AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa ssp. caerulea / MsaG038797

Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsaG038797 MtrunA17_Chr1g0197421 58.779 131 20 2 11 108 1 130 5.42e-42 134
MsaG038797 MtrunA17_Chr3g0116441 88.679 53 6 0 4 56 8 60 3.53e-29 109
MsaG038797 MtrunA17_Chr3g0116441 95.745 47 2 0 62 108 219 265 5.00e-27 103
MsaG038797 MtrunA17_Chr1g0199511 65.306 49 16 1 7 54 9 57 2.38e-17 76.3
MsaG038797 MtrunA17_Chr1g0199511 58.333 48 20 0 62 109 338 385 5.29e-16 72.4
MsaG038797 MtrunA17_Chr5g0410721 61.364 44 17 0 62 105 280 323 3.27e-11 58.5
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsaG038797 AT3G48430.1 82.979 47 8 0 62 108 247 293 2.13e-23 93.6
MsaG038797 AT3G48430.1 74.419 43 11 0 4 46 10 52 1.08e-18 80.5
MsaG038797 AT5G04240.1 65.306 49 16 1 7 54 9 57 3.00e-16 73.2
MsaG038797 AT5G04240.1 54.167 48 22 0 62 109 306 353 1.11e-12 63.2

Find 36 sgRNAs with CRISPR-Local

Find sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
GACCCTTTGGCCCTTGAATT+TGG 0.187974 7:+80656300 None:intergenic
AGCTGGAGTGGGTCGGTATT+CGG 0.239347 7:+80656414 None:intergenic
GAGGATGTTGTTAGAGTTCA+TGG 0.304171 7:-80656096 MsaT038797.1:CDS
TAGCTTGAATTATCTTCATA+TGG 0.324265 7:-80656169 MsaT038797.1:CDS
GTTGTTAGAGTTCATGGTTA+TGG 0.343745 7:-80656090 MsaT038797.1:CDS
GCTGGAGTGGGTCGGTATTC+GGG 0.344330 7:+80656415 None:intergenic
AGATGCTGCTGTTGCATTTG+AGG 0.352625 7:-80656115 MsaT038797.1:CDS
GAAAACCAAGCTTCCAAATT+CGG 0.381270 7:-80656355 MsaT038797.1:CDS
GGGCCAAAGGGTCTTTGTTA+AGG 0.400580 7:-80656290 MsaT038797.1:intron
GGTCGGTATTCGGGTGCTAC+TGG 0.434393 7:+80656424 None:intergenic
ATCTTGAAAATGTATTCGAT+TGG 0.441436 7:+80656379 None:intergenic
CTTTGGCCCTTGAATTTGGA+AGG 0.452571 7:+80656304 None:intergenic
GGTGCTTCTAAGACCTGGTA+TGG 0.452968 7:-80656147 MsaT038797.1:CDS
ATTGGATCTTCGAATTCAGC+TGG 0.456740 7:+80656397 None:intergenic
AGCTTGAATTATCTTCATAT+GGG 0.462001 7:-80656168 MsaT038797.1:CDS
AGAGTCCGAATTTGGAAGCT+TGG 0.462536 7:+80656350 None:intergenic
AAACCTTAACAAAGACCCTT+TGG 0.469682 7:+80656287 None:intergenic
GGTGGAGAGATTAACCCTCT+TGG 0.496887 7:-80656069 MsaT038797.1:CDS
AATTTGGAAGGTGGAAAATG+AGG 0.514916 7:+80656316 None:intergenic
TTCCAAATTCAAGGGCCAAA+GGG 0.528642 7:-80656302 MsaT038797.1:CDS
AATGCAACAGCAGCATCTCT+AGG 0.537833 7:+80656120 None:intergenic
ATCTTCGAATTCAGCTGGAG+TGG 0.545061 7:+80656402 None:intergenic
GTATTCGGGTGCTACTGGCA+TGG 0.554461 7:+80656429 None:intergenic
TTTCCACCTTCCAAATTCAA+GGG 0.561710 7:-80656310 MsaT038797.1:CDS
GTTAGAGTTCATGGTTATGG+TGG 0.562896 7:-80656087 MsaT038797.1:CDS
CTTCCAAATTCAAGGGCCAA+AGG 0.564784 7:-80656303 MsaT038797.1:CDS
ATTTGGAAGGTGGAAAATGA+GGG 0.566469 7:+80656317 None:intergenic
ATCTCTAGGAAAACCATACC+AGG 0.566708 7:+80656134 None:intergenic
TCTTCGAATTCAGCTGGAGT+GGG 0.577536 7:+80656403 None:intergenic
ATATGGGTGCTTCTAAGACC+TGG 0.590963 7:-80656152 MsaT038797.1:CDS
CGAATTCAGCTGGAGTGGGT+CGG 0.600042 7:+80656407 None:intergenic
TCCATGAACTCTAACCAAGA+GGG 0.604035 7:+80656055 None:intergenic
TGGCCCTTGAATTTGGAAGG+TGG 0.617375 7:+80656307 None:intergenic
TCACCAAAATCAAATGGTGA+CGG 0.622967 7:-80656470 None:intergenic
AAATGGTGACGGTATTCCCA+TGG 0.633654 7:-80656459 MsaT038797.1:CDS
ATCCATGAACTCTAACCAAG+AGG 0.634497 7:+80656054 None:intergenic

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
Chromosome Type Strat End Strand Name
Chr7 gene 80656065 80656479 80656065 ID=MsaG038797
Chr7 mRNA 80656065 80656479 80656065 ID=MsaT038797.1;Parent=MsaG038797
Chr7 exon 80656065 80656205 80656065 ID=MsaT038797.1.exon2;Parent=MsaT038797.1
Chr7 CDS 80656065 80656205 80656065 ID=cds.MsaT038797.1;Parent=MsaT038797.1
Chr7 exon 80656291 80656479 80656291 ID=MsaT038797.1.exon1;Parent=MsaT038797.1
Chr7 CDS 80656291 80656479 80656291 ID=cds.MsaT038797.1;Parent=MsaT038797.1
Gene Sequence

>MsaT038797.1

ATGGTGACGGTATTCCCATGGTTAAAATCCATGCCAGTAGCACCCGAATACCGACCCACTCCAGCTGAATTCGAAGATCCAATCGAATACATTTTCAAGATCGAAAACCAAGCTTCCAAATTCGGACTCTGCAAAATCATCCCTCATTTTCCACCTTCCAAATTCAAGGGCCAAAGGGTCTTTGTTAAGGATCATGATTTGCATAGCTTGAATTATCTTCATATGGGTGCTTCTAAGACCTGGTATGGTTTTCCTAGAGATGCTGCTGTTGCATTTGAGGATGTTGTTAGAGTTCATGGTTATGGTGGAGAGATTAACCCTCTTGGTTAG
Protein sequence

>MsaT038797.1

MVTVFPWLKSMPVAPEYRPTPAEFEDPIEYIFKIENQASKFGLCKIIPHFPPSKFKGQRVFVKDHDLHSLNYLHMGASKTWYGFPRDAAVAFEDVVRVHGYGGEINPLG*