AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa ssp. caerulea / MsaG019441

Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsaG019441 MtrunA17_Chr5g0393501 23.786 206 152 3 23 224 38 242 1.16e-17 79.0
MsaG019441 MtrunA17_Chr4g0044671 24.615 195 146 1 30 224 28 221 1.27e-14 70.1
MsaG019441 MtrunA17_Chr4g0034781 24.103 195 147 1 30 224 22 215 3.14e-14 68.9
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score

Find 53 sgRNAs with CRISPR-Local

Find sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
AATGATCTTTATAAAGTTCT+TGG 0.244817 4:+28832405 MsaT019441.1:CDS
ACAAATGTGATGTACTAATA+AGG 0.256110 4:+28832737 MsaT019441.1:CDS
GAACTTAACTTTGTGTCTAT+TGG 0.280740 4:-28832305 None:intergenic
CAGATGTAATGAAGGTTTCT+AGG 0.299323 4:+28832872 MsaT019441.1:CDS
TGATAACCTGCAGCCATATA+AGG 0.324757 4:-28832547 None:intergenic
AATGACCTTAACTCCTTATA+TGG 0.332349 4:+28832534 MsaT019441.1:CDS
TAAATTCTCTTCCAAGTTTG+TGG 0.333428 4:-28832264 None:intergenic
ATGATCTTTATAAAGTTCTT+GGG 0.339041 4:+28832406 MsaT019441.1:CDS
CTGAGGGATGGATCAACTTA+AGG 0.380199 4:+28832356 MsaT019441.1:CDS
GTCCACGAAATGCAGTGAAT+TGG 0.385092 4:-28832441 None:intergenic
AGGACTAAACATAGGGATAA+TGG 0.397283 4:+28832090 MsaT019441.1:CDS
TAAGCTTAAGTTTAAGTTTG+TGG 0.399998 4:+28832837 MsaT019441.1:CDS
GGTGATTACATTAGAAGCTC+AGG 0.426576 4:+28832673 MsaT019441.1:CDS
CAGACACTGAACATTGACTT+TGG 0.433491 4:+28832652 MsaT019441.1:intron
TTCCAATTCACTGCATTTCG+TGG 0.438395 4:+28832439 MsaT019441.1:CDS
CAAATGTGATGTACTAATAA+GGG 0.442101 4:+28832738 MsaT019441.1:CDS
TGCAGCCATATAAGGAGTTA+AGG 0.444382 4:-28832539 None:intergenic
TATGGCTGCAGGTTATCAAT+TGG 0.445570 4:+28832552 MsaT019441.1:CDS
GAGTTAAGGTCATTTCATAA+TGG 0.446526 4:-28832525 None:intergenic
TACTCTGCTATTAATATGTA+TGG 0.453609 4:+28832697 MsaT019441.1:CDS
GTTGTTATCAATACAATGTC+TGG 0.455307 4:+28832051 None:intergenic
ATTAATATGTATGGACCTAC+AGG 0.484413 4:+28832706 MsaT019441.1:CDS
TGAGGGATGGATCAACTTAA+GGG 0.485967 4:+28832357 MsaT019441.1:CDS
CTGGTGGTGGATCAACTTCA+AGG 0.486585 4:+28832070 MsaT019441.1:CDS
TTAACTCCTTATATGGCTGC+AGG 0.501456 4:+28832541 MsaT019441.1:CDS
TGTAAAGACAATGGATTCCA+TGG 0.503947 4:+28832808 MsaT019441.1:CDS
ATAAAATGCTCAACAAATGA+AGG 0.510176 4:-28832241 None:intergenic
CAACTTCAAGGACTAAACAT+AGG 0.510435 4:+28832082 MsaT019441.1:CDS
CACTTACAAGCAAGGAATTG+AGG 0.514420 4:+28832495 MsaT019441.1:CDS
TGCTTGTAAGTGTGCGATGA+TGG 0.527718 4:-28832484 None:intergenic
TGATCTTTATAAAGTTCTTG+GGG 0.551565 4:+28832407 MsaT019441.1:CDS
ATCCATCCCTCAGTCAGAAG+TGG 0.551673 4:-28832346 None:intergenic
ATATCTCATTTACAGCCGTA+TGG 0.553596 4:+28832208 MsaT019441.1:intron
AAGACAATGGATTCCATGGT+GGG 0.554852 4:+28832812 MsaT019441.1:CDS
AAGTACATCAGATGTAATGA+AGG 0.558515 4:+28832864 MsaT019441.1:CDS
ATCAATACAATGTCTGGTGG+TGG 0.560856 4:+28832057 None:intergenic
ATCCACTTCTGACTGAGGGA+TGG 0.571896 4:+28832344 MsaT019441.1:CDS
AAGGCAACAAAGATTGGCAG+TGG 0.574230 4:+28832772 MsaT019441.1:CDS
AACTTCAAGGACTAAACATA+GGG 0.584439 4:+28832083 MsaT019441.1:CDS
CATTTGTACTCGGTGCCTGT+AGG 0.588159 4:-28832721 None:intergenic
TAGTACATCACATTTGTACT+CGG 0.590498 4:-28832731 None:intergenic
TGTGATGTACTAATAAGGGA+TGG 0.597036 4:+28832742 MsaT019441.1:CDS
TGAACATCCACTTCTGACTG+AGG 0.599795 4:+28832339 MsaT019441.1:CDS
CAACAAAGATTGGCAGTGGG+TGG 0.601376 4:+28832776 MsaT019441.1:CDS
TACTGCTTATATCATCAATG+AGG 0.608119 4:+28832122 MsaT019441.1:CDS
GAAGGTCTGATCTCTCCATA+CGG 0.615737 4:-28832223 None:intergenic
ACTTAAGCTTATCCCCACCA+TGG 0.632346 4:-28832825 None:intergenic
AAAGACAATGGATTCCATGG+TGG 0.635851 4:+28832811 MsaT019441.1:CDS
AGACAATGGATTCCATGGTG+GGG 0.640570 4:+28832813 MsaT019441.1:CDS
TCATCGCACACTTACAAGCA+AGG 0.641070 4:+28832487 MsaT019441.1:CDS
GAACATCCACTTCTGACTGA+GGG 0.646274 4:+28832340 MsaT019441.1:CDS
AGGCAACAAAGATTGGCAGT+GGG 0.670518 4:+28832773 MsaT019441.1:CDS
GTTATCAATACAATGTCTGG+TGG 0.684260 4:+28832054 None:intergenic

