AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa ssp. caerulea / MsaG003600

Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsaG003600 MtrunA17_Chr1g0187511 76.224 143 16 1 12 136 3 145 2.59e-75 220
MsaG003600 MtrunA17_Chr1g0187541 44.295 149 56 7 9 136 4 146 4.11e-22 85.5
MsaG003600 MtrunA17_Chr1g0187701 38.194 144 63 5 17 136 15 156 2.14e-20 81.6
MsaG003600 MtrunA17_Chr4g0031161 31.977 172 63 4 17 136 13 182 1.16e-16 72.4
MsaG003600 MtrunA17_Chr1g0166461 31.646 158 70 7 14 136 13 167 1.79e-13 63.5
MsaG003600 MtrunA17_Chr5g0423491 32.215 149 66 6 1 124 1 139 4.34e-12 59.7
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score

Find 25 sgRNAs with CRISPR-Local

Find sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
CAATGACACATCAGTGAATT+TGG 0.236191 1:-59387902 MsaT003600.1:CDS
TTATCCAACATGTTGATATA+TGG 0.260832 1:+59387958 None:intergenic
ATGGGAAAATTGGGTGGTAA+AGG 0.416030 1:+59388090 None:intergenic
TAAAGGGTTGGCCATTGATT+CGG 0.428827 1:+59388107 None:intergenic
TGGGAAAATTGGGTGGTAAA+GGG 0.468596 1:+59388091 None:intergenic
CAATCCTCAGGCCGAATCAA+TGG 0.469990 1:-59388118 MsaT003600.1:CDS
CATTGATTCGGCCTGAGGAT+TGG 0.472364 1:+59388119 None:intergenic
CCACCAGTCCCTTGTTGTTG+TGG 0.476108 1:+59388012 None:intergenic
AAGCCACCTTGAGTCTCATA+TGG 0.484456 1:-59388178 MsaT003600.1:CDS
CAAAATTATTGATATTGCTA+CGG 0.495293 1:+59388247 None:intergenic
ACAACAAGGGACTGGTGGTA+TGG 0.510630 1:-59388007 MsaT003600.1:CDS
ATTCGGCCTGAGGATTGGTA+TGG 0.511741 1:+59388124 None:intergenic
TTGGCCATTGATTCGGCCTG+AGG 0.541375 1:+59388114 None:intergenic
CTTGAGCCATATGAGACTCA+AGG 0.558137 1:+59388172 None:intergenic
ATTAAACCATACCAATCCTC+AGG 0.560036 1:-59388130 MsaT003600.1:CDS
ATGGAAGTCTCTCCGATCGA+TGG 0.567201 1:-59387988 MsaT003600.1:CDS
TAAGCCATATATCAACATGT+TGG 0.587500 1:-59387962 MsaT003600.1:CDS
TTTGGCATGGGAAAATTGGG+TGG 0.600647 1:+59388084 None:intergenic
AAAATTGGGTGGTAAAGGGT+TGG 0.611916 1:+59388095 None:intergenic
TTTCAGCAACCACAACAACA+AGG 0.614643 1:-59388021 MsaT003600.1:CDS
CAACCACAACAACAAGGGAC+TGG 0.623235 1:-59388015 MsaT003600.1:CDS
CCACAACAACAAGGGACTGG+TGG 0.623856 1:-59388012 MsaT003600.1:CDS
TATGGCTTAGTTCCATCGAT+CGG 0.625287 1:+59387976 None:intergenic
TTCAGCAACCACAACAACAA+GGG 0.626204 1:-59388020 MsaT003600.1:CDS
GAGCCATATGAGACTCAAGG+TGG 0.728487 1:+59388175 None:intergenic

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
Chromosome Type Strat End Strand Name
Chr1 gene 59387888 59388298 59387888 ID=MsaG003600
Chr1 mRNA 59387888 59388298 59387888 ID=MsaT003600.1;Parent=MsaG003600
Chr1 exon 59387888 59388298 59387888 ID=MsaT003600.1.exon1;Parent=MsaT003600.1
Chr1 CDS 59387888 59388298 59387888 ID=cds.MsaT003600.1;Parent=MsaT003600.1
Gene Sequence

>MsaT003600.1

ATGGGTGACGATTTCGCTCAAGAGAACAACCGTAGCAATATCAATAATTTTGTATGTGGATTGTGCAATCATGATTGCACAAACTTCGAATCACTCATAAGCCACCTTGAGTCTCATATGGCTCAAGAAAATCTTGCTATTGCAAGATTAAACCATACCAATCCTCAGGCCGAATCAATGGCCAACCCTTTACCACCCAATTTTCCCATGCCAAAATCATTACATGAAAACAAAACCTTCGTTAAAAGCAAGTTATTTCAGCAACCACAACAACAAGGGACTGGTGGTATGGAAGTCTCTCCGATCGATGGAACTAAGCCATATATCAACATGTTGGATAAACCCATCGAGAAAAATGTCTTCATTAACATCATCAATGACACATCAGTGAATTTGGAGTTAAAGCTCTAG
Protein sequence

>MsaT003600.1

MGDDFAQENNRSNINNFVCGLCNHDCTNFESLISHLESHMAQENLAIARLNHTNPQAESMANPLPPNFPMPKSLHENKTFVKSKLFQQPQQQGTGGMEVSPIDGTKPYINMLDKPIEKNVFINIINDTSVNLELKL*