AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa ssp. caerulea / MsaG011559


Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsaG011559 MtrunA17_Chr3g0086331 88.125 480 30 7 1 465 27 494 0.0 745
MsaG011559 MtrunA17_Chr4g0061301 40.920 435 180 18 1 399 1 394 3.98e-74 242
MsaG011559 MtrunA17_Chr5g0418821 32.787 244 114 8 12 218 5 235 1.26e-21 97.4
MsaG011559 MtrunA17_Chr4g0043071 31.047 277 162 8 1 258 1 267 4.83e-15 77.4
MsaG011559 MtrunA17_Chr4g0012791 25.572 481 251 21 4 460 6 403 3.46e-14 74.7
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsaG011559 AT1G26610.1 38.767 227 111 10 1 218 1 208 3.48e-27 114
MsaG011559 AT1G26590.4 29.596 223 107 8 1 218 1 178 3.85e-13 71.2
MsaG011559 AT1G26590.3 29.596 223 107 8 1 218 1 178 3.85e-13 71.2
MsaG011559 AT1G26590.1 29.596 223 107 8 1 218 1 178 3.85e-13 71.2
MsaG011559 AT1G26590.2 29.148 223 108 8 1 218 19 196 5.31e-13 70.9

Find 60 sgRNAs with CRISPR-Local

Find sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
TCTTCTTCTGTTGTGAATTT+TGG 0.109966 3:-6049888 MsaT011559.1:CDS
AAACCAAAGAAGTTGGATTT+TGG 0.178546 3:-6049612 MsaT011559.1:CDS
CCTTGTTCTTAACTTTCTTT+TGG 0.193235 3:+6049929 None:intergenic
TTAGAAACTAAATGAGTTAA+TGG 0.244636 3:+6049690 None:intergenic
TTGCCAAAATCCAACTTCTT+TGG 0.270716 3:+6049609 None:intergenic
TTGGATCTTCTCTTTCTCTT+TGG 0.274333 3:+6049948 None:intergenic
AATGATCAAAGCAGTGAAAA+TGG 0.281007 3:-6049231 MsaT011559.1:CDS
TTTGCTTCTGGTAGATCATT+AGG 0.291069 3:-6050314 MsaT011559.1:CDS
AAAAGATGAGAAGAAGAAAA+TGG 0.300526 3:-6049463 MsaT011559.1:CDS
TGTTGTTGATTCTGAAACTA+AGG 0.321396 3:-6049403 MsaT011559.1:CDS
TAATAATGATGATGATTCTT+TGG 0.335313 3:-6049724 MsaT011559.1:CDS
TTTCAATCTTATCAAGCTCT+TGG 0.357401 3:-6049303 MsaT011559.1:CDS
TGATGATGATTCTTTGGAAT+TGG 0.360523 3:-6049718 MsaT011559.1:CDS
CATTTAGTTTCTAAGATTGA+TGG 0.365876 3:-6049681 MsaT011559.1:CDS
AAATGGAAACAGTGCTGAAT+TGG 0.369267 3:-6049214 MsaT011559.1:CDS
TGATTCTGATTTAGCATTTG+AGG 0.378036 3:-6049430 MsaT011559.1:CDS
AGAGTTTCTGTTGTTGAGAA+TGG 0.378659 3:-6049486 MsaT011559.1:CDS
TTACATCAGAAGGTGAATTC+AGG 0.392222 3:-6049380 MsaT011559.1:CDS
CAATCTATGAAAGCTTTGTT+TGG 0.400642 3:-6050059 MsaT011559.1:CDS
TGTGTAAAGAATGTGGTAAA+GGG 0.417853 3:-6050085 MsaT011559.1:CDS
AAACAGTGCTGAATTGGAAT+TGG 0.422103 3:-6049208 MsaT011559.1:CDS
TTCTGATAATAATGATGAAA+AGG 0.437329 3:-6049835 MsaT011559.1:CDS
TTGTGTAAAGAATGTGGTAA+AGG 0.465384 3:-6050086 MsaT011559.1:CDS
TTATCCAAAACAACATCAAA+AGG 0.478081 3:+6050110 None:intergenic
TCTTGAAGCAGAAAACCCTT+TGG 0.484015 3:+6049254 None:intergenic
