AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa ssp. caerulea / MsaG016676

Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsaG016676 MtrunA17_Chr3g0131591 99.490 392 2 0 1 392 1 392 0.0 808
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsaG016676 AT5G61850.1 65.594 404 115 7 1 386 1 398 5.47e-160 456
MsaG016676 AT5G61850.2 64.951 408 115 8 1 386 1 402 1.83e-157 450

Find 119 sgRNAs with CRISPR-Local

Find sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
TGAGCTGAGAAGAGGGTTTA+AGG 0.220415 3:+100574311 MsaT016676.1:CDS
ATGTCGTGAGTTCTTGATTC+AGG 0.260029 3:+100573550 MsaT016676.1:CDS
GGTAACCTTGCTGGGTAATA+AGG 0.267462 3:-100572585 None:intergenic
GAGGCGGTGGGAAGCGGAGG+AGG 0.273663 3:+100573284 MsaT016676.1:CDS
AGTTCTCTTGGTAACCTTGC+TGG 0.317522 3:-100572594 None:intergenic
CACATCCTCGTCTTTCAATA+TGG 0.331865 3:+100574433 MsaT016676.1:CDS
AGGTGACAAATCAGGTATTT+AGG 0.336960 3:+100574190 MsaT016676.1:intron
CCATTCATTGTGACAGAGCC+TGG 0.376080 3:+100573470 MsaT016676.1:CDS
ACGGCATCAAAGCTGCCATT+AGG 0.383226 3:+100572793 MsaT016676.1:CDS
GAGAAGGAGGCGGTGGGAAG+CGG 0.385452 3:+100573278 MsaT016676.1:CDS
GACTGCGTAGTCGAGAAGTT+GGG 0.398890 3:-100572541 None:intergenic
CGGCATCAAAGCTGCCATTA+GGG 0.401490 3:+100572794 MsaT016676.1:CDS
GAAGCGGAGGAGGGAGTACT+TGG 0.416484 3:+100573294 MsaT016676.1:CDS
AAACGCCGGGGTCTTCTCTC+TGG 0.419881 3:+100572849 MsaT016676.1:CDS
CCAGGCTCTGTCACAATGAA+TGG 0.421125 3:-100573470 None:intergenic
AAGGAGGCGGTGGGAAGCGG+AGG 0.424426 3:+100573281 MsaT016676.1:CDS
GCGTCTCCGTTCAGCCCTAA+TGG 0.426738 3:-100572808 None:intergenic
TCCAACCCTCCAAGTTCTCT+TGG 0.430987 3:-100572606 None:intergenic
TATTCTTAATTAAGGTTTGT+CGG 0.438516 3:+100573235 MsaT016676.1:intron
TTGCCACGTGCAACTTCCCC+AGG 0.439306 3:-100573488 None:intergenic
GATTGAAGTCTAACTTAGAA+AGG 0.448211 3:-100574546 None:intergenic
ATGGTATAGTATACCTTGGT+AGG 0.452240 3:-100573608 None:intergenic
TTAAGGTTTGTCGGAGGAGC+CGG 0.457376 3:+100573244 MsaT016676.1:intron
GCAAGGTTACCAAGAGAACT+TGG 0.476055 3:+100572597 MsaT016676.1:CDS
AAGGAGAAGGATGAAGATGA+AGG 0.477090 3:+100573361 MsaT016676.1:CDS
AGAAGAGGGTTTAAGGAAAG+AGG 0.480856 3:+100574318 MsaT016676.1:CDS
TGACTGCGTAGTCGAGAAGT+TGG 0.482736 3:-100572542 None:intergenic
GCTTCAAGCTCCGTCTCTGT+TGG 0.485056 3:+100574510 MsaT016676.1:CDS
CAATAGCTGCACGTCAAGGA+TGG 0.486959 3:+100574388 MsaT016676.1:CDS
GAAAGAGGCAGCAAATAAGA+AGG 0.487031 3:+100573342 MsaT016676.1:CDS
ACAGCGAGAGAAGGAGGCGG+TGG 0.487501 3:+100573271 MsaT016676.1:CDS
TGCGTGGGTCCCACTTGAAT+AGG 0.494961 3:-100572488 None:intergenic
TCCTTCTCTCGCTGTACCAC+CGG 0.501299 3:-100573263 None:intergenic
TAAGGTGACGGAGCAGTTGA+AGG 0.502859 3:-100572567 None:intergenic
AGGAGAAGGATGAAGATGAA+GGG 0.505804 3:+100573362 MsaT016676.1:CDS
