AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar ZhongmuNo.1 / MsG0280010816.01


Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsG0280010816.01.T01 MTR_2g091135 78.680 197 6 2 9 169 86 282 8.30e-96 290
MsG0280010816.01.T01 MTR_2g091135 78.680 197 6 2 9 169 86 282 1.78e-95 290
MsG0280010816.01.T01 MTR_2g091130 76.884 199 9 2 8 169 73 271 1.40e-93 285
MsG0280010816.01.T01 MTR_4g079650 60.000 130 50 2 43 172 506 633 7.90e-34 126
MsG0280010816.01.T01 MTR_4g079650 60.000 130 50 2 43 172 506 633 8.15e-34 126
MsG0280010816.01.T01 MTR_4g079650 60.000 130 50 2 43 172 506 633 8.78e-34 126
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsG0280010816.01.T01 AT1G06230 51.538 130 51 4 43 167 273 395 5.77e-28 110
MsG0280010816.01.T01 AT1G06230 51.538 130 51 4 43 167 273 395 5.77e-28 110
MsG0280010816.01.T01 AT1G06230 51.538 130 51 4 43 167 273 395 5.77e-28 110
MsG0280010816.01.T01 AT1G06230 51.538 130 51 4 43 167 273 395 5.77e-28 110

Find 61 sgRNAs with CRISPR-Local

Find 68 sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
CGGTGAGGTCTTTGGTGATT+AGG 0.271715 2:+75415954 MsG0280010816.01.T01:CDS
CTAACACCATTACACTTAAC+TGG 0.281372 2:-75416129 None:intergenic
AAGCATGGCGTTGGAGAAAT+AGG 0.295219 2:+75416297 MsG0280010816.01.T01:CDS
CTCCGCCAGTTGTGAATTCT+AGG 0.296493 2:+75415730 MsG0280010816.01.T01:CDS
GTTCAACAGTTGGATGGTTT+TGG 0.308021 2:+75415686 MsG0280010816.01.T01:CDS
GATCGTTATAGGGTTGATAA+TGG 0.315135 2:+75416034 MsG0280010816.01.T01:CDS
CCTTGAAACGGTGAGGTCTT+TGG 0.332395 2:+75415946 MsG0280010816.01.T01:CDS
CGCAAGCAAGAATTCCGAAT+TGG 0.349984 2:-75416221 None:intergenic
ATGTGTCTGTGGATCGTTAT+AGG 0.361266 2:+75416023 MsG0280010816.01.T01:CDS
GTGTTCCGAGAGAGGCTAAT+AGG 0.362707 2:+75416098 MsG0280010816.01.T01:CDS
GGTTCCGGAGGATGGGAATT+CGG 0.396211 2:+75415707 MsG0280010816.01.T01:CDS
CAACGGATGGCTGGGAGGTA+TGG 0.413417 2:+75415989 MsG0280010816.01.T01:CDS
GAAGAGAAACAACGGATGGC+TGG 0.423094 2:+75415980 MsG0280010816.01.T01:CDS
GAATAGAACTGGTTCGCCTT+AGG 0.428319 2:-75416199 None:intergenic
ATTCCGAATTGGAATAGAAC+TGG 0.439085 2:-75416210 None:intergenic
GACTTCTTGTTACTCTCAGC+AGG 0.439511 2:-75416259 None:intergenic
GGATAACGGGAATAATGTTT+CGG 0.452791 2:+75415664 None:intergenic
ATCGTTATAGGGTTGATAAT+GGG 0.456646 2:+75416035 MsG0280010816.01.T01:CDS
AAGAGATGCGGGAGATTAAG+AGG 0.463397 2:+75415909 MsG0280010816.01.T01:CDS
CACTCGGAGGTAGCTTCTGC+AGG 0.470610 2:+75416076 MsG0280010816.01.T01:CDS
TACACGCCAGTTAAGTGTAA+TGG 0.471994 2:+75416123 MsG0280010816.01.T01:CDS
GAGATTAAGAGGAAGCTTGA+AGG 0.483818 2:+75415920 MsG0280010816.01.T01:CDS
GAACCAGTTCTATTCCAATT+CGG 0.484886 2:+75416207 MsG0280010816.01.T01:CDS
