AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa ssp. caerulea / MsaG026995

Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsaG026995 MtrunA17_Chr5g0416091 79.389 131 24 2 3 132 11 139 4.64e-50 160
MsaG026995 MtrunA17_Chr8g0362331 69.231 65 20 0 68 132 74 138 1.40e-26 100
MsaG026995 MtrunA17_Chr7g0274781 45.763 59 32 0 74 132 46 104 2.30e-14 67.0
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsaG026995 AT1G14410.1 58.947 95 33 1 38 132 50 138 3.84e-30 109
MsaG026995 AT2G02740.1 47.967 123 54 4 12 132 28 142 3.72e-27 101
MsaG026995 AT1G71260.1 45.763 59 32 0 74 132 53 111 3.10e-14 67.0

Find 42 sgRNAs with CRISPR-Local

Find sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
TGAGGTGGAGGGAATGGTTT+GGG 0.292578 5:+33066199 None:intergenic
TCTTCGTCATCTTCCTCTTC+AGG 0.301492 5:-33066163 MsaT026995.1:intron
GGCTGGCGACAAGTGAGGTT+GGG 0.313210 5:+33066235 None:intergenic
ACATCCAATGAAGTGAATTC+TGG 0.350841 5:+33065899 None:intergenic
ACCTTTGAAGTGAGTCATAT+TGG 0.359384 5:+33067012 None:intergenic
TTGAGGTGGAGGGAATGGTT+TGG 0.363411 5:+33066198 None:intergenic
ACCTCCAGAATTCACTTCAT+TGG 0.371286 5:-33065903 MsaT026995.1:CDS
GGTTGAGGGCGTTGAGGTGG+AGG 0.372390 5:+33066187 None:intergenic
GCTTTCTGCTCCAATCATAT+TGG 0.384421 5:+33065694 None:intergenic
AGGCTGGCGACAAGTGAGGT+TGG 0.414956 5:+33066234 None:intergenic
CTACAGTTTGCTCCTTCTGC+CGG 0.434257 5:-33065723 MsaT026995.1:CDS
GGGCGTTGAGGTGGAGGGAA+TGG 0.441709 5:+33066193 None:intergenic
CGACCAACATAAACCCTTAG+TGG 0.451636 5:+33065968 None:intergenic
GCTGGCGACAAGTGAGGTTG+GGG 0.461449 5:+33066236 None:intergenic
CCAATCATATTGGCGAAAAC+CGG 0.464995 5:+33065704 None:intergenic
GAAGATGACGAAGAAGGTTG+AGG 0.474828 5:+33066172 None:intergenic
GAAGTGAATTCTGGAGGTAC+AGG 0.480485 5:+33065908 None:intergenic
CAGTTAGAGAATTGCCACTA+AGG 0.486519 5:-33065982 MsaT026995.1:CDS
TTGGTCGTTCAGTTTACAAA+GGG 0.502765 5:-33065952 MsaT026995.1:CDS
TGTTGATGAAAGAGTGAGTT+GGG 0.502987 5:+33066308 None:intergenic
GTGGAGGGAATGGTTTGGGT+TGG 0.510791 5:+33066203 None:intergenic
GGTTTGGGTTGGAAAAGCTC+AGG 0.523617 5:+33066214 None:intergenic
AAGATGACGAAGAAGGTTGA+GGG 0.528713 5:+33066173 None:intergenic
AGTTAGAGAATTGCCACTAA+GGG 0.538677 5:-33065981 MsaT026995.1:CDS
GAAGGTTGAGGGCGTTGAGG+TGG 0.550976 5:+33066184 None:intergenic
ATATGATTGGAGCAGAAAGC+AGG 0.558461 5:-33065691 MsaT026995.1:intron
GTTGAGGGCGTTGAGGTGGA+GGG 0.560816 5:+33066188 None:intergenic
GTTGGTCGTTCAGTTTACAA+AGG 0.578583 5:-33065953 MsaT026995.1:CDS
ACCAATATGACTCACTTCAA+AGG 0.581080 5:-33067013 MsaT026995.1:intron
GAAGAGGAAGATGACGAAGA+AGG 0.581957 5:+33066166 None:intergenic
TGGGTTGGAAAAGCTCAGGC+TGG 0.582714 5:+33066218 None:intergenic
GCATTCAAGATATCTAAAGA+AGG 0.582740 5:-33065756 MsaT026995.1:CDS
TAAACGGTGACATGGCATCA+AGG 0.586256 5:-33067036 None:intergenic
CAAAGGGAAAGCTGTGCTCA+CGG 0.588472 5:-33065936 MsaT026995.1:CDS
TTGCCACTAAGGGTTTATGT+TGG 0.590045 5:-33065971 MsaT026995.1:CDS
CTGGCGACAAGTGAGGTTGG+GGG 0.596141 5:+33066237 None:intergenic
TATTGGCGAAAACCGGCAGA+AGG 0.609525 5:+33065711 None:intergenic
GAAGAAGGTTGAGGGCGTTG+AGG 0.621604 5:+33066181 None:intergenic
GAGAAAGTGGGACCCACACG+AGG 0.632860 5:+33066259 None:intergenic
GCTCAGGCTGGCGACAAGTG+AGG 0.634278 5:+33066230 None:intergenic
TCCAATGAAGTGAATTCTGG+AGG 0.645641 5:+33065902 None:intergenic
TTGTTGATGAAAGAGTGAGT+TGG 0.670091 5:+33066307 None:intergenic

