AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa ssp. caerulea / MsaG019459


Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsaG019459 MtrunA17_Chr3g0082121 62.500 112 40 1 1 110 8 119 7.39e-40 140
MsaG019459 MtrunA17_Chr5g0401121 56.364 110 44 1 1 110 27 132 4.06e-35 118
MsaG019459 MtrunA17_Chr6g0458391 47.619 84 44 0 27 110 218 301 2.64e-22 90.1
MsaG019459 MtrunA17_Chr6g0458391 47.436 78 40 1 33 110 90 166 1.35e-16 73.9
MsaG019459 MtrunA17_Chr1g0203721 43.373 83 47 0 28 110 57 139 2.64e-18 79.0
MsaG019459 MtrunA17_Chr4g0033611 43.373 83 46 1 28 110 70 151 7.01e-16 70.9
MsaG019459 MtrunA17_Chr2g0329421 44.156 77 42 1 34 110 27 102 3.96e-15 68.2
MsaG019459 MtrunA17_Chr5g0448761 44.444 81 42 1 34 111 60 140 1.52e-12 62.4
MsaG019459 MtrunA17_Chr3g0078041 39.744 78 46 1 34 110 50 127 3.00e-11 57.8
MsaG019459 MtrunA17_Chr7g0233911 34.375 96 50 2 24 112 24 113 3.34e-11 57.8
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsaG019459 AT3G59470.3 44.156 77 42 1 34 110 70 145 1.47e-14 67.4
MsaG019459 AT3G59470.1 44.156 77 42 1 34 110 70 145 1.47e-14 67.4
MsaG019459 AT3G59470.2 44.156 77 42 1 34 110 82 157 1.88e-14 67.4
MsaG019459 AT5G18960.2 35.484 93 47 1 18 110 27 106 6.35e-13 63.9
MsaG019459 AT5G18960.1 35.484 93 47 1 18 110 27 106 6.35e-13 63.9
MsaG019459 AT4G38180.1 40.426 94 53 1 21 111 60 153 1.08e-12 63.2
MsaG019459 AT3G07500.1 35.135 111 69 2 1 110 1 109 8.99e-11 57.0

Find 25 sgRNAs with CRISPR-Local

Find sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
TTCCAGATTCCGTCGATAAA+TGG 0.190793 4:+29004972 MsaT019459.1:CDS
TTTGGTATTCGTCGAGAATA+TGG 0.287007 4:+29005130 MsaT019459.1:CDS
ACTCGCTGTGCATCCTGTTC+TGG 0.289317 4:-29005266 None:intergenic
ACCCATTTATCGACGGAATC+TGG 0.290558 4:-29004974 None:intergenic
TACAGTAAAAGAATTGGATT+TGG 0.322823 4:+29005112 MsaT019459.1:CDS
AATGATTACAGTAAAAGAAT+TGG 0.346045 4:+29005106 MsaT019459.1:CDS
TCCAGATTCCGTCGATAAAT+GGG 0.425746 4:+29004973 MsaT019459.1:CDS
TGCCAATAGTGGACCTCACT+TGG 0.426768 4:+29005042 MsaT019459.1:CDS
TCCCAAGTGAGGTCCACTAT+TGG 0.441740 4:-29005044 None:intergenic
AAAGAAGGTATTGCCAATAG+TGG 0.470618 4:+29005031 MsaT019459.1:CDS
GGAAATAAAAGCAGAATGGA+TGG 0.493838 4:+29005151 MsaT019459.1:CDS
TCTAGAGTAGAAACCAGAAC+AGG 0.524531 4:+29005253 MsaT019459.1:CDS
GCCAATAGTGGACCTCACTT+GGG 0.571514 4:+29005043 MsaT019459.1:CDS
ATTGTTCACCCATTTATCGA+CGG 0.574582 4:-29004981 None:intergenic
TCTACTCTAGACTCCGCCGT+CGG 0.580333 4:-29005241 None:intergenic
ATATGGAAATAAAAGCAGAA+TGG 0.588771 4:+29005147 MsaT019459.1:CDS
CATGCTTCAAAGAGGGTACG+CGG 0.603837 4:+29005197 MsaT019459.1:CDS
TCAAACTTCATTCCCAAGTG+AGG 0.614294 4:-29005055 None:intergenic
GAAGTTTGAATCTGAGACGG+CGG 0.620676 4:+29005069 MsaT019459.1:CDS
AATGAAGTTTGAATCTGAGA+CGG 0.638568 4:+29005066 MsaT019459.1:CDS
AAGATTCACATGCTTCAAAG+AGG 0.642884 4:+29005189 MsaT019459.1:CDS
AGATTCACATGCTTCAAAGA+GGG 0.654356 4:+29005190 MsaT019459.1:CDS
ATGCTTCAAAGAGGGTACGC+GGG 0.657915 4:+29005198 MsaT019459.1:CDS
TGACAAAAGACGTCAACCGA+CGG 0.667263 4:+29005225 MsaT019459.1:CDS
CAAAAGACGTCAACCGACGG+CGG 0.706901 4:+29005228 MsaT019459.1:CDS

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
Chromosome Type Strat End Strand Name
Chr4 gene 29004956 29005294 29004956 ID=MsaG019459
Chr4 mRNA 29004956 29005294 29004956 ID=MsaT019459.1;Parent=MsaG019459
Chr4 exon 29004956 29005294 29004956 ID=MsaT019459.1.exon1;Parent=MsaT019459.1
Chr4 CDS 29004956 29005294 29004956 ID=cds.MsaT019459.1;Parent=MsaT019459.1
Gene Sequence

>MsaT019459.1

ATGGATTCATCATCAATTCCAGATTCCGTCGATAAATGGGTGAACAATATCCATGAACAAAATGTTCATCACGAAAAAGAAGGTATTGCCAATAGTGGACCTCACTTGGGAATGAAGTTTGAATCTGAGACGGCGGCATATGAATTTCATAATGATTACAGTAAAAGAATTGGATTTGGTATTCGTCGAGAATATGGAAATAAAAGCAGAATGGATGGAGTTTTGACTTCGAGAAGATTCACATGCTTCAAAGAGGGTACGCGGGTTGTTGACAAAAGACGTCAACCGACGGCGGAGTCTAGAGTAGAAACCAGAACAGGATGCACAGCGAGTTGTTAA

Protein sequence

>MsaT019459.1

MDSSSIPDSVDKWVNNIHEQNVHHEKEGIANSGPHLGMKFESETAAYEFHNDYSKRIGFGIRREYGNKSRMDGVLTSRRFTCFKEGTRVVDKRRQPTAESRVETRTGCTASC*