AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa ssp. caerulea / MsaG020497


Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsaG020497 MtrunA17_Chr2g0320884 70.103 97 29 0 1 97 35 131 1.60e-39 137
MsaG020497 MtrunA17_Chr2g0320884 64.286 56 16 2 89 140 271 326 1.73e-13 67.8
MsaG020497 MtrunA17_Chr4g0027191 53.608 97 45 0 2 98 6 102 2.05e-26 103
MsaG020497 MtrunA17_Chr4g0027181 50.000 98 49 0 1 98 5 102 4.61e-26 100
MsaG020497 MtrunA17_Chr7g0265761 47.674 86 43 1 1 86 1 84 1.17e-20 87.0
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsaG020497 AT5G03740.1 41.860 86 47 2 1 86 1 83 2.51e-16 75.9
MsaG020497 AT5G22650.2 42.697 89 47 2 1 89 1 85 1.50e-15 73.6
MsaG020497 AT5G22650.1 42.697 89 47 2 1 89 1 85 1.58e-15 73.6
MsaG020497 AT3G44750.2 37.736 106 53 3 1 96 1 103 5.92e-13 65.9
MsaG020497 AT3G44750.1 37.736 106 53 3 1 96 1 103 6.13e-13 65.9

Find 47 sgRNAs with CRISPR-Local

Find sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
CACCGTTTCCAATGGAGTTT+TGG 0.171376 4:+53114806 None:intergenic
GTGGTTATTTACCTCGTATT+TGG 0.275316 4:+53115281 MsaT020497.1:CDS
GAAATAAACACTCGCAGTTT+TGG 0.276973 4:-53115402 None:intergenic
AGGACATTCACCTCTGAAAA+TGG 0.279756 4:+53116585 MsaT020497.1:intron
AGGATATTCACCTCTGAAAA+TGG 0.283123 4:+53116239 MsaT020497.1:intron
AGGATATTCACCTCTGAAAA+TGG 0.283123 4:+53116412 MsaT020497.1:intron
TAAATAACCACAGGCTCTTC+TGG 0.321440 4:-53115269 None:intergenic
GAAGTTTCAGCATCATTGTT+AGG 0.324985 4:-53116093 None:intergenic
TGGTGGCCAGAAGATTGTTT+TGG 0.336064 4:+53115301 MsaT020497.1:CDS
TGAATTAGCTGCCGAGGTTA+AGG 0.369389 4:+53115049 MsaT020497.1:intron
AGGTTCCCAAAACAATCTTC+TGG 0.382371 4:-53115307 None:intergenic
GCACTTGGTGCAGCAAATAA+AGG 0.387943 4:+53115242 MsaT020497.1:CDS
TTAGGACCTTTCTTAGAGTC+AGG 0.425080 4:-53116075 None:intergenic
GATGCTGAAACTTCCAAGTC+TGG 0.441612 4:+53116102 MsaT020497.1:CDS
AAGCATACCTGCTGCAACTA+CGG 0.449498 4:-53116137 None:intergenic
AGCAGCTATTCACATTTCTC+AGG 0.458967 4:+53115112 MsaT020497.1:CDS
TTGTTAGATTCTGAGAAAGC+TGG 0.482257 4:+53116039 MsaT020497.1:intron
GCAAGAGAGTCCTCCAGACT+TGG 0.490554 4:-53116115 None:intergenic
ACTTCACTTAGCAGCATGCT+TGG 0.492494 4:-53116628 None:intergenic
GTTATTTACCTCGTATTTGG+TGG 0.494314 4:+53115284 MsaT020497.1:CDS
TGGATTGCAACAACATATGA+AGG 0.511482 4:+53116259 MsaT020497.1:CDS
TGGATTGCAACAACATATGA+AGG 0.511482 4:+53116432 MsaT020497.1:CDS
TCTCTTGCCGTAGTTGCAGC+AGG 0.513623 4:+53116130 MsaT020497.1:CDS
GCTGCTGCATCATGGGCATA+CGG 0.519271 4:-53115095 None:intergenic
GCAATTCCTGACTCTAAGAA+AGG 0.524303 4:+53116069 MsaT020497.1:CDS
CTGCTGCATCATGGGCATAC+GGG 0.528977 4:-53115094 None:intergenic
GAGTCCTCTAGGAGCATGCT+TGG 0.529371 4:-53116282 None:intergenic
GAGTCCTCTAGGAGCATGCT+TGG 0.529371 4:-53116455 None:intergenic
CTTCTGCAACAGAGTCCTCT+AGG 0.537070 4:-53116293 None:intergenic
CTTCTGCAACAGAGTCCTCT+AGG 0.537070 4:-53116466 None:intergenic
GTGAATAGCTGCTGCATCAT+GGG 0.548035 4:-53115102 None:intergenic
GTTATTGTATAGGTAGCACT+TGG 0.550528 4:+53115227 MsaT020497.1:intron
TTAGCTGCCGAGGTTAAGGT+TGG 0.554128 4:+53115053 MsaT020497.1:intron
TGTGAATAGCTGCTGCATCA+TGG 0.561080 4:-53115103 None:intergenic
AGGTTACCCCAAAACTCCAT+TGG 0.577427 4:-53114814 None:intergenic
AGTTTCTCCAACCTTAACCT+CGG 0.624909 4:-53115060 None:intergenic
GATCTTTGAATTAGCTGCCG+AGG 0.634911 4:+53115043 MsaT020497.1:intron
TGGATTGCAAGAACATAACA+AGG 0.641394 4:+53116605 MsaT020497.1:CDS
AATACGAGGTAAATAACCAC+AGG 0.651072 4:-53115278 None:intergenic
ATATTATTAAAAGTTATCTG+AGG 0.654039 4:-53115347 None:intergenic
AAGGCCAAGCATGCTCCTAG+AGG 0.658563 4:+53116278 MsaT020497.1:CDS
AAGGCCAAGCATGCTCCTAG+AGG 0.658563 4:+53116451 MsaT020497.1:CDS
GCTGAAACTTCCAAGTCTGG+AGG 0.660898 4:+53116105 MsaT020497.1:CDS
TCTGTTGCAGAAGTTGCAAG+AGG 0.682206 4:+53116303 MsaT020497.1:CDS
TCTGTTGCAGAAGTTGCAAG+AGG 0.682206 4:+53116476 MsaT020497.1:CDS
TCTTCTGGCCACCAAATACG+AGG 0.688955 4:-53115292 None:intergenic
AGGCATACCAGAAGAGCCTG+TGG 0.689406 4:+53115262 MsaT020497.1:CDS

