 7:-87396259 None:intergenic
ATCCATGTGTTGTGAATTTC+AGG 0.236396 7:+87396865 MsG0780041165.01.T01:CDS
CAACACCTGTTCAGGGTCTT+TGG 0.277305 7:-87396279 None:intergenic
GAGCTCTAAAATTACACTAT+TGG 0.283442 7:-87397156 None:intergenic
AATCACCTCAACACCTGTTC+AGG 0.301414 7:-87396287 None:intergenic
CCACTTAAAATGGGCCATAT+TGG 0.321648 7:-87396797 None:intergenic
AGCTCTAAAATTACACTATT+GGG 0.327218 7:-87397155 None:intergenic
ATTCCTTGATCTTGAGGAAT+AGG 0.335307 7:+87396095 MsG0780041165.01.T01:CDS
GGATAATGAAGTGAACTCTT+TGG 0.339618 7:+87397029 MsG0780041165.01.T01:CDS
ATTCAAATGCTAAGCCAATA+TGG 0.350498 7:+87396783 MsG0780041165.01.T01:CDS
TCTTCAATGATCTCAAATTC+AGG 0.351934 7:-87396025 None:intergenic
GCATCTAGGGATATCATCTT+TGG 0.370113 7:-87396828 None:intergenic
CCACCGCAATAGATGCATCT+AGG 0.413677 7:-87396842 None:intergenic
GGCGATGCGTTCCTGAAAAT+GGG 0.414062 7:-87396258 None:intergenic
TGAAGTGAACTCTTTGGATT+GGG 0.419740 7:+87397035 MsG0780041165.01.T01:CDS
CAAGCATATTCATGCTTGTA+AGG 0.427777 7:-87397105 None:intergenic
ATGAAGTGAACTCTTTGGAT+TGG 0.428813 7:+87397034 MsG0780041165.01.T01:CDS
CTTACAAGCATGAATATGCT+TGG 0.437386 7:+87397106 MsG0780041165.01.T01:CDS
TGGCTAATTCCTTGATCTTG+AGG 0.467391 7:+87396089 MsG0780041165.01.T01:CDS
TTACAAGCATGAATATGCTT+GGG 0.490144 7:+87397107 MsG0780041165.01.T01:CDS
TGATATCCACTGTTTACAGT+TGG 0.495442 7:+87395986 None:intergenic
GATGGCCGACCACTTAAAAT+GGG 0.496045 7:-87396806 None:intergenic
TGATGAGGACAAAAGGAGTT+GGG 0.514792 7:+87396235 MsG0780041165.01.T01:CDS
CATCGCCAAAGACCCTGAAC+AGG 0.516947 7:+87396274 MsG0780041165.01.T01:CDS
AATAGGGTGATGAGGACAAA+AGG 0.522164 7:+87396228 MsG0780041165.01.T01:intron
ACTCCTATTCCTCAAGATCA+AGG 0.522738 7:-87396098 None:intergenic
ATCACCTCAACACCTGTTCA+GGG 0.524174 7:-87396286 None:intergenic
GTGATGAGGACAAAAGGAGT+TGG 0.537785 7:+87396234 MsG0780041165.01.T01:CDS
CACCGCAATAGATGCATCTA+GGG 0.542417 7:-87396841 None:intergenic
TACACTATTGGGCTGGCAGT+AGG 0.542586 7:-87397144 None:intergenic
CTAAAATTACACTATTGGGC+TGG 0.557787 7:-87397151 None:intergenic
TACCTGAAATTCACAACACA+TGG 0.567690 7:-87396867 None:intergenic
TGACACTATGAATTCACTCA+TGG 0.570096 7:+87396123 MsG0780041165.01.T01:CDS
CGTCTCTGAGGATAATACCT+TGG 0.576097 7:+87396069 MsG0780041165.01.T01:CDS
AAGACCCTGAACAGGTGTTG+AGG 0.591528 7:+87396282 MsG0780041165.01.T01:CDS
AGGCAAACTTGCTTCACAAG+AGG 0.602770 7:-87397085 None:intergenic
CCTAGATGCATCTATTGCGG+TGG 0.609646 7:+87396842 MsG0780041165.01.T01:CDS
CTAGGGATATCATCTTTGGA+TGG 0.616545 7:-87396824 None:intergenic
CAAGATCAAGGAATTAGCCA+AGG 0.623474 7:-87396086 None:intergenic
ATCCCTAGATGCATCTATTG+CGG 0.625456 7:+87396839 MsG0780041165.01.T01:CDS
TTGTTTCCAACTGTAAACAG+TGG 0.627097 7:-87395992 None:intergenic
CCAAAATAATACAACAGCTG+TGG 0.629889 7:-87397003 None:intergenic