TAATGTTTCGGTTCAACAGT+TGG 0.486868 2:+75415676 None:intergenic
TGTGTCTGTGGATCGTTATA+GGG 0.499515 2:+75416024 MsG0280010816.01.T01:CDS
CGATAAGAAGGGTTGGAGAA+TGG 0.508494 2:+75415872 MsG0280010816.01.T01:intron
TGGAGCTAAGCGCGCTCACT+CGG 0.512470 2:+75416060 MsG0280010816.01.T01:CDS
TCCAACCTAGAATTCACAAC+TGG 0.516769 2:-75415735 None:intergenic
CATGGAAAGAAGCATGGCGT+TGG 0.520162 2:+75416288 MsG0280010816.01.T01:CDS
CCAAAGACCTCACCGTTTCA+AGG 0.522247 2:-75415946 None:intergenic
GCCAGTTGTGAATTCTAGGT+TGG 0.525168 2:+75415734 MsG0280010816.01.T01:CDS
AGTGTAATGGTGTTAGAGAA+TGG 0.529484 2:+75416136 MsG0280010816.01.T01:CDS
ACGGTCAAAGCAAGAGATGC+GGG 0.533396 2:+75415898 MsG0280010816.01.T01:CDS
AAGAGAAACAACGGATGGCT+GGG 0.537737 2:+75415981 MsG0280010816.01.T01:CDS
GTTTCGGTTCAACAGTTGGA+TGG 0.548945 2:+75415680 MsG0280010816.01.T01:CDS
GATGTCACGATAAGAAGGGT+TGG 0.558250 2:+75415865 MsG0280010816.01.T01:intron
GGTTAGTGAAAGTGTTGAGA+AGG 0.559698 2:+75416165 MsG0280010816.01.T01:CDS
GCTTGAAGGCGACCTTGAAA+CGG 0.560792 2:+75415934 MsG0280010816.01.T01:CDS
TATAGGGTTGATAATGGGAG+TGG 0.560910 2:+75416040 MsG0280010816.01.T01:CDS
CGGATGGCTGGGAGGTATGG+TGG 0.565095 2:+75415992 MsG0280010816.01.T01:CDS
GTAAACCTATTAGCCTCTCT+CGG 0.567513 2:-75416103 None:intergenic
GGAGCCGAATTCCCATCCTC+CGG 0.571712 2:-75415711 None:intergenic
TTCTGCAGGTGTTCCGAGAG+AGG 0.582364 2:+75416090 MsG0280010816.01.T01:CDS
AAGGGTTGGAGAATGGTTCA+CGG 0.586475 2:+75415879 MsG0280010816.01.T01:CDS
TGTGAATTCTAGGTTGGACG+TGG 0.587021 2:+75415740 MsG0280010816.01.T01:CDS
TGGTGTTAGAGAATGGTCAC+GGG 0.593335 2:+75416143 MsG0280010816.01.T01:CDS
ATGGTGTTAGAGAATGGTCA+CGG 0.594200 2:+75416142 MsG0280010816.01.T01:CDS
GAAGGAGAAGAGAACACCTA+AGG 0.603536 2:+75416183 MsG0280010816.01.T01:CDS
CACGGTCAAAGCAAGAGATG+CGG 0.609503 2:+75415897 MsG0280010816.01.T01:CDS
AACCTAGAATTCACAACTGG+CGG 0.610102 2:-75415732 None:intergenic
AAATCACATGGAAAGAAGCA+TGG 0.633912 2:+75416282 MsG0280010816.01.T01:CDS
TGGTGGTTTGAATGTGTCTG+TGG 0.636743 2:+75416012 MsG0280010816.01.T01:CDS
AGCTAAGCGCGCTCACTCGG+AGG 0.646095 2:+75416063 MsG0280010816.01.T01:CDS
TAACAAGAAGTCAAATCACA+TGG 0.648466 2:+75416270 MsG0280010816.01.T01:CDS
TTCTTGTTACTCTCAGCAGG+CGG 0.655387 2:-75416256 None:intergenic
ATGGCTGGGAGGTATGGTGG+TGG 0.655927 2:+75415995 MsG0280010816.01.T01:CDS
GATTGAAGAGAAACAACGGA+TGG 0.679746 2:+75415976 MsG0280010816.01.T01:CDS
AAGGCGACCTTGAAACGGTG+AGG 0.688100 2:+75415939 MsG0280010816.01.T01:CDS
AGAAACAACGGATGGCTGGG+AGG 0.697772 2:+75415984 MsG0280010816.01.T01:CDS
TTAGGATTGAAGAGAAACAA+CGG 0.702409 2:+75415972 MsG0280010816.01.T01:CDS
GGTGTTAGAGAATGGTCACG+GGG 0.773902 2:+75416144 MsG0280010816.01.T01:CDS