GAGAGCGTCAAGAGCGTTGG+TGG 0.506027 3:-100572877 None:intergenic
TTGAGTGTAGGTGACAAATC+AGG 0.506470 3:+100574182 MsaT016676.1:intron
AGGCTGGCGGTGAATGCGTC+GGG 0.507213 3:-100572468 None:intergenic
GTTCTCTTGGTAACCTTGCT+GGG 0.507232 3:-100572593 None:intergenic
TGAAGAGGAAATTAAACGCC+GGG 0.509415 3:+100572836 MsaT016676.1:CDS
TTTCGTTGGGATCTTCTCGT+TGG 0.511591 3:+100572762 MsaT016676.1:CDS
AGTATCTGATTCCATAAGCT+TGG 0.513074 3:-100572638 None:intergenic
ATTGCATTGTTTAGATGAAG+AGG 0.515227 3:+100574281 MsaT016676.1:CDS
GAATGAAGAAGGAGATGAGG+AGG 0.516159 3:+100573403 MsaT016676.1:CDS
GTTTAATTTCCTCTTCATCA+AGG 0.516212 3:-100572830 None:intergenic
CTCTCCGCGTTCCTTAGCAA+TGG 0.516636 3:-100573579 None:intergenic
TGGGTCCCACTTGAATAGGC+TGG 0.516787 3:-100572484 None:intergenic
GGAGAAGGATGAAGATGAAG+GGG 0.519390 3:+100573363 MsaT016676.1:CDS
ACCAAGAGAACTTGGAGGGT+TGG 0.520875 3:+100572605 MsaT016676.1:CDS
AGGCGGTGGGAAGCGGAGGA+GGG 0.524644 3:+100573285 MsaT016676.1:CDS
TTGGGAGGTAGCCGTGGTAG+AGG 0.525371 3:+100573313 MsaT016676.1:CDS
CATTCATTGTGACAGAGCCT+GGG 0.529014 3:+100573471 MsaT016676.1:CDS
CTTCTCGTTGGAGAACGTTA+CGG 0.539245 3:+100572774 MsaT016676.1:CDS
ATGAAGGGGACTGGTGATCA+TGG 0.540345 3:+100573377 MsaT016676.1:CDS
TGAGAATGAAGAAGGAGATG+AGG 0.540691 3:+100573400 MsaT016676.1:CDS
AGGATGAAGATGAAGGGGAC+TGG 0.542061 3:+100573368 MsaT016676.1:CDS
AAGAGAACTTGGAGGGTTGG+AGG 0.545242 3:+100572608 MsaT016676.1:CDS
AGAGAGAGCGTCAAGAGCGT+TGG 0.546844 3:-100572880 None:intergenic
GCCGGTGGTACAGCGAGAGA+AGG 0.548302 3:+100573262 MsaT016676.1:CDS
GGACGGAGAGGTGGAGCTGT+TGG 0.549389 3:-100572519 None:intergenic
GAGGAGAGAACGTTGGTGCA+TGG 0.550139 3:+100574337 MsaT016676.1:CDS
AGAAGTTGGGGACGGAGAGG+TGG 0.556007 3:-100572528 None:intergenic
AGGTGGAGCTGTTGGTAGGA+CGG 0.556396 3:-100572511 None:intergenic
ACGGAGACGCCTTGATGAAG+AGG 0.562424 3:+100572821 MsaT016676.1:CDS
GAAGTCTAACTTAGAAAGGA+AGG 0.570913 3:-100574542 None:intergenic
GCTGTTGGTAGGACGGTGCG+TGG 0.571008 3:-100572504 None:intergenic
TAGGCTGGCGGTGAATGCGT+CGG 0.576957 3:-100572469 None:intergenic
CGTGCAGCTATTGCTACAAG+TGG 0.585606 3:-100574378 None:intergenic
GGTGGTACAGCGAGAGAAGG+AGG 0.587891 3:+100573265 MsaT016676.1:CDS
GCGGCGAAGATAGCAGAGCT+TGG 0.589296 3:+100572666 MsaT016676.1:CDS
GAAGAAGATAACATCAGTGG+TGG 0.589570 3:+100573425 MsaT016676.1:CDS
AATAGCTGCACGTCAAGGAT+GGG 0.590285 3:+100574389 MsaT016676.1:CDS
TCAGGTTCAAGCCATTGCTA+AGG 0.593270 3:+100573568 MsaT016676.1:CDS
CTTTCTTCTCTCCTCTACCA+CGG 0.594392 3:-100573324 None:intergenic
ACTGCGTAGTCGAGAAGTTG+GGG 0.596538 3:-100572540 None:intergenic
GTATCAAATGAGCTGAGAAG+AGG 0.605442 3:+100574303 MsaT016676.1:CDS
CAGCGAGAGAAGGAGGCGGT+GGG 0.606592 3:+100573272 MsaT016676.1:CDS