CAGTTGGAAACAAACACATG+TGG 0.665557 7:+87396002 MsG0780041165.01.T01:CDS
CGTGTGTGAATAGGGTGATG+AGG 0.689493 7:+87396220 MsG0780041165.01.T01:intron
ATGTAACAAAGACGTCTCTG+AGG 0.692714 7:+87396057 MsG0780041165.01.T01:CDS

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
!! AATATAATCTTAATAAAAAC+AGG - Chr7:87396167-87396186 None:intergenic 10.0%
!! ATATAATCTTAATAAAAACA+GGG - Chr7:87396166-87396185 None:intergenic 10.0%
!! TATAAAATGAAAAAAAAAGA+AGG - Chr7:87396500-87396519 None:intergenic 10.0%
!! AAATTACATTCTAATACTTG+TGG + Chr7:87396738-87396757 MsG0780041165.01.T01:intron 20.0%
!! ATAAAATCAATAACATCATC+CGG - Chr7:87396692-87396711 None:intergenic 20.0%
!!! TAATACTGAAGTGTTAATAT+TGG + Chr7:87396965-87396984 MsG0780041165.01.T01:intron 20.0%
! AACAGTTGGAAAATAGATTA+TGG + Chr7:87396604-87396623 MsG0780041165.01.T01:intron 25.0%
! AATTATTTCGTGTGTGAATA+GGG + Chr7:87396212-87396231 MsG0780041165.01.T01:intron 25.0%
! AGAAAAATAAACAGTAATCC+AGG + Chr7:87396423-87396442 MsG0780041165.01.T01:intron 25.0%
! AGAAAATAATCTGTCACATA+CGG - Chr7:87396355-87396374 None:intergenic 25.0%
! TAAAATCAATAACATCATCC+GGG - Chr7:87396691-87396710 None:intergenic 25.0%
! TAATTATTTCGTGTGTGAAT+AGG + Chr7:87396211-87396230 MsG0780041165.01.T01:intron 25.0%
!! AGATTATTTTCTGAACTGAA+TGG + Chr7:87396363-87396382 MsG0780041165.01.T01:intron 25.0%
!! GATTATTTTCTGAACTGAAT+GGG + Chr7:87396364-87396383 MsG0780041165.01.T01:intron 25.0%
ATTCAAATGCTAAGCCAATA+TGG + Chr7:87396783-87396802 MsG0780041165.01.T01:CDS 30.0%
GAGAAGGAAACAGAAATATT+TGG - Chr7:87396941-87396960 None:intergenic 30.0%
GATGTGTGTTAAAAGTTCAT+CGG + Chr7:87396658-87396677 MsG0780041165.01.T01:intron 30.0%
GGTGTAAAAACAGATATTAC+AGG + Chr7:87396759-87396778 MsG0780041165.01.T01:intron 30.0%
GTTGATATGTCTCAAATGAT+AGG - Chr7:87396478-87396497 None:intergenic 30.0%
GTTGGAAAATAGATTATGGA+AGG + Chr7:87396608-87396627 MsG0780041165.01.T01:intron 30.0%
TATGTCTCAAATGATAGGTT+AGG - Chr7:87396473-87396492 None:intergenic 30.0%
TCTTCAATGATCTCAAATTC+AGG - Chr7:87396028-87396047 None:intergenic 30.0%
TTACAAGCATGAATATGCTT+GGG + Chr7:87397107-87397126 MsG0780041165.01.T01:CDS 30.0%
! CACAGCTGTTGTATTATTTT+GGG + Chr7:87397004-87397023 MsG0780041165.01.T01:CDS 30.0%
! GATGTAAAGCATAATTTTCC+TGG - Chr7:87396444-87396463 None:intergenic 30.0%
! TGAACTTTTAACACACATCT+TGG - Chr7:87396657-87396676 None:intergenic 30.0%
!! ACAGCTGTTGTATTATTTTG+GGG + Chr7:87397005-87397024 MsG0780041165.01.T01:CDS 30.0%
ACTTCAGTATTATCGAGAGA+AGG - Chr7:87396957-87396976 None:intergenic 35.0%
ATCCATGTGTTGTGAATTTC+AGG + Chr7:87396865-87396884 MsG0780041165.01.T01:CDS 35.0%
ATGAAGTGAACTCTTTGGAT+TGG + Chr7:87397034-87397053 MsG0780041165.01.T01:CDS 35.0%
ATTCCTTGATCTTGAGGAAT+AGG + Chr7:87396095-87396114 MsG0780041165.01.T01:CDS 35.0%