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
TAACAAGAAGTCAAATCACA+TGG + Chr2:75416270-75416289 MsG0280010816.01.T01:CDS 30.0%
TTAAGATGTCACGATAAGAA+GGG + Chr2:75415861-75415880 MsG0280010816.01.T01:intron 30.0%
TTAGGATTGAAGAGAAACAA+CGG + Chr2:75415972-75415991 MsG0280010816.01.T01:CDS 30.0%
! TTTAAGATGTCACGATAAGA+AGG + Chr2:75415860-75415879 MsG0280010816.01.T01:intron 30.0%
!! ATCGTTATAGGGTTGATAAT+GGG + Chr2:75416035-75416054 MsG0280010816.01.T01:CDS 30.0%
AAATCACATGGAAAGAAGCA+TGG + Chr2:75416282-75416301 MsG0280010816.01.T01:CDS 35.0%
ATTCCGAATTGGAATAGAAC+TGG - Chr2:75416213-75416232 None:intergenic 35.0%
CTAACACCATTACACTTAAC+TGG - Chr2:75416132-75416151 None:intergenic 35.0%
GAACCAGTTCTATTCCAATT+CGG + Chr2:75416207-75416226 MsG0280010816.01.T01:CDS 35.0%
TTATCGTGACATCTTAAAGC+TGG - Chr2:75415858-75415877 None:intergenic 35.0%
! AGTGTAATGGTGTTAGAGAA+TGG + Chr2:75416136-75416155 MsG0280010816.01.T01:CDS 35.0%
!! GATCGTTATAGGGTTGATAA+TGG + Chr2:75416034-75416053 MsG0280010816.01.T01:CDS 35.0%
AACCTAGAATTCACAACTGG+CGG - Chr2:75415735-75415754 None:intergenic 40.0%
ATGTGTCTGTGGATCGTTAT+AGG + Chr2:75416023-75416042 MsG0280010816.01.T01:CDS 40.0%
GAGATTAAGAGGAAGCTTGA+AGG + Chr2:75415920-75415939 MsG0280010816.01.T01:CDS 40.0%
GATTGAAGAGAAACAACGGA+TGG + Chr2:75415976-75415995 MsG0280010816.01.T01:CDS 40.0%
TACACGCCAGTTAAGTGTAA+TGG + Chr2:75416123-75416142 MsG0280010816.01.T01:CDS 40.0%
TCCAACCTAGAATTCACAAC+TGG - Chr2:75415738-75415757 None:intergenic 40.0%
TGTGTCTGTGGATCGTTATA+GGG + Chr2:75416024-75416043 MsG0280010816.01.T01:CDS 40.0%
! ATGGTGTTAGAGAATGGTCA+CGG + Chr2:75416142-75416161 MsG0280010816.01.T01:CDS 40.0%
! GTAAACCTATTAGCCTCTCT+CGG - Chr2:75416106-75416125 None:intergenic 40.0%
! GTTCAACAGTTGGATGGTTT+TGG + Chr2:75415686-75415705 MsG0280010816.01.T01:CDS 40.0%
! TAGTCTTGATGTTGTTCAGC+TGG + Chr2:75415809-75415828 MsG0280010816.01.T01:intron 40.0%
!! GGTTAGTGAAAGTGTTGAGA+AGG + Chr2:75416165-75416184 MsG0280010816.01.T01:CDS 40.0%
!! TATAGGGTTGATAATGGGAG+TGG + Chr2:75416040-75416059 MsG0280010816.01.T01:CDS 40.0%
AAGAGAAACAACGGATGGCT+GGG + Chr2:75415981-75416000 MsG0280010816.01.T01:CDS 45.0%
AAGAGATGCGGGAGATTAAG+AGG + Chr2:75415909-75415928 MsG0280010816.01.T01:CDS 45.0%
AAGGGTTGGAGAATGGTTCA+CGG + Chr2:75415879-75415898 MsG0280010816.01.T01:CDS 45.0%
CGATAAGAAGGGTTGGAGAA+TGG + Chr2:75415872-75415891 MsG0280010816.01.T01:intron 45.0%
CGCAAGCAAGAATTCCGAAT+TGG - Chr2:75416224-75416243 None:intergenic 45.0%
GAAGGAGAAGAGAACACCTA+AGG + Chr2:75416183-75416202 MsG0280010816.01.T01:CDS 45.0%
GACTTCTTGTTACTCTCAGC+AGG - Chr2:75416262-75416281 None:intergenic 45.0%
GATGTCACGATAAGAAGGGT+TGG + Chr2:75415865-75415884 MsG0280010816.01.T01:intron 45.0%
GATGTTGTTCAGCTGGAAGA+TGG + Chr2:75415816-75415835 MsG0280010816.01.T01:intron 45.0%
GCCAGTTGTGAATTCTAGGT+TGG + Chr2:75415734-75415753 MsG0280010816.01.T01:CDS 45.0%
GTCGAGTTTGTATCGTAAGC+AGG + Chr2:75415776-75415795 MsG0280010816.01.T01:intron 45.0%
GTTTCGGTTCAACAGTTGGA+TGG + Chr2:75415680-75415699 MsG0280010816.01.T01:CDS 45.0%
TGGTGGTTTGAATGTGTCTG+TGG + Chr2:75416012-75416031 MsG0280010816.01.T01:CDS 45.0%