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
Chromosome Type Strat End Strand Name
Chr5 gene 33064901 33067047 33064901 ID=MsaG026995
Chr5 mRNA 33064901 33067047 33064901 ID=MsaT026995.1;Parent=MsaG026995
Chr5 exon 33064901 33064903 33064901 ID=MsaT026995.1.exon5;Parent=MsaT026995.1
Chr5 CDS 33064901 33064903 33064901 ID=cds.MsaT026995.1;Parent=MsaT026995.1
Chr5 exon 33065692 33065784 33065692 ID=MsaT026995.1.exon4;Parent=MsaT026995.1
Chr5 CDS 33065692 33065784 33065692 ID=cds.MsaT026995.1;Parent=MsaT026995.1
Chr5 exon 33065901 33066001 33065901 ID=MsaT026995.1.exon3;Parent=MsaT026995.1
Chr5 CDS 33065901 33066001 33065901 ID=cds.MsaT026995.1;Parent=MsaT026995.1
Chr5 exon 33066164 33066331 33066164 ID=MsaT026995.1.exon2;Parent=MsaT026995.1
Chr5 CDS 33066164 33066331 33066164 ID=cds.MsaT026995.1;Parent=MsaT026995.1
Chr5 exon 33067014 33067047 33067014 ID=MsaT026995.1.exon1;Parent=MsaT026995.1
Chr5 CDS 33067014 33067047 33067014 ID=cds.MsaT026995.1;Parent=MsaT026995.1
Gene Sequence

>MsaT026995.1

ATGGCATCAAGGACCAATATGACTCACTTCAAAGTCCCAACTCACTCTTTCATCAACAACACTCCCAAAAAATCCATTTTTTTACCTCGTGTGGGTCCCACTTTCTCCCCCAACCTCACTTGTCGCCAGCCTGAGCTTTTCCAACCCAAACCATTCCCTCCACCTCAACGCCCTCAACCTTCTTCGTCATCTTCCTCTTCAGTTAGAGAATTGCCACTAAGGGTTTATGTTGGTCGTTCAGTTTACAAAGGGAAAGCTGTGCTCACGGTGTCTCCTGTACCTCCAGAATTCACTTCATTGGATTCAGGGGCATTCAAGATATCTAAAGAAGGTTTGATGTTGCTACAGTTTGCTCCTTCTGCCGGTTTTCGCCAATATGATTGGAGCAGAAAGCAGTGA
Protein sequence

>MsaT026995.1

MASRTNMTHFKVPTHSFINNTPKKSIFLPRVGPTFSPNLTCRQPELFQPKPFPPPQRPQPSSSSSSSVRELPLRVYVGRSVYKGKAVLTVSPVPPEFTSLDSGAFKISKEGLMLLQFAPSAGFRQYDWSRKQ*