CAAGCATATTCATGCTTGTA+AGG - Chr7:87397108-87397127 None:intergenic 35.0%
CCAAAATAATACAACAGCTG+TGG - Chr7:87397006-87397025 None:intergenic 35.0%
CTTACAAGCATGAATATGCT+TGG + Chr7:87397106-87397125 MsG0780041165.01.T01:CDS 35.0%
GGATAATGAAGTGAACTCTT+TGG + Chr7:87397029-87397048 MsG0780041165.01.T01:CDS 35.0%
TACCTGAAATTCACAACACA+TGG - Chr7:87396870-87396889 None:intergenic 35.0%
TGAAGTAGAGAACTAACAGT+TGG + Chr7:87396590-87396609 MsG0780041165.01.T01:intron 35.0%
TGAAGTGAACTCTTTGGATT+GGG + Chr7:87397035-87397054 MsG0780041165.01.T01:CDS 35.0%
TGACACTATGAATTCACTCA+TGG + Chr7:87396123-87396142 MsG0780041165.01.T01:CDS 35.0%
! CCACAGCTGTTGTATTATTT+TGG + Chr7:87397003-87397022 MsG0780041165.01.T01:CDS 35.0%
AAGTTCATCGGTGTATAACC+CGG + Chr7:87396670-87396689 MsG0780041165.01.T01:intron 40.0%
AATAGGGTGATGAGGACAAA+AGG + Chr7:87396228-87396247 MsG0780041165.01.T01:intron 40.0%
ACTCCTATTCCTCAAGATCA+AGG - Chr7:87396101-87396120 None:intergenic 40.0%
ATCCCTAGATGCATCTATTG+CGG + Chr7:87396839-87396858 MsG0780041165.01.T01:CDS 40.0%
ATGTAACAAAGACGTCTCTG+AGG + Chr7:87396057-87396076 MsG0780041165.01.T01:CDS 40.0%
CAAGATCAAGGAATTAGCCA+AGG - Chr7:87396089-87396108 None:intergenic 40.0%
CAGTTGGAAACAAACACATG+TGG + Chr7:87396002-87396021 MsG0780041165.01.T01:CDS 40.0%
CCACTTAAAATGGGCCATAT+TGG - Chr7:87396800-87396819 None:intergenic 40.0%
CTAGGGATATCATCTTTGGA+TGG - Chr7:87396827-87396846 None:intergenic 40.0%
GCATCTAGGGATATCATCTT+TGG - Chr7:87396831-87396850 None:intergenic 40.0%
GGTGCATGATTATCAAAGCA+GGG - Chr7:87396636-87396655 None:intergenic 40.0%
GGTTGACCAAACAAGAGAAA+TGG - Chr7:87396920-87396939 None:intergenic 40.0%
GTCTCAAATGATAGGTTAGG+TGG - Chr7:87396470-87396489 None:intergenic 40.0%
TGATGAGGACAAAAGGAGTT+GGG + Chr7:87396235-87396254 MsG0780041165.01.T01:CDS 40.0%
TGGCTAATTCCTTGATCTTG+AGG + Chr7:87396089-87396108 MsG0780041165.01.T01:CDS 40.0%
TGGTGCATGATTATCAAAGC+AGG - Chr7:87396637-87396656 None:intergenic 40.0%
! CCAATATGGCCCATTTTAAG+TGG + Chr7:87396797-87396816 MsG0780041165.01.T01:CDS 40.0%
! GTACTGCCATTTCTCTTGTT+TGG + Chr7:87396911-87396930 MsG0780041165.01.T01:intron 40.0%
!! TATGGCCCATTTTAAGTGGT+CGG + Chr7:87396801-87396820 MsG0780041165.01.T01:CDS 40.0%
!!! GCTGTTGTATTATTTTGGGG+TGG + Chr7:87397008-87397027 MsG0780041165.01.T01:CDS 40.0%
AATCACCTCAACACCTGTTC+AGG - Chr7:87396290-87396309 None:intergenic 45.0%
ACAACAGCTGTGGCAAAATC+TGG - Chr7:87396996-87397015 None:intergenic 45.0%
ATCACCTCAACACCTGTTCA+GGG - Chr7:87396289-87396308 None:intergenic 45.0%
CACCGCAATAGATGCATCTA+GGG - Chr7:87396844-87396863 None:intergenic 45.0%
GATGGCCGACCACTTAAAAT+GGG - Chr7:87396809-87396828 None:intergenic 45.0%
GTGATGAGGACAAAAGGAGT+TGG + Chr7:87396234-87396253 MsG0780041165.01.T01:CDS 45.0%
! AGGCAAACTTGCTTCACAAG+AGG - Chr7:87397088-87397107 None:intergenic 45.0%