TTCTTGTTACTCTCAGCAGG+CGG - Chr2:75416259-75416278 None:intergenic 45.0%
! TGGTGTTAGAGAATGGTCAC+GGG + Chr2:75416143-75416162 MsG0280010816.01.T01:CDS 45.0%
! TGTGAATTCTAGGTTGGACG+TGG + Chr2:75415740-75415759 MsG0280010816.01.T01:CDS 45.0%
!! GAATAGAACTGGTTCGCCTT+AGG - Chr2:75416202-75416221 None:intergenic 45.0%
!!! CAGTTGGATGGTTTTGGTTC+CGG + Chr2:75415692-75415711 MsG0280010816.01.T01:CDS 45.0%
ACGGTCAAAGCAAGAGATGC+GGG + Chr2:75415898-75415917 MsG0280010816.01.T01:CDS 50.0%
CACGGTCAAAGCAAGAGATG+CGG + Chr2:75415897-75415916 MsG0280010816.01.T01:CDS 50.0%
CCAAAGACCTCACCGTTTCA+AGG - Chr2:75415949-75415968 None:intergenic 50.0%
CCTTGAAACGGTGAGGTCTT+TGG + Chr2:75415946-75415965 MsG0280010816.01.T01:CDS 50.0%
CTCCGCCAGTTGTGAATTCT+AGG + Chr2:75415730-75415749 MsG0280010816.01.T01:CDS 50.0%
GAAGAGAAACAACGGATGGC+TGG + Chr2:75415980-75415999 MsG0280010816.01.T01:CDS 50.0%
GCTTGAAGGCGACCTTGAAA+CGG + Chr2:75415934-75415953 MsG0280010816.01.T01:CDS 50.0%
GGTGTTAGAGAATGGTCACG+GGG + Chr2:75416144-75416163 MsG0280010816.01.T01:CDS 50.0%
GTGTTCCGAGAGAGGCTAAT+AGG + Chr2:75416098-75416117 MsG0280010816.01.T01:CDS 50.0%
! CATGGAAAGAAGCATGGCGT+TGG + Chr2:75416288-75416307 MsG0280010816.01.T01:CDS 50.0%
! CGGTGAGGTCTTTGGTGATT+AGG + Chr2:75415954-75415973 MsG0280010816.01.T01:CDS 50.0%
!!! ATGGTTTTGGTTCCGGAGGA+TGG + Chr2:75415699-75415718 MsG0280010816.01.T01:CDS 50.0%
!!! TGGTTTTGGTTCCGGAGGAT+GGG + Chr2:75415700-75415719 MsG0280010816.01.T01:CDS 50.0%
!!! TTGGATGGTTTTGGTTCCGG+AGG + Chr2:75415695-75415714 MsG0280010816.01.T01:CDS 50.0%
AAGGCGACCTTGAAACGGTG+AGG + Chr2:75415939-75415958 MsG0280010816.01.T01:CDS 55.0%
AGAAACAACGGATGGCTGGG+AGG + Chr2:75415984-75416003 MsG0280010816.01.T01:CDS 55.0%
GGTTCCGGAGGATGGGAATT+CGG + Chr2:75415707-75415726 MsG0280010816.01.T01:CDS 55.0%
TTCTGCAGGTGTTCCGAGAG+AGG + Chr2:75416090-75416109 MsG0280010816.01.T01:CDS 55.0%
CAACGGATGGCTGGGAGGTA+TGG + Chr2:75415989-75416008 MsG0280010816.01.T01:CDS 60.0%
CACTCGGAGGTAGCTTCTGC+AGG + Chr2:75416076-75416095 MsG0280010816.01.T01:CDS 60.0%
GGAGCCGAATTCCCATCCTC+CGG - Chr2:75415714-75415733 None:intergenic 60.0%
TGGAGCTAAGCGCGCTCACT+CGG + Chr2:75416060-75416079 MsG0280010816.01.T01:CDS 60.0%
! ATGGCTGGGAGGTATGGTGG+TGG + Chr2:75415995-75416014 MsG0280010816.01.T01:CDS 60.0%
AGCTAAGCGCGCTCACTCGG+AGG + Chr2:75416063-75416082 MsG0280010816.01.T01:CDS 65.0%
! CGGATGGCTGGGAGGTATGG+TGG + Chr2:75415992-75416011 MsG0280010816.01.T01:CDS 65.0%
Chromosome Type Strat End Strand Name
Chr2 gene 75415678 75416318 75415678 ID=MsG0280010816.01;Name=MsG0280010816.01
Chr2 mRNA 75415678 75416318 75415678 ID=MsG0280010816.01.T01;Parent=MsG0280010816.01;Name=MsG0280010816.01.T01;_AED=0.48;_eAED=0.49;_QI=0|0|0|1|1|1|2|0|183
Chr2 exon 75415678 75415789 75415678 ID=MsG0280010816.01.T01:exon:11117;Parent=MsG0280010816.01.T01
Chr2 exon 75415879 75416318 75415879 ID=MsG0280010816.01.T01:exon:11118;Parent=MsG0280010816.01.T01
Chr2 CDS 75415678 75415789 75415678 ID=MsG0280010816.01.T01:cds;Parent=MsG0280010816.01.T01
Chr2 CDS 75415879 75416318 75415879 ID=MsG0280010816.01.T01:cds;Parent=MsG0280010816.01.T01
Gene Sequence

