AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa ssp. caerulea / MsaG026641


Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsaG026641 MtrunA17_Chr5g0441581 69.231 104 30 1 136 237 550 653 8.15e-41 149
MsaG026641 MtrunA17_Chr5g0441581 45.161 155 85 0 1 155 1 155 2.10e-36 137
MsaG026641 MtrunA17_Chr1g0172041 98.305 59 1 0 136 194 55 113 5.55e-36 124
MsaG026641 MtrunA17_Chr6g0451441 49.231 130 64 1 7 136 62 189 1.97e-34 129
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score

Find 42 sgRNAs with CRISPR-Local

Find sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
CAAATCTAGCTTGCTATGTT+TGG 0.233030 5:+26067765 MsaT026641.1:CDS
TGAAGACACTTCCGACTAAA+AGG 0.299870 5:+26066111 MsaT026641.1:CDS
AACATCAGAAAGAGACTTCT+TGG 0.305722 5:+26068256 MsaT026641.1:CDS
TGAATTCATGAAGTGTTTCA+TGG 0.341741 5:-26067744 None:intergenic
AAATCTAGCTTGCTATGTTT+GGG 0.356420 5:+26067766 MsaT026641.1:CDS
CGCAAAGATTACTGCTAAGT+TGG 0.357966 5:+26066145 MsaT026641.1:CDS
TCACAAACATCAAAATTGTT+TGG 0.358937 5:-26065843 None:intergenic
AGTTGGGAAAAGATGAATTA+TGG 0.360559 5:+26066162 MsaT026641.1:CDS
CTTTCTGATGTTGTTGTCCA+AGG 0.389362 5:-26068245 None:intergenic
CTTGAATAACCTTGACTTAG+TGG 0.398152 5:-26066228 None:intergenic
AATGGAGTTGATAGCTTTAG+TGG 0.398440 5:+26065885 MsaT026641.1:CDS
GCAAGTTGCGAGCCTTCATC+AGG 0.400046 5:+26065915 MsaT026641.1:CDS
CTGTCAAACCTATCCATTTG+TGG 0.418494 5:-26067655 None:intergenic
CAACTTAGCAGTAATCTTTG+CGG 0.430849 5:-26066144 None:intergenic
CTAATTGTGTGAGAGTGGTT+AGG 0.441187 5:-26066203 None:intergenic
CACCTCCTCTACAGATGAAA+AGG 0.453866 5:-26065943 None:intergenic
GCAAAGATTACTGCTAAGTT+GGG 0.459186 5:+26066146 MsaT026641.1:CDS
TTGAATAACCTTGACTTAGT+GGG 0.483800 5:-26066227 None:intergenic
CTTACTAAAACATACTTCAA+TGG 0.493435 5:-26067565 None:intergenic
GACAGAGTTGAAGCCACAAA+TGG 0.507415 5:+26067642 MsaT026641.1:CDS
AGAGAAGGACATCATGTGTC+GGG 0.510956 5:+26066074 MsaT026641.1:CDS
ACATCAAAGAAAGGAGAGGA+TGG 0.519853 5:+26066020 MsaT026641.1:CDS
ACATCAGAAAGAGACTTCTT+GGG 0.530453 5:+26068257 MsaT026641.1:CDS
TTTGTTGACGCTATTACTAG+TGG 0.531551 5:+26068170 MsaT026641.1:CDS
GAAAAGGACATCCCTGATGA+AGG 0.537910 5:-26065927 None:intergenic
AAGATTAGAACATCAAAGAA+AGG 0.539533 5:+26066011 MsaT026641.1:CDS
AGTTTGGAGGTAATATGCCT+TGG 0.543223 5:+26068228 MsaT026641.1:CDS
AGTTGAAGCCACAAATGGAT+AGG 0.568044 5:+26067647 MsaT026641.1:CDS
TATTACTAGTGGAGAATCGT+TGG 0.569208 5:+26068181 MsaT026641.1:CDS
CATCAAAGAAAGGAGAGGAT+GGG 0.575239 5:+26066021 MsaT026641.1:CDS
TCCAAACTGCAAAATATCCA+TGG 0.587654 5:-26068213 None:intergenic
ATGCTATCTTGCTCAAGAGA+AGG 0.588657 5:+26066059 MsaT026641.1:CDS
TTTCTATGAGGTTGTTGAAG+TGG 0.591853 5:+26067690 MsaT026641.1:CDS
GGAAGTGTCTTCAATGTACA+TGG 0.592537 5:-26066101 None:intergenic
AAGAGAAGGACATCATGTGT+CGG 0.593763 5:+26066073 MsaT026641.1:CDS
CTTGTGCAAGCATTTCTATG+AGG 0.596711 5:+26067678 MsaT026641.1:CDS
TGGGGCTAATTGTGTGAGAG+TGG 0.603064 5:-26066208 None:intergenic
TGAATAACCTTGACTTAGTG+GGG 0.603118 5:-26066226 None:intergenic
ATCGTTGGATACAAGTACCA+TGG 0.626865 5:+26068196 MsaT026641.1:CDS
TAGAACATCAAAGAAAGGAG+AGG 0.643941 5:+26066016 MsaT026641.1:CDS
CAATTAGCCCCACTAAGTCA+AGG 0.658920 5:+26066219 MsaT026641.1:CDS
CAAGTTGCGAGCCTTCATCA+GGG 0.660640 5:+26065916 MsaT026641.1:CDS

