AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa ssp. caerulea / MsaG000666

Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsaG000666 MtrunA17_Chr1g0149501 92.832 279 18 1 1 279 1 277 0.0 538
MsaG000666 MtrunA17_Chr6g0461511 41.243 177 94 3 30 196 374 550 9.81e-35 131
MsaG000666 MtrunA17_Chr1g0182981 53.521 71 30 1 23 90 1 71 2.20e-16 72.0
MsaG000666 MtrunA17_Chr4g0055251 37.805 82 51 0 123 204 3 84 4.57e-11 60.1
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score

Find 57 sgRNAs with CRISPR-Local

Find sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
TCAACCAACACTTCAGATTT+TGG 0.127175 1:-8741888 None:intergenic
GGACATGGCGCCATCGTTTC+TGG 0.166049 1:-8742151 None:intergenic
GCCAGAGTTGGAAGCGATTC+AGG 0.243223 1:+8741956 MsaT000666.1:CDS
CAGAGAAGGAGAAGGAAAAT+TGG 0.276242 1:+8742179 MsaT000666.1:CDS
CGAGGTGAAGCAGCCAAGTT+AGG 0.314453 1:+8741462 MsaT000666.1:CDS
TCATTTAAACGGCCTGCAAT+AGG 0.361423 1:-8741714 None:intergenic
TTAGAAGAACAGCCTATTGC+AGG 0.373206 1:+8741702 MsaT000666.1:CDS
TCTGGCAAAATAGATATATC+TGG 0.373242 1:-8741939 None:intergenic
TCGATTACGAAATTCTTTAT+CGG 0.375032 1:-8741418 None:intergenic
TGAGTGTCCATTCAGATTGC+GGG 0.385405 1:+8741605 MsaT000666.1:CDS
ATATCTGGTTGATCTTCCTT+TGG 0.393013 1:-8741924 None:intergenic
TCATCTCTTCCTCATTTAAA+CGG 0.399399 1:-8741725 None:intergenic
TCGACTGGTTCAGCACTGTT+AGG 0.410500 1:-8741363 None:intergenic
ACCTGAATCGCTTCCAACTC+TGG 0.412695 1:-8741957 None:intergenic
TTTCTCCGTCAACCCTTGTC+AGG 0.435693 1:+8739087 MsaT000666.1:CDS
AACAATACCAAACCCTAACT+TGG 0.442441 1:-8741475 None:intergenic
GAAGCAGCCAAGTTAGGGTT+TGG 0.454402 1:+8741468 MsaT000666.1:CDS
GGTATGGAGGATCCCTCTGC+TGG 0.464129 1:+8741333 MsaT000666.1:intron
TCCTTCTCTGCAGGAGGACA+TGG 0.465704 1:-8742166 None:intergenic
CTCTTATACTTGAATGCAAA+AGG 0.466270 1:+8741529 MsaT000666.1:CDS
ATTTCAAAGTCAAATAATAG+AGG 0.466691 1:+8741498 MsaT000666.1:CDS
GACATGGCGCCATCGTTTCT+GGG 0.467856 1:-8742150 None:intergenic
TCCTTCTCCTTCTCTGCAGG+AGG 0.477318 1:-8742172 None:intergenic
AGAGAAGGAGAAGGAAAATT+GGG 0.484008 1:+8742180 MsaT000666.1:CDS
AAATAACCCCGCAATCTGAA+TGG 0.485974 1:-8741612 None:intergenic
GAGGTATAACAAGTCTATGA+AGG 0.500697 1:+8741863 MsaT000666.1:CDS
CACCTCGAACCCACTTCAGC+AGG 0.515291 1:-8741446 None:intergenic
AAAACACAATCATGAGATGA+TGG 0.519225 1:+8741674 MsaT000666.1:CDS
GAGGTGAAGCAGCCAAGTTA+GGG 0.528533 1:+8741463 MsaT000666.1:CDS
AGATTTATAATGCACGTTCG+AGG 0.531682 1:+8741844 MsaT000666.1:CDS
TATTGCAGGCCGTTTAAATG+AGG 0.536027 1:+8741716 MsaT000666.1:CDS
GCCATGTCCTCCTGCAGAGA+AGG 0.538358 1:+8742165 MsaT000666.1:CDS
ATTTACCTGACAAGGGTTGA+CGG 0.539125 1:-8739092 None:intergenic
TAGTGAATATTTACCTGACA+AGG 0.545419 1:-8739100 None:intergenic
ATCGAGATGACCTGCTGAAG+TGG 0.550843 1:+8741436 MsaT000666.1:CDS
ATTACGAAATTCTTTATCGG+TGG 0.564422 1:-8741415 None:intergenic
TGGGAAGTTACCGTAGTATG+TGG 0.565876 1:+8741651 MsaT000666.1:CDS
GACCTGCTGAAGTGGGTTCG+AGG 0.578355 1:+8741444 MsaT000666.1:CDS
GTGAGTGTCCATTCAGATTG+CGG 0.585943 1:+8741604 MsaT000666.1:CDS
AAATCAAGAGACTCATCGAC+TGG 0.594128 1:-8741378 None:intergenic
AGAAAAGAAGAGCTGACGAT+GGG 0.596743 1:+8741808 MsaT000666.1:CDS
AAGAAAAGAAGAGCTGACGA+TGG 0.604104 1:+8741807 MsaT000666.1:CDS
AGGTATAACAAGTCTATGAA+GGG 0.614739 1:+8741864 MsaT000666.1:CDS
GGTAACTTCCCATACGCCAG+AGG 0.621236 1:-8741640 None:intergenic
TGATGATGACGGTGTGCCAA+AGG 0.622138 1:+8741908 MsaT000666.1:CDS
TGATACCATTTCAGGTATGG+AGG 0.622154 1:+8741320 MsaT000666.1:intron
TCCTCCTGCAGAGAAGGAGA+AGG 0.625108 1:+8742171 MsaT000666.1:CDS
TCGAGATGACCTGCTGAAGT+GGG 0.628333 1:+8741437 MsaT000666.1:CDS
TTAGGCTTCAAACCAGCAGA+GGG 0.633057 1:-8741345 None:intergenic
GGGTCCAAAATCTGAAGTGT+TGG 0.635922 1:+8741884 MsaT000666.1:CDS
ATACTTGAATGCAAAAGGAG+TGG 0.641681 1:+8741534 MsaT000666.1:CDS
GTAACTTCCCATACGCCAGA+GGG 0.653240 1:-8741639 None:intergenic
AATAGCTTTCCCAGAAACGA+TGG 0.655369 1:+8742141 MsaT000666.1:CDS
AGTGAATATTTACCTGACAA+GGG 0.658458 1:-8739099 None:intergenic
GAGTGTCCATTCAGATTGCG+GGG 0.660517 1:+8741606 MsaT000666.1:CDS
GTTAGGCTTCAAACCAGCAG+AGG 0.669794 1:-8741346 None:intergenic
GAAGTGTTGGTTGATGATGA+CGG 0.720616 1:+8741897 MsaT000666.1:CDS

