AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa ssp. caerulea / MsaG028181


Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsaG028181 MtrunA17_Chr6g0479551 88.550 262 24 1 1 262 1 256 2.59e-171 473
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsaG028181 AT1G18335.1 51.136 264 117 4 3 262 6 261 9.30e-78 236
MsaG028181 AT1G18335.3 51.136 264 117 4 3 262 6 261 1.29e-77 236
MsaG028181 AT1G18335.2 51.136 264 117 4 3 262 6 261 1.29e-77 236

Find 54 sgRNAs with CRISPR-Local

Find sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
CTGTGTATATATTGTTTAAC+AGG 0.288671 5:-58697393 None:intergenic
TGTACATTACCGATTTGTTT+TGG 0.337734 5:+58698633 MsaT028181.1:CDS
AATTTCGAAGCAGCGATAAA+CGG 0.367535 5:-58693817 None:intergenic
ATTTCGAAGCAGCGATAAAC+GGG 0.378315 5:-58693816 None:intergenic
CAAAGCAGCTTATAGCATAA+AGG 0.405600 5:+58693776 MsaT028181.1:CDS
TATCGCTGCTTCGAAATTAA+CGG 0.408605 5:+58693822 MsaT028181.1:CDS
CGTGTCCAGGGGAAAGGATT+GGG 0.426522 5:+58698703 MsaT028181.1:CDS
ATATATACACAGACTTCTTA+AGG 0.426646 5:+58697404 MsaT028181.1:CDS
ACCAAGGGACCACTATCTTC+TGG 0.440378 5:-58698604 None:intergenic
ACAGCTCGAGCCTCGTGTCC+AGG 0.444598 5:+58698690 MsaT028181.1:CDS
ACAAATATATAGCGTGCTTC+AGG 0.453405 5:-58698508 None:intergenic
ACATACCATTGGATAAACTT+TGG 0.455439 5:-58699833 None:intergenic
AAAGGTGAAGCGTATAGAAA+TGG 0.455948 5:+58698480 MsaT028181.1:CDS
CTTAACATGGAAGGGCCATA+TGG 0.467460 5:+58698436 MsaT028181.1:CDS
GCTTTCCCAATCCTTTCCCC+TGG 0.468580 5:-58698708 None:intergenic
CCTCTTCTTCCAAAACAAAT+CGG 0.471830 5:-58698642 None:intergenic
AGGATTGGGAAAGCTTCTAA+TGG 0.474839 5:+58698717 MsaT028181.1:CDS
TGAAGCTAAAACTATATTTG+AGG 0.480948 5:+58699965 MsaT028181.1:CDS
GGCGTTGTTGTGAGTTGCAT+TGG 0.483691 5:-58693607 None:intergenic
CTCTCAGTGTGTTTAAAGTC+AGG 0.484761 5:+58697348 MsaT028181.1:CDS
TCCAGAAGATAGTGGTCCCT+TGG 0.489622 5:+58698603 MsaT028181.1:CDS
CAGCTCGAGCCTCGTGTCCA+GGG 0.491833 5:+58698691 MsaT028181.1:CDS
GAAGATAGTGGTCCCTTGGT+TGG 0.495248 5:+58698607 MsaT028181.1:CDS
TCTTCTGGAAGATTAGTTGA+AGG 0.500443 5:-58698589 None:intergenic
TATTGAGCTTATCGCCCAAA+AGG 0.504926 5:+58698744 MsaT028181.1:CDS
TCTTGCCACTCAGATCCATA+TGG 0.513626 5:-58698451 None:intergenic
TCGTGTCCAGGGGAAAGGAT+TGG 0.525244 5:+58698702 MsaT028181.1:CDS
TGAGTGGCAAGAGGAAGAAA+AGG 0.525897 5:+58698462 MsaT028181.1:CDS
ATCTACAGCTTAACATGGAA+GGG 0.529467 5:+58698428 MsaT028181.1:intron
GAGCCTCGTGTCCAGGGGAA+AGG 0.535185 5:+58698697 MsaT028181.1:CDS
AATCTACAGCTTAACATGGA+AGG 0.544882 5:+58698427 MsaT028181.1:intron
ACCATTGGATAAACTTTGGA+AGG 0.553634 5:-58699829 None:intergenic
TATATATTGTTTAACAGGAG+AGG 0.553807 5:-58697388 None:intergenic
TGTTGTGCTAACTGTTCAAA+AGG 0.560279 5:+58699032 MsaT028181.1:CDS
GACGACAACAGTGTTGATTG+AGG 0.561027 5:+58698561 MsaT028181.1:CDS
ACCTTCCAAAGTTTATCCAA+TGG 0.562113 5:+58699828 MsaT028181.1:CDS
TGTGAGTTGCATTGGTTCCA+CGG 0.567819 5:-58693599 None:intergenic
ACTAATCTTCCAGAAGATAG+TGG 0.569548 5:+58698595 MsaT028181.1:CDS
ACGCTATATATTTGTGCATG+AGG 0.569652 5:+58698516 MsaT028181.1:CDS
TAACCTTCTCTCTGTTACGA+CGG 0.587012 5:-58693628 None:intergenic
TGTAAAACCAGCAATGAACT+CGG 0.592834 5:+58693560 None:intergenic
AATCCTTTCCCCTGGACACG+AGG 0.597062 5:-58698700 None:intergenic
CATTGGTTCCACGGTCACGT+TGG 0.600954 5:-58693590 None:intergenic
AGCTCGAGCCTCGTGTCCAG+GGG 0.623716 5:+58698692 MsaT028181.1:CDS
AGTTCATACACATAAAGTAC+CGG 0.630714 5:-58698667 None:intergenic
GTGTGTTTAAAGTCAGGACA+TGG 0.647300 5:+58697354 MsaT028181.1:CDS
GAGACGCTCCAACGTGACCG+TGG 0.649093 5:+58693582 MsaT028181.1:CDS
ATATGGATCTGAGTGGCAAG+AGG 0.653218 5:+58698453 MsaT028181.1:CDS
TCTAAATCTACAGCTTAACA+TGG 0.653637 5:+58698423 MsaT028181.1:intron
TAATGTACAAATCCAACCAA+GGG 0.659606 5:-58698619 None:intergenic
ACGCCGTCGTAACAGAGAGA+AGG 0.663934 5:+58693625 MsaT028181.1:CDS
GTAATGTACAAATCCAACCA+AGG 0.665929 5:-58698620 None:intergenic
GATAAACGGGAAAAGAAGCG+AGG 0.710792 5:-58693803 None:intergenic
AAGGGCCATATGGATCTGAG+TGG 0.737924 5:+58698446 MsaT028181.1:CDS