TACAAACCATGGTGGTTAGT+TGG 0.485401 3:-6049042 MsaT011559.1:CDS
CAATCTTATCAAGCTCTTGG+AGG 0.486390 3:-6049300 MsaT011559.1:CDS
GTTCAGATGTTAAGTCCAAA+GGG 0.490833 3:-6049578 MsaT011559.1:CDS
GTGAAAGAGTTGCTGAAATG+AGG 0.492259 3:-6049137 MsaT011559.1:CDS
AGAAGAATGAAGAAGAAAGA+AGG 0.493856 3:-6050209 MsaT011559.1:CDS
GACATAGAGCTAGTCATAAG+AGG 0.494451 3:-6049278 MsaT011559.1:CDS
TCATCATCAATACTTGCAGC+AGG 0.511776 3:+6049087 None:intergenic
TGTTCAGATGTTAAGTCCAA+AGG 0.512057 3:-6049579 MsaT011559.1:CDS
ATTTAGTTTCTAAGATTGAT+GGG 0.512601 3:-6049680 MsaT011559.1:CDS
TGAAAGAGTTGCTGAAATGA+GGG 0.515667 3:-6049136 MsaT011559.1:CDS
AGTATTGATGATGAAAGAAA+TGG 0.523984 3:-6049078 MsaT011559.1:CDS
GCTAGTCATAAGAGGACCAA+AGG 0.524798 3:-6049270 MsaT011559.1:CDS
AGAGATGTAAGACCTTGGTT+TGG 0.525051 3:-6049774 MsaT011559.1:CDS
CTAGTCATAAGAGGACCAAA+GGG 0.538026 3:-6049269 MsaT011559.1:CDS
GAGAGTGAAGGAAATGATGA+TGG 0.545086 3:-6049531 MsaT011559.1:CDS
TGTTAATGCTGAGGGAAGAA+TGG 0.545717 3:-6049166 MsaT011559.1:CDS
ATCAAGCAAGAGGCAATGAT+AGG 0.560531 3:-6049012 MsaT011559.1:CDS
AAGAGAAAATATCAGAGAAG+AGG 0.568844 3:-6049357 MsaT011559.1:CDS
GATAAATTGTGTAAAGAATG+TGG 0.571592 3:-6050092 MsaT011559.1:CDS
GAAACTAAGGTTACATCAGA+AGG 0.573783 3:-6049390 MsaT011559.1:CDS
TGATGAAAAGGAACAAGAAG+AGG 0.575044 3:-6049823 MsaT011559.1:CDS
GCTTCTGGTAGATCATTAGG+TGG 0.586857 3:-6050311 MsaT011559.1:CDS
GATTATGATCATGATGATGA+TGG 0.591943 3:-6050257 MsaT011559.1:CDS
TTAGTAGAGATGTAAGACCT+TGG 0.592699 3:-6049779 MsaT011559.1:CDS
GAGAGAATCCAAAGAAAACA+TGG 0.594959 3:-6050175 MsaT011559.1:CDS
TGGAAGCAGTATCAAGCAAG+AGG 0.613537 3:-6049022 MsaT011559.1:CDS
ATTGGAATTGGAAGTAGATG+TGG 0.620151 3:-6049196 MsaT011559.1:CDS
GATCATTAGGTGGTCACATG+AGG 0.626071 3:-6050301 MsaT011559.1:CDS
ATGCTGAGATTTACAAACCA+TGG 0.628225 3:-6049053 MsaT011559.1:CDS
CCAAAAGAAAGTTAAGAACA+AGG 0.628452 3:-6049929 MsaT011559.1:CDS
GGAGATGAATGTTAATGCTG+AGG 0.669522 3:-6049175 MsaT011559.1:CDS
CTGCTTCCAACTAACCACCA+TGG 0.679286 3:+6049036 None:intergenic
GAGATGAATGTTAATGCTGA+GGG 0.683119 3:-6049174 MsaT011559.1:CDS
CTGAGATTTACAAACCATGG+TGG 0.688746 3:-6049050 MsaT011559.1:CDS
ATAGAATTGATACCAAACCA+AGG 0.704170 3:+6049762 None:intergenic

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
Chromosome Type Strat End Strand Name
Chr3 gene 6048996 6050393 6048996 ID=MsaG011559
Chr3 mRNA 6048996 6050393 6048996 ID=MsaT011559.1;Parent=MsaG011559
Chr3 exon 6048996 6050393 6048996 ID=MsaT011559.1.exon1;Parent=MsaT011559.1
Chr3 CDS 6048996 6050393 6048996 ID=cds.MsaT011559.1;Parent=MsaT011559.1
Gene Sequence