TGGTATAGTATACCTTGGTA+GGG 0.608009 3:-100573607 None:intergenic
TGGTAGAGGAGAGAAGAAAG+AGG 0.608153 3:+100573327 MsaT016676.1:CDS
AGGTTTGTCGGAGGAGCCGG+TGG 0.610012 3:+100573247 MsaT016676.1:intron
TCACCGCCAGCCTATTCAAG+TGG 0.610527 3:+100572478 MsaT016676.1:CDS
GGAGAGGTGGAGCTGTTGGT+AGG 0.611893 3:-100572515 None:intergenic
GTCAGCTTTGTCATGCTGAG+AGG 0.612831 3:+100574475 MsaT016676.1:CDS
GGCAGCAAATAAGAAGGAGA+AGG 0.613195 3:+100573348 MsaT016676.1:CDS
TATCAAATGAGCTGAGAAGA+GGG 0.613772 3:+100574304 MsaT016676.1:CDS
CGGAGGAGGGAGTACTTGGG+AGG 0.615428 3:+100573298 MsaT016676.1:CDS
CTTGACGCTCTCTCTCAAGA+AGG 0.618687 3:+100572888 MsaT016676.1:CDS
CTGTTGGTAGGACGGTGCGT+GGG 0.619175 3:-100572503 None:intergenic
CGTCACCTTATTACCCAGCA+AGG 0.621883 3:+100572580 MsaT016676.1:CDS
GATCATGGTGAGAATGAAGA+AGG 0.622763 3:+100573392 MsaT016676.1:CDS
AAGCGGAGGAGGGAGTACTT+GGG 0.624155 3:+100573295 MsaT016676.1:CDS
GTAGCAATAGCTGCACGTCA+AGG 0.625576 3:+100574384 MsaT016676.1:CDS
CTTGCTGGGTAATAAGGTGA+CGG 0.634053 3:-100572579 None:intergenic
GTCTAACTTAGAAAGGAAGG+TGG 0.634743 3:-100574539 None:intergenic
GTGGGCAGTTCCAACAGAGA+CGG 0.635033 3:-100574520 None:intergenic
GGTTACCAAGAGAACTTGGA+GGG 0.636203 3:+100572601 MsaT016676.1:CDS
ATGAAGAGGAAATTAAACGC+CGG 0.636563 3:+100572835 MsaT016676.1:CDS
AAGCTGCCATTAGGGCTGAA+CGG 0.643172 3:+100572802 MsaT016676.1:CDS
CGGAGAGAAATGCCCTACCA+AGG 0.646303 3:+100573595 MsaT016676.1:CDS
TCGAGAAGTTGGGGACGGAG+AGG 0.648809 3:-100572531 None:intergenic
CACCGCCAGCCTATTCAAGT+GGG 0.649274 3:+100572479 MsaT016676.1:CDS
CAAGCCATTGCTAAGGAACG+CGG 0.651128 3:+100573575 MsaT016676.1:CDS
GAGTACTTGGGAGGTAGCCG+TGG 0.651576 3:+100573307 MsaT016676.1:CDS
TCTAACTTAGAAAGGAAGGT+GGG 0.652391 3:-100574538 None:intergenic
GAGCACGTTGGTGGACATGA+AGG 0.653688 3:+100572698 MsaT016676.1:CDS
AAGAAGATAACATCAGTGGT+GGG 0.654876 3:+100573426 MsaT016676.1:CDS
ATTCATTGTGACAGAGCCTG+GGG 0.659933 3:+100573472 MsaT016676.1:CDS
GAGCCTGGGGAAGTTGCACG+TGG 0.664392 3:+100573485 MsaT016676.1:CDS
AGGTTACCAAGAGAACTTGG+AGG 0.664565 3:+100572600 MsaT016676.1:CDS
TCTTAATTAAGGTTTGTCGG+AGG 0.666720 3:+100573238 MsaT016676.1:intron
AAGGAAAGAGGAGAGAACGT+TGG 0.674755 3:+100574330 MsaT016676.1:CDS
GTCCCACTTGAATAGGCTGG+CGG 0.674932 3:-100572481 None:intergenic
CGTAGTCGAGAAGTTGGGGA+CGG 0.679261 3:-100572536 None:intergenic
GAGGAAGAAGATAACATCAG+TGG 0.681977 3:+100573422 MsaT016676.1:CDS
GGTACAGCGAGAGAAGGAGG+CGG 0.707868 3:+100573268 MsaT016676.1:CDS
ACGTACCATATTGAAAGACG+AGG 0.718589 3:-100574438 None:intergenic
GAAGAGGAAATTAAACGCCG+GGG 0.750879 3:+100572837 MsaT016676.1:CDS
TATCACCAGAGAGAAGACCC+CGG 0.770792 3:-100572854 None:intergenic
TGGAATCAGATACTACACTG+CGG 0.816299 3:+100572647 MsaT016676.1:CDS

