AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa ssp. caerulea / MsaG011711

Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsaG011711 MtrunA17_Chr3g0086331 90.928 474 31 5 1 468 27 494 0.0 766
MsaG011711 MtrunA17_Chr4g0061301 41.778 450 179 20 1 409 1 408 1.21e-76 248
MsaG011711 MtrunA17_Chr4g0061301 34.783 161 62 6 315 464 388 516 9.80e-16 79.7
MsaG011711 MtrunA17_Chr5g0418821 33.607 244 115 7 12 221 5 235 2.19e-24 105
MsaG011711 MtrunA17_Chr4g0012791 25.417 480 256 18 4 463 6 403 5.77e-18 86.3
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsaG011711 AT1G26610.1 40.000 230 107 11 1 221 1 208 3.51e-30 122
MsaG011711 AT1G26590.4 29.204 226 107 7 1 221 1 178 2.29e-15 77.8
MsaG011711 AT1G26590.3 29.204 226 107 7 1 221 1 178 2.29e-15 77.8
MsaG011711 AT1G26590.1 29.204 226 107 7 1 221 1 178 2.29e-15 77.8
MsaG011711 AT1G26590.2 29.204 226 107 7 1 221 19 196 2.83e-15 77.8

Find 61 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:+10374928 MsaT011711.1:CDS
AAACCAAAGAAGTTGGATTT+TGG 0.178546 3:+10375207 MsaT011711.1:CDS
CCTTGTTCTTAACTTTCTTT+TGG 0.193235 3:-10374887 None:intergenic
TTGCCAAAATCCAACTTCTT+TGG 0.270716 3:-10375210 None:intergenic
AATGATCAAAGCAGTGAAAA+TGG 0.281007 3:+10375585 MsaT011711.1:CDS
TTTCCTTCTGGTAGATCATT+AGG 0.296213 3:+10374493 MsaT011711.1:CDS
TAACGATGATGATGATTCTT+TGG 0.297461 3:+10375095 MsaT011711.1:CDS
TGTTGTTGATTCTGAAACTA+AGG 0.321396 3:+10375413 MsaT011711.1:CDS
TGATGATGATTCTTTGGAAT+TGG 0.365655 3:+10375101 MsaT011711.1:CDS
AAATGGAAACAGTGCTGAAT+TGG 0.369267 3:+10375602 MsaT011711.1:CDS
TGATTCTGATTTAGCATTTG+AGG 0.378036 3:+10375386 MsaT011711.1:CDS
TTAGAAACTAAATGAGTTAA+CGG 0.378612 3:-10375129 None:intergenic
ATGTCCTCCAAGAGCTTGAT+AGG 0.380591 3:-10375520 None:intergenic
AGAGTTTCTGTTGTGGAGAA+TGG 0.387316 3:+10375330 MsaT011711.1:CDS
TTACATCAGAAGGTGAATTC+AGG 0.392222 3:+10375436 MsaT011711.1:CDS
CAATCTATGAAAGCTTTGTT+TGG 0.400642 3:+10374760 MsaT011711.1:CDS
TTTCAATCCTATCAAGCTCT+TGG 0.409327 3:+10375513 MsaT011711.1:CDS
TGTGTAAAGAATGTGGTAAA+GGG 0.417853 3:+10374734 MsaT011711.1:CDS
AAACAGTGCTGAATTGGAAT+TGG 0.422103 3:+10375608 MsaT011711.1:CDS
ATGAAGAAGAAAGAAGGTTA+TGG 0.434835 3:+10374616 MsaT011711.1:CDS
CATTTAGTTTCTAAGATTGA+AGG 0.437125 3:+10375138 MsaT011711.1:CDS
TTCTGATAATAATGATGAAA+AGG 0.437329 3:+10374981 MsaT011711.1:CDS
AGTAGATGCTGAGGGAAGAA+TGG 0.451227 3:+10375632 MsaT011711.1:CDS
TTGTGTAAAGAATGTGGTAA+AGG 0.465384 3:+10374733 MsaT011711.1:CDS
AGAGATGTTAGACCTTGGTT+TGG 0.476224 3:+10375042 MsaT011711.1:CDS
TTATCCAAAACAACATCAAA+AGG 0.478081 3:-10374709 None:intergenic
