AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa ssp. caerulea / MsaG034386

Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsaG034386 MtrunA17_Chr6g0485281 96.667 120 4 0 1 120 4 123 1.32e-82 238
MsaG034386 MtrunA17_Chr2g0320211 50.000 138 69 0 6 143 2 139 9.54e-44 140
MsaG034386 MtrunA17_Chr4g0041301 50.725 138 68 0 6 143 4 141 2.65e-42 137
MsaG034386 MtrunA17_Chr6g0457491 58.491 53 22 0 91 143 2 54 9.90e-17 69.3
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsaG034386 AT3G24500.1 72.297 148 39 1 1 146 1 148 8.98e-70 207
MsaG034386 AT3G58680.1 52.899 138 65 0 6 143 4 141 9.74e-45 143
MsaG034386 AT2G42680.1 51.449 138 67 0 6 143 4 141 1.23e-43 140
MsaG034386 AT3G24500.2 61.053 95 35 1 1 93 1 95 3.17e-34 115

Find 37 sgRNAs with CRISPR-Local

Find sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
AGGGCTTGGTTTATCGCTTT+TGG 0.181977 6:-111615086 None:intergenic
GGGGAAAATGGAGAGGGTTT+TGG 0.193937 6:+111615382 MsaT034386.1:CDS
TGTTATTAATCAAGGTGTTT+TGG 0.256794 6:+111615361 MsaT034386.1:CDS
GTTAAACTTAGGGGTAAAAT+TGG 0.277746 6:+111615407 MsaT034386.1:CDS
TGAAAGGGTTCAGGTTGTTC+AGG 0.309874 6:+111615319 MsaT034386.1:CDS
CTGCTCCGCTTCGGAGGGCT+TGG 0.317059 6:-111615100 None:intergenic
TTACGGAGATCTTGTGCTTT+GGG 0.320535 6:-111615062 None:intergenic
CGCGATACAGAAAGCGCGTT+TGG 0.332684 6:+111615256 MsaT034386.1:CDS
ATTGATTAATGAAAGGGTTC+AGG 0.341931 6:+111615310 MsaT034386.1:CDS
GAAGATGAGTCAGGGTGATT+TGG 0.359012 6:+111615283 MsaT034386.1:CDS
GAGATCTTGTGCTTTGGGTT+TGG 0.363601 6:-111615057 None:intergenic
GTTACGGAGATCTTGTGCTT+TGG 0.384227 6:-111615063 None:intergenic
AGCTTCCTCGCGTTTAAAAC+CGG 0.385062 6:-111615179 None:intergenic
GGCGAAATTGATTAATGAAA+GGG 0.407053 6:+111615304 MsaT034386.1:CDS
GCTAGATGAAGCGGGTGAAC+CGG 0.446087 6:+111615199 MsaT034386.1:CDS
GTGAACCGGCAGCGTTGGAG+CGG 0.446978 6:+111615213 MsaT034386.1:CDS
TAGGAACAATAAAACAAGAC+TGG 0.459948 6:+111615012 MsaT034386.1:CDS
GCAGCGTTGGAGCGGGTTGG+TGG 0.463582 6:+111615221 MsaT034386.1:CDS
TGGCGAAATTGATTAATGAA+AGG 0.476549 6:+111615303 MsaT034386.1:CDS
TTTGGATAAGAAGATGAGTC+AGG 0.478923 6:+111615274 MsaT034386.1:CDS
AGCGGGTGAACCGGCAGCGT+TGG 0.480392 6:+111615208 MsaT034386.1:CDS
GGTAAAGCTGTTATTAATCA+AGG 0.485331 6:+111615353 MsaT034386.1:CDS
TTAACACTTCTGCTCCGCTT+CGG 0.492346 6:-111615109 None:intergenic
CACTTCTGCTCCGCTTCGGA+GGG 0.494840 6:-111615105 None:intergenic
TGAACCGGCAGCGTTGGAGC+GGG 0.513996 6:+111615214 MsaT034386.1:CDS
ACACTTCTGCTCCGCTTCGG+AGG 0.514295 6:-111615106 None:intergenic
ATTGTTCCTACTGTTCGTGT+CGG 0.524804 6:-111614999 None:intergenic
GTTGTTCAGGAATATGAGAA+TGG 0.557413 6:+111615332 MsaT034386.1:CDS
CGCGAGGAAGCTAGATGAAG+CGG 0.559172 6:+111615190 MsaT034386.1:CDS
CCAACCCGCTCCAACGCTGC+CGG 0.561045 6:-111615218 None:intergenic
CCGGCAGCGTTGGAGCGGGT+TGG 0.582916 6:+111615218 MsaT034386.1:CDS
GCGAGGAAGCTAGATGAAGC+GGG 0.607603 6:+111615191 MsaT034386.1:CDS
AGGAACAATAAAACAAGACT+GGG 0.609753 6:+111615013 MsaT034386.1:CDS
AGGATGCCGACACGAACAGT+AGG 0.635380 6:+111614993 None:intergenic
AAAACAAGACTGGGAACCCG+TGG 0.638139 6:+111615022 MsaT034386.1:CDS
ATAAACCAAGCCCTCCGAAG+CGG 0.641733 6:+111615095 MsaT034386.1:CDS
TTGGATAAGAAGATGAGTCA+GGG 0.654305 6:+111615275 MsaT034386.1:CDS

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
Chromosome Type Strat End Strand Name
Chr6 gene 111614996 111615436 111614996 ID=MsaG034386
Chr6 mRNA 111614996 111615436 111614996 ID=MsaT034386.1;Parent=MsaG034386
Chr6 exon 111614996 111615436 111614996 ID=MsaT034386.1.exon1;Parent=MsaT034386.1
Chr6 CDS 111614996 111615436 111614996 ID=cds.MsaT034386.1;Parent=MsaT034386.1
Gene Sequence

>MsaT034386.1

ATGCCGACACGAACAGTAGGAACAATAAAACAAGACTGGGAACCCGTGGTTCTCCACAAAACCAAACCCAAAGCACAAGATCTCCGTAACCCAAAAGCGATAAACCAAGCCCTCCGAAGCGGAGCAGAAGTGTTAACAGTCAAAAAACCAACAGCCGGTTCGAACAAAAAATCAACGGCTGGACCGGTTTTAAACGCGAGGAAGCTAGATGAAGCGGGTGAACCGGCAGCGTTGGAGCGGGTTGGTGGAGAAGTGAGACACGCGATACAGAAAGCGCGTTTGGATAAGAAGATGAGTCAGGGTGATTTGGCGAAATTGATTAATGAAAGGGTTCAGGTTGTTCAGGAATATGAGAATGGTAAAGCTGTTATTAATCAAGGTGTTTTGGGGAAAATGGAGAGGGTTTTGGGGGTTAAACTTAGGGGTAAAATTGGAAAATAA
Protein sequence

>MsaT034386.1

MPTRTVGTIKQDWEPVVLHKTKPKAQDLRNPKAINQALRSGAEVLTVKKPTAGSNKKSTAGPVLNARKLDEAGEPAALERVGGEVRHAIQKARLDKKMSQGDLAKLINERVQVVQEYENGKAVINQGVLGKMERVLGVKLRGKIGK*