AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar ZhongmuNo.1 / MsG0580026271.01


Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsG0580026271.01.T01 MTR_5g043020 96.629 178 6 0 1 178 54 231 1.08e-122 345
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsG0580026271.01.T01 AT1G69390 68.000 175 54 1 1 175 57 229 5.03e-81 240

Find 27 sgRNAs with CRISPR-Local

Find 32 sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
TCATCCACCACTTGATATTC+TGG 0.244756 5:+33794870 None:intergenic
TTTCTTTGAGCGTTTAAATT+TGG 0.250395 5:-33795153 MsG0580026271.01.T01:CDS
TATCAAGTGGTGGATGAAAC+TGG 0.298342 5:-33794864 MsG0580026271.01.T01:CDS
GGAGAAAGTTCTCGGCTTCT+TGG 0.300111 5:+33795195 None:intergenic
AAGGACACCGGAGATATTTC+AGG 0.307382 5:-33794819 MsG0580026271.01.T01:CDS
AATAACAAATATTGAGTATA+AGG 0.315113 5:-33794838 MsG0580026271.01.T01:CDS
GTCTCTGCAGATACAGATAT+TGG 0.363379 5:-33794933 MsG0580026271.01.T01:CDS
TAGATTTGATTTCTATGTTC+CGG 0.386558 5:-33794784 MsG0580026271.01.T01:CDS
TTCTGGTTTAACTCGCCGTA+CGG 0.421896 5:+33794887 None:intergenic
AATCATCTTCAAACGTTGCT+TGG 0.446164 5:+33795073 None:intergenic
AGCATCAAGGAGAAAGTTCT+CGG 0.480836 5:+33795187 None:intergenic
AACATTCAAGACGTTTCATC+CGG 0.489884 5:+33794765 None:intergenic
TCTGGTTTAACTCGCCGTAC+GGG 0.521618 5:+33794888 None:intergenic
TTGAGCGTTTAAATTTGGCT+TGG 0.527703 5:-33795148 MsG0580026271.01.T01:CDS
CTAAGAAAAGCTCTGTTGCT+AGG 0.531393 5:-33795100 MsG0580026271.01.T01:CDS
GGGCACTGTAACAGAGTAGA+TGG 0.531676 5:+33794908 None:intergenic
AACAGAACCTGAAATATCTC+CGG 0.549916 5:+33794812 None:intergenic
ATTGCTTCGTGCAGTTGTCA+TGG 0.566512 5:+33795286 None:intergenic
ATCAAGTGGTGGATGAAACT+GGG 0.583073 5:-33794863 MsG0580026271.01.T01:CDS
AACTCATATTAACAGCATCA+AGG 0.588920 5:+33795174 None:intergenic
ACTCTGTTACAGTGCCCGTA+CGG 0.601541 5:-33794902 MsG0580026271.01.T01:CDS
TAAACCAGAATATCAAGTGG+TGG 0.645335 5:-33794874 MsG0580026271.01.T01:CDS
ACTGCACGAAGCAATATCCA+TGG 0.657163 5:-33795278 MsG0580026271.01.T01:CDS
AATATTGAGTATAAGGACAC+CGG 0.658119 5:-33794831 MsG0580026271.01.T01:CDS
AAACTGGCTTGTGATAGCCA+TGG 0.667511 5:+33795261 None:intergenic
AGTTAAACCAGAATATCAAG+TGG 0.711520 5:-33794877 MsG0580026271.01.T01:CDS
TCGATGTGAAGTAAGCGATG+AGG 0.726960 5:-33795039 MsG0580026271.01.T01:CDS