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
Chromosome Type Strat End Strand Name
Chr1 gene 8739066 8742234 8739066 ID=MsaG000666
Chr1 mRNA 8739066 8742234 8739066 ID=MsaT000666.1;Parent=MsaG000666
Chr1 exon 8739066 8739108 8739066 ID=MsaT000666.1.exon1;Parent=MsaT000666.1
Chr1 CDS 8739066 8739108 8739066 ID=cds.MsaT000666.1;Parent=MsaT000666.1
Chr1 exon 8741334 8741977 8741334 ID=MsaT000666.1.exon2;Parent=MsaT000666.1
Chr1 CDS 8741334 8741977 8741334 ID=cds.MsaT000666.1;Parent=MsaT000666.1
Chr1 exon 8742082 8742234 8742082 ID=MsaT000666.1.exon3;Parent=MsaT000666.1
Chr1 CDS 8742082 8742234 8742082 ID=cds.MsaT000666.1;Parent=MsaT000666.1
Gene Sequence

>MsaT000666.1

ATGACGGATCGACACAAACATTTTCTCCGTCAACCCTTGTCAGGTATGGAGGATCCCTCTGCTGGTTTGAAGCCTAACAGTGCTGAACCAGTCGATGAGTCTCTTGATTTCGCTAAACACTTTGCCACCGATAAAGAATTTCGTAATCGAGATGACCTGCTGAAGTGGGTTCGAGGTGAAGCAGCCAAGTTAGGGTTTGGTATTGTTATTTCAAAGTCAAATAATAGAGGAACACAAACTCTTATACTTGAATGCAAAAGGAGTGGTGTATATAAGAAGCAGTCGAAACGCCAAGACACAAGATTCAAAAAATGTGAGTGTCCATTCAGATTGCGGGGTTATTTTTTGCCCTCTGGCGTATGGGAAGTTACCGTAGTATGTGGAAAACACAATCATGAGATGATGGAAAATTTAGAAGAACAGCCTATTGCAGGCCGTTTAAATGAGGAAGAGATGAAACTCGTTCATGAGATGACAAATAACACTGTCCGTCCAAAAAATATTCTTATGACTTTGAAGAAAAGAAGAGCTGACGATGGGATTACTATCAAGCAGATTTATAATGCACGTTCGAGGTATAACAAGTCTATGAAGGGTCCAAAATCTGAAGTGTTGGTTGATGATGACGGTGTGCCAAAGGAAGATCAACCAGATATATCTATTTTGCCAGAGTTGGAAGCGATTCAGATTCGGTTTAACAATGCTGATTACAATACGAAGATACTTATTAAAGAGCAGCTGCATCAAATAGCTTTCCCAGAAACGATGGCGCCATGTCCTCCTGCAGAGAAGGAGAAGGAAAATTGGGACTTTTATGATTTAGAAACTTGTGAAATATGA
Protein sequence

>MsaT000666.1

MTDRHKHFLRQPLSGMEDPSAGLKPNSAEPVDESLDFAKHFATDKEFRNRDDLLKWVRGEAAKLGFGIVISKSNNRGTQTLILECKRSGVYKKQSKRQDTRFKKCECPFRLRGYFLPSGVWEVTVVCGKHNHEMMENLEEQPIAGRLNEEEMKLVHEMTNNTVRPKNILMTLKKRRADDGITIKQIYNARSRYNKSMKGPKSEVLVDDDGVPKEDQPDISILPELEAIQIRFNNADYNTKILIKEQLHQIAFPETMAPCPPAEKEKENWDFYDLETCEI*