AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar zhongmu-4 / Msa1365150


Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
Msa1365150 MtrunA17_Chr3g0145311 95.652 92 3 1 1 92 1 91 1.32e-58 174
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
Msa1365150 AT2G21290.1 62.651 83 29 1 10 92 18 98 1.25e-20 79.0

Find 26 sgRNAs with CRISPR-Local

Find 26 sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
TCGATCATTTGTTCTCTCTT+CGG 0.404252 tig0018197:-243169 None:intergenic
AAAAGATTCAAGGGCTCGTA+TGG 0.464506 tig0018197:+243136 Msa1365150:CDS
AAAGAAAGGGAAAAGATTCA+AGG 0.481880 tig0018197:+243126 Msa1365150:CDS
TGAAATCAAATGAGCTTGAA+AGG 0.487197 tig0018197:-243241 None:intergenic
AAGTTCCCAGGTCTACTCCT+TGG 0.493148 tig0018197:+243212 Msa1365150:CDS
ACGCCTTGTGCTTCTTCTGC+CGG 0.494602 tig0018197:+243058 Msa1365150:CDS
GCTGCACGGTGGTTGATAAG+AGG 0.503001 tig0018197:+243022 Msa1365150:CDS
GATCGAACGAATCAAAGATA+AGG 0.533385 tig0018197:+243186 Msa1365150:CDS
CAAATGAGCTTGAAAGGAAG+AGG 0.534374 tig0018197:-243235 None:intergenic
GCTCCGATAGTGTGCGGACG+CGG 0.535798 tig0018197:+243091 Msa1365150:CDS
AGCTTGAAAGGAAGAGGCCA+AGG 0.539805 tig0018197:-243229 None:intergenic
TATCAACCACCGTGCAGCTA+CGG 0.541002 tig0018197:-243017 None:intergenic
AAGATAAGGTTGAAGTTCCC+AGG 0.546325 tig0018197:+243200 Msa1365150:CDS
AAGAGGCCAAGGAGTAGACC+TGG 0.562320 tig0018197:-243218 None:intergenic
TATCGGAGCAGCTGTTACGC+CGG 0.576176 tig0018197:-243077 None:intergenic
AAGAAAGGGAAAAGATTCAA+GGG 0.576778 tig0018197:+243127 Msa1365150:CDS
AGCGGTGCACCGTAGCTGCA+CGG 0.586905 tig0018197:+243008 Msa1365150:CDS
GTTGATAAGAGGAGCGTCGT+CGG 0.589779 tig0018197:+243033 Msa1365150:CDS
AGAGGCCAAGGAGTAGACCT+GGG 0.623067 tig0018197:-243217 None:intergenic
AAAGATTCAAGGGCTCGTAT+GGG 0.635720 tig0018197:+243137 Msa1365150:CDS
GTGGCGCTAGTGTGATGCAG+CGG 0.656151 tig0018197:+242990 Msa1365150:CDS
AAATTGTGTATGGCGAGTGG+TGG 0.695087 tig0018197:+242971 None:intergenic
ACAGCTGCTCCGATAGTGTG+CGG 0.696198 tig0018197:+243085 Msa1365150:CDS
AGAAAATTGTGTATGGCGAG+TGG 0.703620 tig0018197:+242968 None:intergenic
ACGCCGGCAGAAGAAGCACA+AGG 0.711011 tig0018197:-243061 None:intergenic
GGTGCACCGTAGCTGCACGG+TGG 0.772757 tig0018197:+243011 Msa1365150:CDS