>MsG0280010816.01.T01

ATGTTTCGGTTCAACAGTTGGATGGTTTTGGTTCCGGAGGATGGGAATTCGGCTCCGCCAGTTGTGAATTCTAGGTTGGACGTGGTTTCTGAAGATTCGTCGAGTTTGTATCAAGGGTTGGAGAATGGTTCACGGTCAAAGCAAGAGATGCGGGAGATTAAGAGGAAGCTTGAAGGCGACCTTGAAACGGTGAGGTCTTTGGTGATTAGGATTGAAGAGAAACAACGGATGGCTGGGAGGTATGGTGGTGGTTTGAATGTGTCTGTGGATCGTTATAGGGTTGATAATGGGAGTGGAGCTAAGCGCGCTCACTCGGAGGTAGCTTCTGCAGGTGTTCCGAGAGAGGCTAATAGGTTTACACGCCAGTTAAGTGTAATGGTGTTAGAGAATGGTCACGGGGTTAGTGAAAGTGTTGAGAAGGAGAAGAGAACACCTAAGGCGAACCAGTTCTATTCCAATTCGGAATTCTTGCTTGCGAAAGATAAGTTTCCGCCTGCTGAGAGTAACAAGAAGTCAAATCACATGGAAAGAAGCATGGCGTTGGAGAAATAG

Protein sequence

>MsG0280010816.01.T01

MFRFNSWMVLVPEDGNSAPPVVNSRLDVVSEDSSSLYQGLENGSRSKQEMREIKRKLEGDLETVRSLVIRIEEKQRMAGRYGGGLNVSVDRYRVDNGSGAKRAHSEVASAGVPREANRFTRQLSVMVLENGHGVSESVEKEKRTPKANQFYSNSEFLLAKDKFPPAESNKKSNHMERSMALEK*