AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar zhongmu-4 / Msa0790610


Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
Msa0790610 MtrunA17_Chr2g0277971 97.959 147 3 0 1 147 1 147 3.84e-101 286
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
Msa0790610 AT1G60870.1 59.184 147 60 0 1 147 1 147 1.64e-33 115

Find 26 sgRNAs with CRISPR-Local

Find 25 sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
AGCTGAGAAAGCAAGAAATA+TGG 0.282094 5_3:-1484032 Msa0790610:CDS
GCTTGGAAAGGAATTTCTTC+TGG 0.317736 5_3:-1483923 Msa0790610:CDS
AGCAGCTGCCCATGCTTTGT+AGG 0.349595 5_3:+1484216 None:intergenic
AAGAAATATGGGAAACTTGA+TGG 0.389367 5_3:-1484020 Msa0790610:CDS
GTGCCATGGATGAATTTAGA+AGG 0.394252 5_3:-1484111 Msa0790610:CDS
GGAATATCTCGACTCGGCTA+TGG 0.422650 5_3:-1484137 Msa0790610:CDS
GAGGATTTCAAGAGATGAAG+TGG 0.462068 5_3:-1484071 Msa0790610:CDS
GCTGAGAAAGCAAGAAATAT+GGG 0.463308 5_3:-1484031 Msa0790610:CDS
ATAAGATCTTCGATCGTCGA+TGG 0.506443 5_3:+1484259 None:intergenic
GAAAGGAATTTCTTCTGGCA+AGG 0.513277 5_3:-1483918 Msa0790610:CDS
AGATAGAATCCTACAAAGCA+TGG 0.513381 5_3:-1484225 Msa0790610:CDS
AAAGGAAGGTGAACTGAGAA+AGG 0.516993 5_3:+1484314 None:intergenic
CTGCTTCTATGAAATCTGCT+TGG 0.529588 5_3:-1483940 Msa0790610:CDS
GGTTTGAAGAAGAACTTGAG+AGG 0.547329 5_3:-1484090 Msa0790610:CDS
AAACCTTCTAAATTCATCCA+TGG 0.552800 5_3:+1484108 None:intergenic
TAAAGATTGATCTGAAAGGA+AGG 0.570141 5_3:+1484300 None:intergenic
AAAGTATATATGTATCAAGA+TGG 0.576287 5_3:+1483890 None:intergenic
CTCGGCTATGGAAAGTGCCA+TGG 0.577831 5_3:-1484125 Msa0790610:CDS
TCTATGAAATCTGCTTGGAA+AGG 0.578134 5_3:-1483935 Msa0790610:CDS
CATGTAAAGATTGATCTGAA+AGG 0.594535 5_3:+1484296 None:intergenic
AGCCGAGTCGAGATATTCCT+CGG 0.604035 5_3:+1484141 None:intergenic
TGAACTTGAGCAAGAAAGAG+AGG 0.624850 5_3:-1484194 Msa0790610:CDS
AGCCGAGGAATATCTCGACT+CGG 0.631008 5_3:-1484143 Msa0790610:CDS
GATAGAATCCTACAAAGCAT+GGG 0.638623 5_3:-1484224 Msa0790610:CDS
AGATGCAATGCAAGAAGCCG+AGG 0.640190 5_3:-1484158 Msa0790610:CDS
ACTTGAGCAAGAAAGAGAGG+TGG 0.641638 5_3:-1484191 Msa0790610:CDS