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
Chromosome Type Strat End Strand Name
Chr5 gene 58693573 58700182 58693573 ID=MsaG028181
Chr5 mRNA 58693573 58700182 58693573 ID=MsaT028181.1;Parent=MsaG028181
Chr5 exon 58693573 58693662 58693573 ID=MsaT028181.1.exon1;Parent=MsaT028181.1
Chr5 CDS 58693573 58693662 58693573 ID=cds.MsaT028181.1;Parent=MsaT028181.1
Chr5 exon 58693741 58693843 58693741 ID=MsaT028181.1.exon2;Parent=MsaT028181.1
Chr5 CDS 58693741 58693843 58693741 ID=cds.MsaT028181.1;Parent=MsaT028181.1
Chr5 exon 58697346 58697425 58697346 ID=MsaT028181.1.exon3;Parent=MsaT028181.1
Chr5 CDS 58697346 58697425 58697346 ID=cds.MsaT028181.1;Parent=MsaT028181.1
Chr5 exon 58698436 58698765 58698436 ID=MsaT028181.1.exon4;Parent=MsaT028181.1
Chr5 CDS 58698436 58698765 58698436 ID=cds.MsaT028181.1;Parent=MsaT028181.1
Chr5 exon 58699018 58699094 58699018 ID=MsaT028181.1.exon5;Parent=MsaT028181.1
Chr5 CDS 58699018 58699094 58699018 ID=cds.MsaT028181.1;Parent=MsaT028181.1
Chr5 exon 58699807 58699849 58699807 ID=MsaT028181.1.exon6;Parent=MsaT028181.1
Chr5 CDS 58699807 58699849 58699807 ID=cds.MsaT028181.1;Parent=MsaT028181.1
Chr5 exon 58699924 58699986 58699924 ID=MsaT028181.1.exon7;Parent=MsaT028181.1
Chr5 CDS 58699924 58699986 58699924 ID=cds.MsaT028181.1;Parent=MsaT028181.1
Chr5 exon 58700174 58700182 58700174 ID=MsaT028181.1.exon8;Parent=MsaT028181.1
Chr5 CDS 58700174 58700182 58700174 ID=cds.MsaT028181.1;Parent=MsaT028181.1
Gene Sequence

>MsaT028181.1

ATGAACTCGGAGACGCTCCAACGTGACCGTGGAACCAATGCAACTCACAACAACGCCGTCGTAACAGAGAGAAGGTTAACACGCAGCGAACTTCTCGCAAAGAAGAACGCAAATGAACAACTCATCAAAGCAGCTTATAGCATAAAGGATCACCTCGCTTCTTTTCCCGTTTATCGCTGCTTCGAAATTAACGGTCTCTCAGTGTGTTTAAAGTCAGGACATGGCACTAAGCTCTCCTCTCCTGTTAAACAATATATACACAGACTTCTTAAGCTTAACATGGAAGGGCCATATGGATCTGAGTGGCAAGAGGAAGAAAAGGTGAAGCGTATAGAAATGGTTGATCCTGAAGCACGCTATATATTTGTGCATGAGGTTACTAATGCAAATGCTGACGAGACGACAACAGTGTTGATTGAGGAAGATCCTTCAACTAATCTTCCAGAAGATAGTGGTCCCTTGGTTGGATTTGTACATTACCGATTTGTTTTGGAAGAAGAGGTACCGGTACTTTATGTGTATGAACTACAGCTCGAGCCTCGTGTCCAGGGGAAAGGATTGGGAAAGCTTCTAATGGAACTTATTGAGCTTATCGCCCAAAAGAACTGCATGGGTGCTGTTGTGCTAACTGTTCAAAAGGCGAACATATCAGCTATGAATTTTTACACTAGTAAACTAAGATATATCATATCAGTCACGTCACCTTCCAAAGTTTATCCAATGATGGAGAAGAGTTATGAAATTCTTTGCAGAACATTTAATGATGAAGCTAAAACTATATTTGAGCAACTCTAG

Protein sequence

>MsaT028181.1

MNSETLQRDRGTNATHNNAVVTERRLTRSELLAKKNANEQLIKAAYSIKDHLASFPVYRCFEINGLSVCLKSGHGTKLSSPVKQYIHRLLKLNMEGPYGSEWQEEEKVKRIEMVDPEARYIFVHEVTNANADETTTVLIEEDPSTNLPEDSGPLVGFVHYRFVLEEEVPVLYVYELQLEPRVQGKGLGKLLMELIELIAQKNCMGAVVLTVQKANISAMNFYTSKLRYIISVTSPSKVYPMMEKSYEILCRTFNDEAKTIFEQL*