AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar ZhongmuNo.1 / MsG0180000197.01


Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsG0180000197.01.T01 MTR_1g021652 97.838 185 4 0 1 185 340 524 1.11e-130 377
MsG0180000197.01.T01 MTR_3g111530 73.514 185 49 0 1 185 375 559 2.91e-99 297
MsG0180000197.01.T01 MTR_1g034320 55.435 184 80 2 1 184 302 483 1.20e-67 214
MsG0180000197.01.T01 MTR_4g068550 52.174 184 86 2 1 184 298 479 4.26e-65 207
MsG0180000197.01.T01 MTR_1g034330 50.273 183 89 2 1 183 306 486 9.75e-63 201
MsG0180000197.01.T01 MTR_2g087890 43.949 157 85 1 4 160 311 464 3.15e-42 147
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsG0180000197.01.T01 AT5G42650 64.324 185 66 0 1 185 334 518 1.91e-87 266
MsG0180000197.01.T01 AT4G15440 49.669 151 75 1 11 161 220 369 4.39e-50 166

Find 45 sgRNAs with CRISPR-Local

Find 50 sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
CACATTGATTTCAAGACTTT+TGG 0.223131 1:+2720199 MsG0180000197.01.T01:CDS
CCACCGGTTCCATTACAATT+TGG 0.257621 1:+2719924 MsG0180000197.01.T01:CDS
TACAATTTGGAAGAGCAAAA+AGG 0.264846 1:+2719937 MsG0180000197.01.T01:CDS
ACAGTTGGAGATTGAGATTC+TGG 0.272740 1:-2720143 None:intergenic
AAACATGTGCTTTGGTCTAA+TGG 0.336037 1:+2720119 MsG0180000197.01.T01:CDS
CAAGTTGGAAATTCACCTTT+AGG 0.336124 1:+2720260 MsG0180000197.01.T01:CDS
AAGAAAGGTGAATTGTTGTT+AGG 0.339578 1:+2719999 MsG0180000197.01.T01:CDS
TTTGCTCTTCCAAATTGTAA+TGG 0.388470 1:-2719933 None:intergenic
TTAGGATCTTTAGTAGCAAA+AGG 0.430684 1:-2720029 None:intergenic
AATTGTTGAAACATGTGCTT+TGG 0.436664 1:+2720111 MsG0180000197.01.T01:CDS
CTAATTTGATGAAATGGATC+GGG 0.442169 1:+2719760 None:intergenic
GATAGATTTGTTGGTGATGA+AGG 0.449657 1:+2720083 MsG0180000197.01.T01:CDS
TTTGTTGCAGATAGATTTGT+TGG 0.462474 1:+2720074 MsG0180000197.01.T01:CDS
TGCTGGCGGGGAGATTACTA+TGG 0.465831 1:+2719842 MsG0180000197.01.T01:CDS
AAATTAGCGACGGAAATTAG+AGG 0.465886 1:+2719807 MsG0180000197.01.T01:CDS
GGAGATTACTATGGCGGCCA+TGG 0.473614 1:+2719851 MsG0180000197.01.T01:CDS
CTTCCAAATTGTAATGGAAC+CGG 0.475194 1:-2719927 None:intergenic
GATTCCTTTGAGATTCAAGT+TGG 0.484812 1:+2720245 MsG0180000197.01.T01:CDS
GAATCTCAATCTCCAACTGT+TGG 0.495729 1:+2720146 MsG0180000197.01.T01:CDS
AATCTCAATCTCCAACTGTT+GGG 0.502505 1:+2720147 MsG0180000197.01.T01:CDS
TCTAATTTGATGAAATGGAT+CGG 0.503951 1:+2719759 None:intergenic
AGAGGAGCAATTAGATCTGC+TGG 0.504448 1:+2719825 MsG0180000197.01.T01:CDS
CATTGTTTATTCCCAACAGT+TGG 0.511671 1:-2720158 None:intergenic
GAATATGCCGTTGATGAAAT+CGG 0.515909 1:+2719875 MsG0180000197.01.T01:CDS
GTGATTGAAAATCATGAGAA+TGG 0.519624 1:+2719966 MsG0180000197.01.T01:CDS
GAGCAATTAGATCTGCTGGC+GGG 0.527113 1:+2719829 MsG0180000197.01.T01:CDS
AGCAATTAGATCTGCTGGCG+GGG 0.539011 1:+2719830 MsG0180000197.01.T01:CDS
ATTTCCAACTTGAATCTCAA+AGG 0.547715 1:-2720249 None:intergenic
TGATCTCTTTAGTGAGGTGA+GGG 0.559767 1:-2720294 None:intergenic
AGGGTAATAGCAGGACCTAA+AGG 0.563300 1:-2720275 None:intergenic
TTGATCTCTTTAGTGAGGTG+AGG 0.564316 1:-2720295 None:intergenic
CATCAACGGCATATTCTCCA+TGG 0.564805 1:-2719868 None:intergenic
GGATCGGGCGCGGTGGAGTG+AGG 0.582337 1:+2719775 MsG0180000197.01.T01:CDS
TATACCACCGATTTCATCAA+CGG 0.592868 1:-2719882 None:intergenic
CCAAATTGTAATGGAACCGG+TGG 0.594525 1:-2719924 None:intergenic
GTTGGGAATAAACAATGTGC+TGG 0.598250 1:+2720164 MsG0180000197.01.T01:CDS
AGTGAGGTGAGGGTAATAGC+AGG 0.615642 1:-2720284 None:intergenic
ATGAAATGGATCGGGCGCGG+TGG 0.626352 1:+2719768 MsG0180000197.01.T01:CDS
GAAGCTTGATCTCTTTAGTG+AGG 0.631938 1:-2720300 None:intergenic
TTGATGAAATGGATCGGGCG+CGG 0.633244 1:+2719765 None:intergenic
GTTGCATACAAAATTAGCGA+CGG 0.661214 1:+2719797 MsG0180000197.01.T01:CDS
TGGCGGGGAGATTACTATGG+CGG 0.671730 1:+2719845 MsG0180000197.01.T01:CDS
GGAGCAATTAGATCTGCTGG+CGG 0.676095 1:+2719828 MsG0180000197.01.T01:CDS
CAAAAGTCTTGAAATCAATG+TGG 0.688379 1:-2720198 None:intergenic
TATGCCGTTGATGAAATCGG+TGG 0.719714 1:+2719878 MsG0180000197.01.T01:CDS