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
! GTGATAAAAAGACAAAGAAA+GGG + tig0018197:243113-243132 Msa1365150:CDS 25.0%
GGTGATAAAAAGACAAAGAA+AGG + tig0018197:243112-243131 Msa1365150:CDS 30.0%
AAAGAAAGGGAAAAGATTCA+AGG + tig0018197:243126-243145 Msa1365150:CDS 30.0%
AAGAAAGGGAAAAGATTCAA+GGG + tig0018197:243127-243146 Msa1365150:CDS 30.0%
TCGATCATTTGTTCTCTCTT+CGG - tig0018197:243172-243191 None:intergenic 35.0%
GATCGAACGAATCAAAGATA+AGG + tig0018197:243186-243205 Msa1365150:CDS 35.0%
AAAAGATTCAAGGGCTCGTA+TGG + tig0018197:243136-243155 Msa1365150:CDS 40.0%
AAAGATTCAAGGGCTCGTAT+GGG + tig0018197:243137-243156 Msa1365150:CDS 40.0%
AAGATAAGGTTGAAGTTCCC+AGG + tig0018197:243200-243219 Msa1365150:CDS 40.0%
CAAATGAGCTTGAAAGGAAG+AGG - tig0018197:243238-243257 None:intergenic 40.0%
TATCAACCACCGTGCAGCTA+CGG - tig0018197:243020-243039 None:intergenic 50.0%
!! GTTGATAAGAGGAGCGTCGT+CGG + tig0018197:243033-243052 Msa1365150:CDS 50.0%
AAGTTCCCAGGTCTACTCCT+TGG + tig0018197:243212-243231 Msa1365150:CDS 50.0%
AGCTTGAAAGGAAGAGGCCA+AGG - tig0018197:243232-243251 None:intergenic 50.0%
!! GCTGCACGGTGGTTGATAAG+AGG + tig0018197:243022-243041 Msa1365150:CDS 55.0%
ACGCCTTGTGCTTCTTCTGC+CGG + tig0018197:243058-243077 Msa1365150:CDS 55.0%
TATCGGAGCAGCTGTTACGC+CGG - tig0018197:243080-243099 None:intergenic 55.0%
ACAGCTGCTCCGATAGTGTG+CGG + tig0018197:243085-243104 Msa1365150:CDS 55.0%
AGAGGCCAAGGAGTAGACCT+GGG - tig0018197:243220-243239 None:intergenic 55.0%
AAGAGGCCAAGGAGTAGACC+TGG - tig0018197:243221-243240 None:intergenic 55.0%
GTGGCGCTAGTGTGATGCAG+CGG + tig0018197:242990-243009 Msa1365150:CDS 60.0%
! ACGCCGGCAGAAGAAGCACA+AGG - tig0018197:243064-243083 None:intergenic 60.0%
TCACCGCGTCCGCACACTAT+CGG - tig0018197:243097-243116 None:intergenic 60.0%
AGCGGTGCACCGTAGCTGCA+CGG + tig0018197:243008-243027 Msa1365150:CDS 65.0%
GCTCCGATAGTGTGCGGACG+CGG + tig0018197:243091-243110 Msa1365150:CDS 65.0%
GGTGCACCGTAGCTGCACGG+TGG + tig0018197:243011-243030 Msa1365150:CDS 70.0%
Chromosome Type Strat End Strand Name
tig0018197 gene 242980 243258 242980 ID=Msa1365150;Name=Msa1365150
tig0018197 mRNA 242980 243258 242980 ID=Msa1365150-mRNA-1;Parent=Msa1365150;Name=Msa1365150-mRNA-1;_AED=0.01;_eAED=0.01;_QI=0|-1|0|1|-1|1|1|0|92
tig0018197 exon 242980 243258 242980 ID=Msa1365150-mRNA-1:exon:14368;Parent=Msa1365150-mRNA-1
tig0018197 CDS 242980 243258 242980 ID=Msa1365150-mRNA-1:cds;Parent=Msa1365150-mRNA-1
Gene Sequence

>Msa1365150

ATGGCGAGTGGTGGCGCTAGTGTGATGCAGCGGTGCACCGTAGCTGCACGGTGGTTGATAAGAGGAGCGTCGTCGGAGACGCCTTGTGCTTCTTCTGCCGGCGTAACAGCTGCTCCGATAGTGTGCGGACGCGGTGATAAAAAGACAAAGAAAGGGAAAAGATTCAAGGGCTCGTATGGGAAATCTCGTCCGAAGAGAGAACAAATGATCGAACGAATCAAAGATAAGGTTGAAGTTCCCAGGTCTACTCCTTGGCCTCTTCCTTTCAAGCTCATTTGA

Protein sequence

>Msa1365150

MASGGASVMQRCTVAARWLIRGASSETPCASSAGVTAAPIVCGRGDKKTKKGKRFKGSYGKSRPKREQMIERIKDKVEVPRSTPWPLPFKLI*