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
TAAAGATTGATCTGAAAGGA+AGG + chr5_3:1483932-1483951 None:intergenic 30.0%
CATGTAAAGATTGATCTGAA+AGG + chr5_3:1483936-1483955 None:intergenic 30.0%
AAACCTTCTAAATTCATCCA+TGG + chr5_3:1484124-1484143 None:intergenic 30.0%
AAGAAATATGGGAAACTTGA+TGG - chr5_3:1484209-1484228 Msa0790610:CDS 30.0%
AGATAGAATCCTACAAAGCA+TGG - chr5_3:1484004-1484023 Msa0790610:CDS 35.0%
GATAGAATCCTACAAAGCAT+GGG - chr5_3:1484005-1484024 Msa0790610:CDS 35.0%
AGCTGAGAAAGCAAGAAATA+TGG - chr5_3:1484197-1484216 Msa0790610:CDS 35.0%
GCTGAGAAAGCAAGAAATAT+GGG - chr5_3:1484198-1484217 Msa0790610:CDS 35.0%
TCTATGAAATCTGCTTGGAA+AGG - chr5_3:1484294-1484313 Msa0790610:CDS 35.0%
AAAGGAAGGTGAACTGAGAA+AGG + chr5_3:1483918-1483937 None:intergenic 40.0%
ATAAGATCTTCGATCGTCGA+TGG + chr5_3:1483973-1483992 None:intergenic 40.0%
TGAACTTGAGCAAGAAAGAG+AGG - chr5_3:1484035-1484054 Msa0790610:CDS 40.0%
GTGCCATGGATGAATTTAGA+AGG - chr5_3:1484118-1484137 Msa0790610:CDS 40.0%
GGTTTGAAGAAGAACTTGAG+AGG - chr5_3:1484139-1484158 Msa0790610:CDS 40.0%
GAGGATTTCAAGAGATGAAG+TGG - chr5_3:1484158-1484177 Msa0790610:CDS 40.0%
CTGCTTCTATGAAATCTGCT+TGG - chr5_3:1484289-1484308 Msa0790610:CDS 40.0%
GCTTGGAAAGGAATTTCTTC+TGG - chr5_3:1484306-1484325 Msa0790610:CDS 40.0%
GAAAGGAATTTCTTCTGGCA+AGG - chr5_3:1484311-1484330 Msa0790610:CDS 40.0%
ACTTGAGCAAGAAAGAGAGG+TGG - chr5_3:1484038-1484057 Msa0790610:CDS 45.0%
AGATGCAATGCAAGAAGCCG+AGG - chr5_3:1484071-1484090 Msa0790610:CDS 50.0%
AGCCGAGGAATATCTCGACT+CGG - chr5_3:1484086-1484105 Msa0790610:CDS 50.0%
AGCCGAGTCGAGATATTCCT+CGG + chr5_3:1484091-1484110 None:intergenic 50.0%
!! GGAATATCTCGACTCGGCTA+TGG - chr5_3:1484092-1484111 Msa0790610:CDS 50.0%
AGCAGCTGCCCATGCTTTGT+AGG + chr5_3:1484016-1484035 None:intergenic 55.0%
!! CTCGGCTATGGAAAGTGCCA+TGG - chr5_3:1484104-1484123 Msa0790610:CDS 55.0%
Chromosome Type Strat End Strand Name
chr5_3 gene 1483904 1484347 1483904 ID=Msa0790610;Name=Msa0790610
chr5_3 mRNA 1483904 1484347 1483904 ID=Msa0790610-mRNA-1;Parent=Msa0790610;Name=Msa0790610-mRNA-1;_AED=0.00;_eAED=0.00;_QI=0|-1|0|1|-1|1|1|0|147
chr5_3 exon 1483904 1484347 1483904 ID=Msa0790610-mRNA-1:exon:524;Parent=Msa0790610-mRNA-1
chr5_3 CDS 1483904 1484347 1483904 ID=Msa0790610-mRNA-1:cds;Parent=Msa0790610-mRNA-1
Gene Sequence

>Msa0790610

ATGGAAGCTCTCCTTTCTCAGTTCACCTTCCTTTCAGATCAATCTTTACATGACAAGAGCTTCGATCCATCGACGATCGAAGATCTTATGAAACTATTTGAGATAGAATCCTACAAAGCATGGGCAGCTGCTGAACTTGAGCAAGAAAGAGAGGTGGAAGAAGCAGAAGATGCAATGCAAGAAGCCGAGGAATATCTCGACTCGGCTATGGAAAGTGCCATGGATGAATTTAGAAGGTTTGAAGAAGAACTTGAGAGGATTTCAAGAGATGAAGTGGAGAGTTTAGTTCAAACAGCTGAGAAAGCAAGAAATATGGGAAACTTGATGGAAAAAACAGCTTCTATTGCTTCTAAGAAATATATTGAAGCTGCACTTAATTCAGCTACTGCTTCTATGAAATCTGCTTGGAAAGGAATTTCTTCTGGCAAGGTTCATCCATCTTGA

Protein sequence

>Msa0790610

MEALLSQFTFLSDQSLHDKSFDPSTIEDLMKLFEIESYKAWAAAELEQEREVEEAEDAMQEAEEYLDSAMESAMDEFRRFEEELERISRDEVESLVQTAEKARNMGNLMEKTASIASKKYIEAALNSATASMKSAWKGISSGKVHPS*