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
!!! AAATCATGAGAATGGTTTTT+TGG + Chr1:2719974-2719993 MsG0180000197.01.T01:CDS 25.0%
!!! AATGGTTTTTTGGTTAAGAA+AGG + Chr1:2719984-2720003 MsG0180000197.01.T01:CDS 25.0%
AATTGTTGAAACATGTGCTT+TGG + Chr1:2720111-2720130 MsG0180000197.01.T01:CDS 30.0%
ACAATTTGGAAGAGCAAAAA+GGG + Chr1:2719938-2719957 MsG0180000197.01.T01:CDS 30.0%
ATTTCCAACTTGAATCTCAA+AGG - Chr1:2720252-2720271 None:intergenic 30.0%
CAAAAGTCTTGAAATCAATG+TGG - Chr1:2720201-2720220 None:intergenic 30.0%
GTGATTGAAAATCATGAGAA+TGG + Chr1:2719966-2719985 MsG0180000197.01.T01:CDS 30.0%
TACAATTTGGAAGAGCAAAA+AGG + Chr1:2719937-2719956 MsG0180000197.01.T01:CDS 30.0%
TCTGCTCTATCAAAAATCTT+AGG - Chr1:2720050-2720069 None:intergenic 30.0%
TTAGGATCTTTAGTAGCAAA+AGG - Chr1:2720032-2720051 None:intergenic 30.0%
TTTGCTCTTCCAAATTGTAA+TGG - Chr1:2719936-2719955 None:intergenic 30.0%
TTTGTTGCAGATAGATTTGT+TGG + Chr1:2720074-2720093 MsG0180000197.01.T01:CDS 30.0%
! AAGAAAGGTGAATTGTTGTT+AGG + Chr1:2719999-2720018 MsG0180000197.01.T01:CDS 30.0%
! TAAGATTTTTGATAGAGCAG+AGG + Chr1:2720049-2720068 MsG0180000197.01.T01:CDS 30.0%
!! TGGTTGTTGAACTTTTTCTT+AGG + Chr1:2720219-2720238 MsG0180000197.01.T01:CDS 30.0%
!!! CACATTGATTTCAAGACTTT+TGG + Chr1:2720199-2720218 MsG0180000197.01.T01:CDS 30.0%
AAACATGTGCTTTGGTCTAA+TGG + Chr1:2720119-2720138 MsG0180000197.01.T01:CDS 35.0%
AAATTAGCGACGGAAATTAG+AGG + Chr1:2719807-2719826 MsG0180000197.01.T01:CDS 35.0%
AATCTCAATCTCCAACTGTT+GGG + Chr1:2720147-2720166 MsG0180000197.01.T01:CDS 35.0%
CATTGTTTATTCCCAACAGT+TGG - Chr1:2720161-2720180 None:intergenic 35.0%
GTTGCATACAAAATTAGCGA+CGG + Chr1:2719797-2719816 MsG0180000197.01.T01:CDS 35.0%
! CAAGTTGGAAATTCACCTTT+AGG + Chr1:2720260-2720279 MsG0180000197.01.T01:CDS 35.0%
! CTTCCAAATTGTAATGGAAC+CGG - Chr1:2719930-2719949 None:intergenic 35.0%
! GAATATGCCGTTGATGAAAT+CGG + Chr1:2719875-2719894 MsG0180000197.01.T01:CDS 35.0%
!! GATAGATTTGTTGGTGATGA+AGG + Chr1:2720083-2720102 MsG0180000197.01.T01:CDS 35.0%
!! GATTCCTTTGAGATTCAAGT+TGG + Chr1:2720245-2720264 MsG0180000197.01.T01:CDS 35.0%
!! TATACCACCGATTTCATCAA+CGG - Chr1:2719885-2719904 None:intergenic 35.0%
ACAGTTGGAGATTGAGATTC+TGG - Chr1:2720146-2720165 None:intergenic 40.0%