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
Chromosome Type Strat End Strand Name
Chr5 gene 26065834 26068304 26065834 ID=MsaG026641
Chr5 mRNA 26065834 26068304 26065834 ID=MsaT026641.1;Parent=MsaG026641
Chr5 exon 26065834 26066240 26065834 ID=MsaT026641.1.exon1;Parent=MsaT026641.1
Chr5 CDS 26065834 26066240 26065834 ID=cds.MsaT026641.1;Parent=MsaT026641.1
Chr5 exon 26067507 26067796 26067507 ID=MsaT026641.1.exon2;Parent=MsaT026641.1
Chr5 CDS 26067507 26067796 26067507 ID=cds.MsaT026641.1;Parent=MsaT026641.1
Chr5 exon 26068165 26068304 26068165 ID=MsaT026641.1.exon3;Parent=MsaT026641.1
Chr5 CDS 26068165 26068304 26068165 ID=cds.MsaT026641.1;Parent=MsaT026641.1
Gene Sequence

>MsaT026641.1

ATGGATAGTCCAAACAATTTTGATGTTTGTGATGGTTTTGATGGTGAAGCTAATGGAGTTGATAGCTTTAGTGGTGAACAAGCAAGTTGCGAGCCTTCATCAGGGATGTCCTTTTCATCTGTAGAGGAGGTGAAATCATTTTATAAAGAATATGCTTCTAAAAAGAGTTTTGATTGGAAGATTAGAACATCAAAGAAAGGAGAGGATGGGAATCTCAAGTACTTCATGCTATCTTGCTCAAGAGAAGGACATCATGTGTCGGGAGTACCATGTACATTGAAGACACTTCCGACTAAAAGGAAAAGTCATTCCGCAAAGATTACTGCTAAGTTGGGAAAAGATGAATTATGGTATATTAAAAAGTTTGAACCTAACCACTCTCACACAATTAGCCCCACTAAGTCAAGAGGTATTGTATGTCGTCATGTGCTATCTGTGTGTGCTCAAGAAAGAGTTAAAAACATGCCATTGAAGTATGTTTTAGTAAGATGGAGCAAAAATATTAAAAGGAAGCATTCATATATTAAGAGTAGCTATAATGTGACAGAGTTGAAGCCACAAATGGATAGGTTTGACAGCTTGTGCAAGCATTTCTATGAGGTTGTTGAAGTGGCTGCAGAAAAAGAAGATAAAACTATGGCTCTCCATGAAACACTTCATGAATTCAAATCTAGCTTGCTATGTTTGGGTGCTACAAAATCATTTGTTGACGCTATTACTAGTGGAGAATCGTTGGATACAAGTACCATGGATATTTTGCAGTTTGGAGGTAATATGCCTTGGACAACAACATCAGAAAGAGACTTCTTGGGATCTTTGCAATTCAGCACAAACTAG

Protein sequence

>MsaT026641.1

MDSPNNFDVCDGFDGEANGVDSFSGEQASCEPSSGMSFSSVEEVKSFYKEYASKKSFDWKIRTSKKGEDGNLKYFMLSCSREGHHVSGVPCTLKTLPTKRKSHSAKITAKLGKDELWYIKKFEPNHSHTISPTKSRGIVCRHVLSVCAQERVKNMPLKYVLVRWSKNIKRKHSYIKSSYNVTELKPQMDRFDSLCKHFYEVVEVAAEKEDKTMALHETLHEFKSSLLCLGATKSFVDAITSGESLDTSTMDILQFGGNMPWTTTSERDFLGSLQFSTN*