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
Chromosome Type Strat End Strand Name
Chr3 gene 100572462 100574554 100572462 ID=MsaG016676
Chr3 mRNA 100572462 100574554 100572462 ID=MsaT016676.1;Parent=MsaG016676
Chr3 exon 100572462 100572909 100572462 ID=MsaT016676.1.exon1;Parent=MsaT016676.1
Chr3 CDS 100572462 100572909 100572462 ID=cds.MsaT016676.1;Parent=MsaT016676.1
Chr3 exon 100573249 100573616 100573249 ID=MsaT016676.1.exon2;Parent=MsaT016676.1
Chr3 CDS 100573249 100573616 100573249 ID=cds.MsaT016676.1;Parent=MsaT016676.1
Chr3 exon 100574192 100574554 100574192 ID=MsaT016676.1.exon3;Parent=MsaT016676.1
Chr3 CDS 100574192 100574554 100574192 ID=cds.MsaT016676.1;Parent=MsaT016676.1
Gene Sequence

>MsaT016676.1

ATGGATCCCGACGCATTCACCGCCAGCCTATTCAAGTGGGACCCACGCACCGTCCTACCAACAGCTCCACCTCTCCGTCCCCAACTTCTCGACTACGCAGTCACTCCTTCAACTGCTCCGTCACCTTATTACCCAGCAAGGTTACCAAGAGAACTTGGAGGGTTGGAGGAACTTTTCCAAGCTTATGGAATCAGATACTACACTGCGGCGAAGATAGCAGAGCTTGGTTTTACAGTGAGCACGTTGGTGGACATGAAGGATGATGAGCTTGATGACATGATGAACAGCCTCTCGCAGATTTTTCGTTGGGATCTTCTCGTTGGAGAACGTTACGGCATCAAAGCTGCCATTAGGGCTGAACGGAGACGCCTTGATGAAGAGGAAATTAAACGCCGGGGTCTTCTCTCTGGTGATACCACCAACGCTCTTGACGCTCTCTCTCAAGAAGGTTTGTCGGAGGAGCCGGTGGTACAGCGAGAGAAGGAGGCGGTGGGAAGCGGAGGAGGGAGTACTTGGGAGGTAGCCGTGGTAGAGGAGAGAAGAAAGAGGCAGCAAATAAGAAGGAGAAGGATGAAGATGAAGGGGACTGGTGATCATGGTGAGAATGAAGAAGGAGATGAGGAGGAAGAAGATAACATCAGTGGTGGGTGTGAGAGACAAAGAGAACATCCATTCATTGTGACAGAGCCTGGGGAAGTTGCACGTGGCAAAAAGAACGGTCTGGATTATCTGTTTCATCTCTATGAACAATGTCGTGAGTTCTTGATTCAGGTTCAAGCCATTGCTAAGGAACGCGGAGAGAAATGCCCTACCAAGGTGACAAATCAGGTATTTAGGTATGCAAAAAAAGCTGGAGCAAGCTACATAAACAAGCCAAAAATGAGACACTACGTGCACTGTTATGCATTGCATTGTTTAGATGAAGAGGTATCAAATGAGCTGAGAAGAGGGTTTAAGGAAAGAGGAGAGAACGTTGGTGCATGGAGACAAGCTTGTTACAAGCCACTTGTAGCAATAGCTGCACGTCAAGGATGGGATATTGATGCAATATTCAACGCACATCCTCGTCTTTCAATATGGTACGTGCCAACAAAACTTCGTCAGCTTTGTCATGCTGAGAGGAACAGTGCTGCTGCTTCAAGCTCCGTCTCTGTTGGAACTGCCCACCTTCCTTTCTAA
Protein sequence

>MsaT016676.1

MDPDAFTASLFKWDPRTVLPTAPPLRPQLLDYAVTPSTAPSPYYPARLPRELGGLEELFQAYGIRYYTAAKIAELGFTVSTLVDMKDDELDDMMNSLSQIFRWDLLVGERYGIKAAIRAERRRLDEEEIKRRGLLSGDTTNALDALSQEGLSEEPVVQREKEAVGSGGGSTWEVAVVEERRKRQQIRRRRMKMKGTGDHGENEEGDEEEEDNISGGCERQREHPFIVTEPGEVARGKKNGLDYLFHLYEQCREFLIQVQAIAKERGEKCPTKVTNQVFRYAKKAGASYINKPKMRHYVHCYALHCLDEEVSNELRRGFKERGENVGAWRQACYKPLVAIAARQGWDIDAIFNAHPRLSIWYVPTKLRQLCHAERNSAAASSSVSVGTAHLPF*