GAAGCTTGATCTCTTTAGTG+AGG - Chr1:2720303-2720322 None:intergenic 40.0%
GAATCTCAATCTCCAACTGT+TGG + Chr1:2720146-2720165 MsG0180000197.01.T01:CDS 40.0%
GTTGGGAATAAACAATGTGC+TGG + Chr1:2720164-2720183 MsG0180000197.01.T01:CDS 40.0%
TGATCTCTTTAGTGAGGTGA+GGG - Chr1:2720297-2720316 None:intergenic 40.0%
TGGAAGAGCAAAAAGGGATA+TGG + Chr1:2719944-2719963 MsG0180000197.01.T01:CDS 40.0%
TTGATCTCTTTAGTGAGGTG+AGG - Chr1:2720298-2720317 None:intergenic 40.0%
!! AGCTTTTCGTATTGATCCAC+CGG + Chr1:2719908-2719927 MsG0180000197.01.T01:CDS 40.0%
AGAGGAGCAATTAGATCTGC+TGG + Chr1:2719825-2719844 MsG0180000197.01.T01:CDS 45.0%
AGGGTAATAGCAGGACCTAA+AGG - Chr1:2720278-2720297 None:intergenic 45.0%
CATCAACGGCATATTCTCCA+TGG - Chr1:2719871-2719890 None:intergenic 45.0%
! CCAAATTGTAATGGAACCGG+TGG - Chr1:2719927-2719946 None:intergenic 45.0%
! TATGCCGTTGATGAAATCGG+TGG + Chr1:2719878-2719897 MsG0180000197.01.T01:CDS 45.0%
!! CCACCGGTTCCATTACAATT+TGG + Chr1:2719924-2719943 MsG0180000197.01.T01:CDS 45.0%
AGCAATTAGATCTGCTGGCG+GGG + Chr1:2719830-2719849 MsG0180000197.01.T01:CDS 50.0%
AGTGAGGTGAGGGTAATAGC+AGG - Chr1:2720287-2720306 None:intergenic 50.0%
GAGCAATTAGATCTGCTGGC+GGG + Chr1:2719829-2719848 MsG0180000197.01.T01:CDS 50.0%
GGAGCAATTAGATCTGCTGG+CGG + Chr1:2719828-2719847 MsG0180000197.01.T01:CDS 50.0%
GGAGATTACTATGGCGGCCA+TGG + Chr1:2719851-2719870 MsG0180000197.01.T01:CDS 55.0%
TGCTGGCGGGGAGATTACTA+TGG + Chr1:2719842-2719861 MsG0180000197.01.T01:CDS 55.0%
TGGCGGGGAGATTACTATGG+CGG + Chr1:2719845-2719864 MsG0180000197.01.T01:CDS 55.0%
ATGAAATGGATCGGGCGCGG+TGG + Chr1:2719768-2719787 MsG0180000197.01.T01:CDS 60.0%
GGATCGGGCGCGGTGGAGTG+AGG + Chr1:2719775-2719794 MsG0180000197.01.T01:CDS 75.0%
Chromosome Type Strat End Strand Name
Chr1 gene 2719768 2720325 2719768 ID=MsG0180000197.01;Name=MsG0180000197.01
Chr1 mRNA 2719768 2720325 2719768 ID=MsG0180000197.01.T01;Parent=MsG0180000197.01;Name=MsG0180000197.01.T01;_AED=0.35;_eAED=0.35;_QI=0|-1|0|1|-1|1|1|0|185
Chr1 exon 2719768 2720325 2719768 ID=MsG0180000197.01.T01:exon:6478;Parent=MsG0180000197.01.T01
Chr1 CDS 2719768 2720325 2719768 ID=MsG0180000197.01.T01:cds;Parent=MsG0180000197.01.T01
Gene Sequence