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
Chromosome Type Strat End Strand Name
Chr4 gene 28832066 28832900 28832066 ID=MsaG019441
Chr4 mRNA 28832066 28832900 28832066 ID=MsaT019441.1;Parent=MsaG019441
Chr4 exon 28832066 28832143 28832066 ID=MsaT019441.1.exon1;Parent=MsaT019441.1
Chr4 CDS 28832066 28832143 28832066 ID=cds.MsaT019441.1;Parent=MsaT019441.1
Chr4 exon 28832223 28832573 28832223 ID=MsaT019441.1.exon2;Parent=MsaT019441.1
Chr4 CDS 28832223 28832573 28832223 ID=cds.MsaT019441.1;Parent=MsaT019441.1
Chr4 exon 28832655 28832900 28832655 ID=MsaT019441.1.exon3;Parent=MsaT019441.1
Chr4 CDS 28832655 28832900 28832655 ID=cds.MsaT019441.1;Parent=MsaT019441.1
Gene Sequence

>MsaT019441.1

ATGTCTGGTGGTGGATCAACTTCAAGGACTAAACATAGGGATAATGGAGAAATACTTACTGCTTATATCATCAATGAGCCGTATGGAGAGATCAGACCTTCATTTGTTGAGCATTTTATCCACAAACTTGGAAGAGAATTTATATTGATTGATGCAAAATCCAATAGACACAAAGTTAAGTTCAATCAAAACATTGAACATCCACTTCTGACTGAGGGATGGATCAACTTAAGGGAGTTTTATGGTTGGATTGAAGATAAAATGATCTTTATAAAGTTCTTGGGGAATGATTGTTTCCAATTCACTGCATTTCGTGGACATTTGAATGTTAACTCATTGCCATCATCGCACACTTACAAGCAAGGAATTGAGGATCTCAACCATTATGAAATGACCTTAACTCCTTATATGGCTGCAGGTTATCAATTGACACTGAACATTGACTTTGGTGATTACATTAGAAGCTCAGGCTACTCTGCTATTAATATGTATGGACCTACAGGCACCGAGTACAAATGTGATGTACTAATAAGGGATGGAAAAAAGAAGGCAACAAAGATTGGCAGTGGGTGGAACAAATTTTGTAAAGACAATGGATTCCATGGTGGGGATAAGCTTAAGTTTAAGTTTGTGGATATAAGTACATCAGATGTAATGAAGGTTTCTAGGATTTAA
Protein sequence

>MsaT019441.1

MSGGGSTSRTKHRDNGEILTAYIINEPYGEIRPSFVEHFIHKLGREFILIDAKSNRHKVKFNQNIEHPLLTEGWINLREFYGWIEDKMIFIKFLGNDCFQFTAFRGHLNVNSLPSSHTYKQGIEDLNHYEMTLTPYMAAGYQLTLNIDFGDYIRSSGYSAINMYGPTGTEYKCDVLIRDGKKKATKIGSGWNKFCKDNGFHGGDKLKFKFVDISTSDVMKVSRI*