TCTTGAAGCAGAAAACCCTT+TGG 0.484015 3:-10375562 None:intergenic
TACAAACCATGGTGGTTAGT+TGG 0.485401 3:+10375774 MsaT011711.1:CDS
GTTCAGATGTTAAGTCCAAA+GGG 0.490833 3:+10375241 MsaT011711.1:CDS
AGAAGAATGAAGAAGAAAGA+AGG 0.493856 3:+10374610 MsaT011711.1:CDS
GACATAGAGCTAGTCATAAG+AGG 0.494451 3:+10375538 MsaT011711.1:CDS
ATGAAGAAGTTGCTGAAATG+AGG 0.494564 3:+10375679 MsaT011711.1:CDS
CAATCCTATCAAGCTCTTGG+AGG 0.503614 3:+10375516 MsaT011711.1:CDS
TGAAGAAGTTGCTGAAATGA+GGG 0.509561 3:+10375680 MsaT011711.1:CDS
TCATCATCAATACTTGCAGC+AGG 0.511776 3:-10375729 None:intergenic
TGTTCAGATGTTAAGTCCAA+AGG 0.512057 3:+10375240 MsaT011711.1:CDS
AGTATTGATGATGAAAGAAA+TGG 0.523984 3:+10375738 MsaT011711.1:CDS
GCTAGTCATAAGAGGACCAA+AGG 0.524798 3:+10375546 MsaT011711.1:CDS
AAGAGAAAATATCAGAAAAG+AGG 0.527607 3:+10375459 MsaT011711.1:CDS
ATTTAGTTTCTAAGATTGAA+GGG 0.534547 3:+10375139 MsaT011711.1:CDS
CTAGTCATAAGAGGACCAAA+GGG 0.538026 3:+10375547 MsaT011711.1:CDS
GAGAGTGAAGGAAATGATGA+TGG 0.545086 3:+10375288 MsaT011711.1:CDS
ATCAAGCAAGAGGCAATGAT+AGG 0.560531 3:+10375804 MsaT011711.1:CDS
CCTTCTGGTAGATCATTAGG+TGG 0.567747 3:+10374496 MsaT011711.1:CDS
GATAAATTGTGTAAAGAATG+TGG 0.571592 3:+10374727 MsaT011711.1:CDS
GAAACTAAGGTTACATCAGA+AGG 0.573783 3:+10375426 MsaT011711.1:CDS
TGATGAAAAGGAACAAGAAG+AGG 0.575044 3:+10374993 MsaT011711.1:CDS
ATTCTGAGATTTACAAACCA+TGG 0.580716 3:+10375763 MsaT011711.1:CDS
GGAATTGGAAGTAGATGCTG+AGG 0.586355 3:+10375623 MsaT011711.1:CDS
GATTATGATCATGATGATGA+TGG 0.591943 3:+10374562 MsaT011711.1:CDS
TTAGTAGAGATGTTAGACCT+TGG 0.592699 3:+10375037 MsaT011711.1:CDS
GAGAGAATCCAAAGAAAACA+TGG 0.594959 3:+10374644 MsaT011711.1:CDS
TGGAAGCAGTATCAAGCAAG+AGG 0.613537 3:+10375794 MsaT011711.1:CDS
GAAAGCTAGAGTTTCTGTTG+TGG 0.623390 3:+10375323 MsaT011711.1:CDS
GATCATTAGGTGGTCACATG+AGG 0.626071 3:+10374506 MsaT011711.1:CDS
CCAAAAGAAAGTTAAGAACA+AGG 0.628452 3:+10374887 MsaT011711.1:CDS
CTGAGATTTACAAACCATGG+TGG 0.652285 3:+10375766 MsaT011711.1:CDS
CCACCTAATGATCTACCAGA+AGG 0.655089 3:-10374496 None:intergenic
GAATTGGAAGTAGATGCTGA+GGG 0.674106 3:+10375624 MsaT011711.1:CDS
CTGCTTCCAACTAACCACCA+TGG 0.679286 3:-10375780 None:intergenic
ATAGAATTGATACCAAACCA+AGG 0.704170 3:-10375054 None:intergenic

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
Chromosome Type Strat End Strand Name
Chr3 gene 10374436 10375842 10374436 ID=MsaG011711
Chr3 mRNA 10374436 10375842 10374436 ID=MsaT011711.1;Parent=MsaG011711
Chr3 exon 10374436 10375842 10374436 ID=MsaT011711.1.exon1;Parent=MsaT011711.1
Chr3 CDS 10374436 10375842 10374436 ID=cds.MsaT011711.1;Parent=MsaT011711.1
Gene Sequence