! CGTCTCTGAGGATAATACCT+TGG + Chr7:87396069-87396088 MsG0780041165.01.T01:CDS 45.0%
CAACACCTGTTCAGGGTCTT+TGG - Chr7:87396282-87396301 None:intergenic 50.0%
CCACCGCAATAGATGCATCT+AGG - Chr7:87396845-87396864 None:intergenic 50.0%
CCTAGATGCATCTATTGCGG+TGG + Chr7:87396842-87396861 MsG0780041165.01.T01:CDS 50.0%
CGTGTGTGAATAGGGTGATG+AGG + Chr7:87396220-87396239 MsG0780041165.01.T01:intron 50.0%
GGATGGCCGACCACTTAAAA+TGG - Chr7:87396810-87396829 None:intergenic 50.0%
GGCGATGCGTTCCTGAAAAT+GGG - Chr7:87396261-87396280 None:intergenic 50.0%
TGGCGATGCGTTCCTGAAAA+TGG - Chr7:87396262-87396281 None:intergenic 50.0%
! AAGACCCTGAACAGGTGTTG+AGG + Chr7:87396282-87396301 MsG0780041165.01.T01:CDS 50.0%
! AAGGAGTTGGGCCCATTTTC+AGG + Chr7:87396247-87396266 MsG0780041165.01.T01:CDS 50.0%
!! TACACTATTGGGCTGGCAGT+AGG - Chr7:87397147-87397166 None:intergenic 50.0%
CATCGCCAAAGACCCTGAAC+AGG + Chr7:87396274-87396293 MsG0780041165.01.T01:CDS 55.0%
Chromosome Type Strat End Strand Name
Chr7 gene 87395995 87397167 87395995 ID=MsG0780041165.01;Name=MsG0780041165.01
Chr7 mRNA 87395995 87397167 87395995 ID=MsG0780041165.01.T01;Parent=MsG0780041165.01;Name=MsG0780041165.01.T01;_AED=0.43;_eAED=0.43;_QI=0|0|0|1|1|1|4|0|172
Chr7 exon 87395995 87396156 87395995 ID=MsG0780041165.01.T01:exon:41338;Parent=MsG0780041165.01.T01
Chr7 exon 87396233 87396303 87396233 ID=MsG0780041165.01.T01:exon:41339;Parent=MsG0780041165.01.T01
Chr7 exon 87396772 87396886 87396772 ID=MsG0780041165.01.T01:exon:41340;Parent=MsG0780041165.01.T01
Chr7 exon 87396997 87397167 87396997 ID=MsG0780041165.01.T01:exon:41341;Parent=MsG0780041165.01.T01
Chr7 CDS 87395995 87396156 87395995 ID=MsG0780041165.01.T01:cds;Parent=MsG0780041165.01.T01
Chr7 CDS 87396233 87396303 87396233 ID=MsG0780041165.01.T01:cds;Parent=MsG0780041165.01.T01
Chr7 CDS 87396772 87396886 87396772 ID=MsG0780041165.01.T01:cds;Parent=MsG0780041165.01.T01
Chr7 CDS 87396997 87397167 87396997 ID=MsG0780041165.01.T01:cds;Parent=MsG0780041165.01.T01
Gene Sequence

>MsG0780041165.01.T01

CTGTTTACAGTTGGAAACAAACACATGTGGCCTGAATTTGAGATCATTGAAGATCAAAGTGAATGTAACAAAGACGTCTCTGAGGATAATACCTTGGCTAATTCCTTGATCTTGAGGAATAGGAGTGATGACACTATGAATTCACTCATGGATAGTTTTCATGGTGATGAGGACAAAAGGAGTTGGGCCCATTTTCAGGAACGCATCGCCAAAGACCCTGAACAGGTGTTGAGATATTACAGGAATTCAAATGCTAAGCCAATATGGCCCATTTTAAGTGGTCGGCCATCCAAAGATGATATCCCTAGATGCATCTATTGCGGTGGATCCATGTGTTGTGAATTTCAGATTTTGCCACAGCTGTTGTATTATTTTGGGGTGGATAATGAAGTGAACTCTTTGGATTGGGCTTCGATTGTCGTATATGCATATGAAGCCTCTTGTGAAGCAAGTTTGCCTTACAAGCATGAATATGCTTGGGTTCAACTTTATTCACCTACTGCCAGCCCAATAGTGTAA
Protein sequence

>MsG0780041165.01.T01

LFTVGNKHMWPEFEIIEDQSECNKDVSEDNTLANSLILRNRSDDTMNSLMDSFHGDEDKRSWAHFQERIAKDPEQVLRYYRNSNAKPIWPILSGRPSKDDIPRCIYCGGSMCCEFQILPQLLYYFGVDNEVNSLDWASIVVYAYEASCEASLPYKHEYAWVQLYSPTASPIV*