>MsaT011559.1

ATGGAAGAAGATCAAGAAATGATTAAACAACATGTGTGCAAATTCTGCAGAAAGAGTTTTGCTTCTGGTAGATCATTAGGTGGTCACATGAGGTCTCATGATCATGATCATGATGATTATGATCATGATGATGATGGTGATGAGTTTGTTGTTGCTCTAAGAAGAAGAATGAAGAAGAAAGAAGGTTATGTTCTTAGAGAGAATCCAAAGAAAACATGGAGAGTACTCACTGATTCAACTAATGAACAAGAGATTCAAGATCCTTTTGATGTTGTTTTGGATAAATTGTGTAAAGAATGTGGTAAAGGGTTTCAATCTATGAAAGCTTTGTTTGGTCACATGAAGTGTCATAAGAAGAATAAGAGTTTTGAATTGGATGAAGAAGAAGAAGAAGAAGATGATGATTCTAATGCAACTGTTCTTCCAAAGAGAAAGAGAAGATCCAAAAGAAAGTTAAGAACAAGGTACAATAAGAGTAATACTTCTTCTTCTGTTGTGAATTTTGGTGATAATTCTTTAGATTCTATTGCTGAATCTTCTGATAATAATGATGAAAAGGAACAAGAAGAGGTTGCTATGAGTTTGATCATGCTTAGTAGAGATGTAAGACCTTGGTTTGGTATCAATTCTATTGCTGAATTTTCTGATAATAATGATGATGATTCTTTGGAATTGGAAGCGCCATTAACTCATTTAGTTTCTAAGATTGATGGGAAAAAGTTTATTACTAATAGTTCTGAAATTGTGAAAATGAACAAAAAACCAAAGAAGTTGGATTTTGGCAATGTTGTTTGTTCAGATGTTAAGTCCAAAGGGAAAAGTTTAGAAGTTTTTGATAATGAGAGTGAAGGAAATGATGATGGATTGAAGATGAAGAAAGCTACTAGAGTTTCTGTTGTTGAGAATGGAAAAGATGAGAAGAAGAAAATGGAGATTGAGCTTGATTCTGATTTAGCATTTGAGGTCAATGTTGTTGATTCTGAAACTAAGGTTACATCAGAAGGTGAATTCAGGAAGAGAAAATATCAGAGAAGAGGAAAATTTGAATGTGCTACTTGCAACAAAAAATTTCAATCTTATCAAGCTCTTGGAGGACATAGAGCTAGTCATAAGAGGACCAAAGGGTTTTCTGCTTCAAGAAATGATCAAAGCAGTGAAAATGGAAACAGTGCTGAATTGGAATTGGAAGTAGATGTGGAGATGAATGTTAATGCTGAGGGAAGAATGGTAGAAAGTGAAAGAGTTGCTGAAATGAGGGATTATCTTGATCTTGATCTTAATCTTCCTGCTGCAAGTATTGATGATGAAAGAAATGGTCATGCTGAGATTTACAAACCATGGTGGTTAGTTGGAAGCAGTATCAAGCAAGAGGCAATGATAGGTCTACTATCAAACTAG

Protein sequence

>MsaT011559.1

MEEDQEMIKQHVCKFCRKSFASGRSLGGHMRSHDHDHDDYDHDDDGDEFVVALRRRMKKKEGYVLRENPKKTWRVLTDSTNEQEIQDPFDVVLDKLCKECGKGFQSMKALFGHMKCHKKNKSFELDEEEEEEDDDSNATVLPKRKRRSKRKLRTRYNKSNTSSSVVNFGDNSLDSIAESSDNNDEKEQEEVAMSLIMLSRDVRPWFGINSIAEFSDNNDDDSLELEAPLTHLVSKIDGKKFITNSSEIVKMNKKPKKLDFGNVVCSDVKSKGKSLEVFDNESEGNDDGLKMKKATRVSVVENGKDEKKKMEIELDSDLAFEVNVVDSETKVTSEGEFRKRKYQRRGKFECATCNKKFQSYQALGGHRASHKRTKGFSASRNDQSSENGNSAELELEVDVEMNVNAEGRMVESERVAEMRDYLDLDLNLPAASIDDERNGHAEIYKPWWLVGSSIKQEAMIGLLSN*