>MsaT011711.1

ATGGAAGAAGATCAAGAAATGATTAAACAACATGTGTGCAAATTCTGCAGAAAGAATTTTCCTTCTGGTAGATCATTAGGTGGTCACATGAGGTCTCATGATCATGATCATGATCATGATGATGATGATTATGATCATGATGATGATGGTGATGAGTTTGTTGTTGCTGTAAGAAGAAGAATGAAGAAGAAAGAAGGTTATGGTCTTAGAGAGAATCCAAAGAAAACATGGAGAGTACTTACTGATTCAACTAATGAACAAGAGATTCAAGATCCTTTTGATGTTGTTTTGGATAAATTGTGTAAAGAATGTGGTAAAGGGTTTCAATCTATGAAAGCTTTGTTTGGTCACATGAAGTGTCATAAGAAGAATAAGAGTTTTGAATTGGATGAAGAAGAAGAAGAAGATGATGATTCTAATGCAACTGTTCTTCCAAAAAGAAAGAGAAGATCCAAAAGAAAGTTAAGAACAAGGTACAATAAGAGTAATACTTCTTCTTCTGTTGTGAATTTTGGTGATAATTCTTTAGATTCTATTGCTGAATCTTCTGATAATAATGATGAAAAGGAACAAGAAGAGGTTGCTATGAGTTTGATCATGCTTAGTAGAGATGTTAGACCTTGGTTTGGTATCAATTCTATTGCTGAATATTCTGATAATAACGATGATGATGATTCTTTGGAATTGGAAGCGCCGTTAACTCATTTAGTTTCTAAGATTGAAGGGAAAAAGTTTATTACTAATAGTTCTGAAATTGTGAAAATGAACAAAAAACCAAAGAAGTTGGATTTTGGCAATGTTGTTTGTTCAGATGTTAAGTCCAAAGGGAAAAGTTTAGAAGTTTTTGATAATGAGAGTGAAGGAAATGATGATGGATTGAAGATGAAGAAAGCTAGAGTTTCTGTTGTGGAGAATGGAAAAAATGAGAAGAAGAAAATGGAGATTGAGCTTGATTCTGATTTAGCATTTGAGGTCAATGTTGTTGATTCTGAAACTAAGGTTACATCAGAAGGTGAATTCAGGAAGAGAAAATATCAGAAAAGAGGAAAATTTGAATGTGCTACTTGCAACAAAAAGTTTCAATCCTATCAAGCTCTTGGAGGACATAGAGCTAGTCATAAGAGGACCAAAGGGTTTTCTGCTTCAAGAAATGATCAAAGCAGTGAAAATGGAAACAGTGCTGAATTGGAATTGGAAGTAGATGCTGAGGGAAGAATGGTAGAAATTGAAAGAGTTGTGCTTAATGAAGAAGTTGCTGAAATGAGGGATTATCTTGATCTTGATCTTAATCTTCCTGCTGCAAGTATTGATGATGAAAGAAATGGTCATTCTGAGATTTACAAACCATGGTGGTTAGTTGGAAGCAGTATCAAGCAAGAGGCAATGATAGGTCTACTATCAAACTAG
Protein sequence

>MsaT011711.1

MEEDQEMIKQHVCKFCRKNFPSGRSLGGHMRSHDHDHDHDDDDYDHDDDGDEFVVAVRRRMKKKEGYGLRENPKKTWRVLTDSTNEQEIQDPFDVVLDKLCKECGKGFQSMKALFGHMKCHKKNKSFELDEEEEEDDDSNATVLPKRKRRSKRKLRTRYNKSNTSSSVVNFGDNSLDSIAESSDNNDEKEQEEVAMSLIMLSRDVRPWFGINSIAEYSDNNDDDDSLELEAPLTHLVSKIEGKKFITNSSEIVKMNKKPKKLDFGNVVCSDVKSKGKSLEVFDNESEGNDDGLKMKKARVSVVENGKNEKKKMEIELDSDLAFEVNVVDSETKVTSEGEFRKRKYQKRGKFECATCNKKFQSYQALGGHRASHKRTKGFSASRNDQSSENGNSAELELEVDAEGRMVEIERVVLNEEVAEMRDYLDLDLNLPAASIDDERNGHSEIYKPWWLVGSSIKQEAMIGLLSN*