>MsG0180000197.01.T01

ATGAAATGGATCGGGCGCGGTGGAGTGAGGTTGCATACAAAATTAGCGACGGAAATTAGAGGAGCAATTAGATCTGCTGGCGGGGAGATTACTATGGCGGCCATGGAGAATATGCCGTTGATGAAATCGGTGGTATACGAAGCTTTTCGTATTGATCCACCGGTTCCATTACAATTTGGAAGAGCAAAAAGGGATATGGTGATTGAAAATCATGAGAATGGTTTTTTGGTTAAGAAAGGTGAATTGTTGTTAGGATATCAACCTTTTGCTACTAAAGATCCTAAGATTTTTGATAGAGCAGAGGAATTTGTTGCAGATAGATTTGTTGGTGATGAAGGTGAGAAATTGTTGAAACATGTGCTTTGGTCTAATGGACCAGAATCTCAATCTCCAACTGTTGGGAATAAACAATGTGCTGGTAAAGATTTCACCACATTGATTTCAAGACTTTTGGTTGTTGAACTTTTTCTTAGGTATGATTCCTTTGAGATTCAAGTTGGAAATTCACCTTTAGGTCCTGCTATTACCCTCACCTCACTAAAGAGATCAAGCTTCTAG

Protein sequence

>MsG0180000197.01.T01

MKWIGRGGVRLHTKLATEIRGAIRSAGGEITMAAMENMPLMKSVVYEAFRIDPPVPLQFGRAKRDMVIENHENGFLVKKGELLLGYQPFATKDPKIFDRAEEFVADRFVGDEGEKLLKHVLWSNGPESQSPTVGNKQCAGKDFTTLISRLLVVELFLRYDSFEIQVGNSPLGPAITLTSLKRSSF*