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
!! AATAACAAATATTGAGTATA+AGG - Chr5:33795216-33795235 MsG0580026271.01.T01:CDS 15.0%
! TTTCTTTGAGCGTTTAAATT+TGG - Chr5:33794901-33794920 MsG0580026271.01.T01:CDS 25.0%
!! TAGATTTGATTTCTATGTTC+CGG - Chr5:33795270-33795289 MsG0580026271.01.T01:CDS 25.0%
AACTCATATTAACAGCATCA+AGG + Chr5:33794883-33794902 None:intergenic 30.0%
AATATTGAGTATAAGGACAC+CGG - Chr5:33795223-33795242 MsG0580026271.01.T01:CDS 30.0%
AGTTAAACCAGAATATCAAG+TGG - Chr5:33795177-33795196 MsG0580026271.01.T01:CDS 30.0%
ATGAAAAATTAGAACCTCCA+AGG + Chr5:33794826-33794845 None:intergenic 30.0%
AACAGAACCTGAAATATCTC+CGG + Chr5:33795245-33795264 None:intergenic 35.0%
AATCATCTTCAAACGTTGCT+TGG + Chr5:33794984-33795003 None:intergenic 35.0%
TAAACCAGAATATCAAGTGG+TGG - Chr5:33795180-33795199 MsG0580026271.01.T01:CDS 35.0%
TTGAGCGTTTAAATTTGGCT+TGG - Chr5:33794906-33794925 MsG0580026271.01.T01:CDS 35.0%
! TTTTCTTAGACACTGCTGAT+GGG + Chr5:33794943-33794962 None:intergenic 35.0%
AGCATCAAGGAGAAAGTTCT+CGG + Chr5:33794870-33794889 None:intergenic 40.0%
CTAAGAAAAGCTCTGTTGCT+AGG - Chr5:33794954-33794973 MsG0580026271.01.T01:CDS 40.0%
GTCTCTGCAGATACAGATAT+TGG - Chr5:33795121-33795140 MsG0580026271.01.T01:CDS 40.0%
TCATCCACCACTTGATATTC+TGG + Chr5:33795187-33795206 None:intergenic 40.0%
! CTTTTCTTAGACACTGCTGA+TGG + Chr5:33794944-33794963 None:intergenic 40.0%
!! ATCAAGTGGTGGATGAAACT+GGG - Chr5:33795191-33795210 MsG0580026271.01.T01:CDS 40.0%
!! TATCAAGTGGTGGATGAAAC+TGG - Chr5:33795190-33795209 MsG0580026271.01.T01:CDS 40.0%
AAGGACACCGGAGATATTTC+AGG - Chr5:33795235-33795254 MsG0580026271.01.T01:CDS 45.0%
ACTGCACGAAGCAATATCCA+TGG - Chr5:33794776-33794795 MsG0580026271.01.T01:CDS 45.0%
TCGATGTGAAGTAAGCGATG+AGG - Chr5:33795015-33795034 MsG0580026271.01.T01:CDS 45.0%
! AAGCCAGTTTTTGCAGTCCT+TGG - Chr5:33794806-33794825 MsG0580026271.01.T01:CDS 45.0%
! GCGTGCTCTATCAGATTTTG+TGG - Chr5:33795066-33795085 MsG0580026271.01.T01:CDS 45.0%
!! AAACTGGCTTGTGATAGCCA+TGG + Chr5:33794796-33794815 None:intergenic 45.0%
!! TTCTGGTTTAACTCGCCGTA+CGG + Chr5:33795170-33795189 None:intergenic 45.0%
ACTCTGTTACAGTGCCCGTA+CGG - Chr5:33795152-33795171 MsG0580026271.01.T01:CDS 50.0%
CCTCCAAGGACTGCAAAAAC+TGG + Chr5:33794812-33794831 None:intergenic 50.0%
GGAGAAAGTTCTCGGCTTCT+TGG + Chr5:33794862-33794881 None:intergenic 50.0%
! CCAGTTTTTGCAGTCCTTGG+AGG - Chr5:33794809-33794828 MsG0580026271.01.T01:CDS 50.0%
! GGGCACTGTAACAGAGTAGA+TGG + Chr5:33795149-33795168 None:intergenic 50.0%
! TCTGGTTTAACTCGCCGTAC+GGG + Chr5:33795169-33795188 None:intergenic 50.0%
Chromosome Type Strat End Strand Name
Chr5 gene 33794770 33795306 33794770 ID=MsG0580026271.01;Name=MsG0580026271.01
Chr5 mRNA 33794770 33795306 33794770 ID=MsG0580026271.01.T01;Parent=MsG0580026271.01;Name=MsG0580026271.01.T01;_AED=0.50;_eAED=0.50;_QI=0|-1|0|1|-1|1|1|0|178
Chr5 exon 33794770 33795306 33794770 ID=MsG0580026271.01.T01:exon:25400;Parent=MsG0580026271.01.T01
Chr5 CDS 33794770 33795306 33794770 ID=MsG0580026271.01.T01:cds;Parent=MsG0580026271.01.T01
Gene Sequence

>MsG0580026271.01.T01

ATGACAACTGCACGAAGCAATATCCATGGCTATCACAAGCCAGTTTTTGCAGTCCTTGGAGGTTCTAATTTTTCATCAAAGTCAGTTAGCCAAGAAGCCGAGAACTTTCTCCTTGATGCTGTTAATATGAGTTTCTTTGAGCGTTTAAATTTGGCTTGGAAGATAGTTTTCCCATCAGCAGTGTCTAAGAAAAGCTCTGTTGCTAGGATTGCCAAGCAACGTTTGAAGATGATTCTATTCTCTGATCGATGTGAAGTAAGCGATGAGGCAAAGCAAAAAATAGATAGCAACATTGTGCGTGCTCTATCAGATTTTGTGGAAATAGAATCACAAGATAAAGTTCAGTTGAGTGTCTCTGCAGATACAGATATTGGAACCATCTACTCTGTTACAGTGCCCGTACGGCGAGTTAAACCAGAATATCAAGTGGTGGATGAAACTGGGACAATAACAAATATTGAGTATAAGGACACCGGAGATATTTCAGGTTCTGTTGATGTTAGATTTGATTTCTATGTTCCGGATGAAACGTCTTGA

Protein sequence

>MsG0580026271.01.T01

MTTARSNIHGYHKPVFAVLGGSNFSSKSVSQEAENFLLDAVNMSFFERLNLAWKIVFPSAVSKKSSVARIAKQRLKMILFSDRCEVSDEAKQKIDSNIVRALSDFVEIESQDKVQLSVSADTDIGTIYSVTVPVRRVKPEYQVVDETGTITNIEYKDTGDISGSVDVRFDFYVPDETS*