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
Chromosome Type Strat End Strand Name
Chr4 gene 53114817 53116647 53114817 ID=MsaG020497
Chr4 mRNA 53114817 53116647 53114817 ID=MsaT020497.1;Parent=MsaG020497
Chr4 exon 53114817 53114829 53114817 ID=MsaT020497.1.exon1;Parent=MsaT020497.1
Chr4 CDS 53114817 53114829 53114817 ID=cds.MsaT020497.1;Parent=MsaT020497.1
Chr4 exon 53115057 53115133 53115057 ID=MsaT020497.1.exon2;Parent=MsaT020497.1
Chr4 CDS 53115057 53115133 53115057 ID=cds.MsaT020497.1;Parent=MsaT020497.1
Chr4 exon 53115239 53115413 53115239 ID=MsaT020497.1.exon3;Parent=MsaT020497.1
Chr4 CDS 53115239 53115413 53115239 ID=cds.MsaT020497.1;Parent=MsaT020497.1
Chr4 exon 53116046 53116151 53116046 ID=MsaT020497.1.exon4;Parent=MsaT020497.1
Chr4 CDS 53116046 53116151 53116046 ID=cds.MsaT020497.1;Parent=MsaT020497.1
Chr4 exon 53116241 53116324 53116241 ID=MsaT020497.1.exon5;Parent=MsaT020497.1
Chr4 CDS 53116241 53116324 53116241 ID=cds.MsaT020497.1;Parent=MsaT020497.1
Chr4 exon 53116414 53116497 53116414 ID=MsaT020497.1.exon6;Parent=MsaT020497.1
Chr4 CDS 53116414 53116497 53116414 ID=cds.MsaT020497.1;Parent=MsaT020497.1
Chr4 exon 53116587 53116647 53116587 ID=MsaT020497.1.exon7;Parent=MsaT020497.1
Chr4 CDS 53116587 53116647 53116587 ID=cds.MsaT020497.1;Parent=MsaT020497.1
Gene Sequence

>MsaT020497.1

ATGGAGTTTTGGGCTGCCGAGGTTAAGGTTGGAGAAACTATCAAGATTGACCCGTATGCCCATGATGCAGCAGCTATTCACATTTCTCAGGTAGCACTTGGTGCAGCAAATAAAGGCATACCAGAAGAGCCTGTGGTTATTTACCTCGTATTTGGTGGCCAGAAGATTGTTTTGGGAACCTTAATCAGGGACAAAATTCCTCAGATAACTTTTAATAATATTCTTGAAAAGGAATTTGAGCTTTCTCACAATTCCAAAACTGCGAATTCTGAGAAAGCTGGACATACAGCAATTCCTGACTCTAAGAAAGGTCCTAACAATGATGCTGAAACTTCCAAGTCTGGAGGACTCTCTTGCCGTAGTTGCAGCAGGATATTCACCTCTGAAAATGGATTGCAACAACATATGAAGGCCAAGCATGCTCCTAGAGGACTCTGTTGCAGAAGTTGCAAGAGGATATTCACCTCTGAAAATGGATTGCAACAACATATGAAGGCCAAGCATGCTCCTAGAGGACTCTGTTGCAGAAGTTGCAAGAGGACATTCACCTCTGAAAATGGATTGCAAGAACATAACAAGGCCAAGCATGCTGCTAAGTGA

Protein sequence

>MsaT020497.1

MEFWAAEVKVGETIKIDPYAHDAAAIHISQVALGAANKGIPEEPVVIYLVFGGQKIVLGTLIRDKIPQITFNNILEKEFELSHNSKTANSEKAGHTAIPDSKKGPNNDAETSKSGGLSCRSCSRIFTSENGLQQHMKAKHAPRGLCCRSCKRIFTSENGLQQHMKAKHAPRGLCCRSCKRTFTSENGLQEHNKAKHAAK*