AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa ssp. caerulea / MsaG026104


Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsaG026104 MtrunA17_Chr5g0410141 98.790 496 5 1 1 495 1 496 0.0 981
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsaG026104 AT1G32130.1 64.844 512 153 10 1 495 1 502 0.0 595
MsaG026104 AT1G32130.2 63.867 512 149 11 1 495 1 493 0.0 576
MsaG026104 AT4G19000.1 43.243 444 191 13 58 495 25 413 7.48e-90 281

Find 136 sgRNAs with CRISPR-Local

Find sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
CCAAGGATTTGGTTGATAAA+TGG 0.185509 5:+16850473 MsaT026104.1:CDS
ATCCCTGCAGCTTTAGTTGC+TGG 0.233171 5:-16850958 None:intergenic
TAGTCAAACTTAAAAGTATT+TGG 0.252291 5:-16852415 None:intergenic
AGAAGGAGAAGAGGCTGAAA+GGG 0.278023 5:+16848510 MsaT026104.1:CDS
AAAGGGAAGGAAGGTGGGTC+TGG 0.285737 5:+16848485 MsaT026104.1:CDS
AAATCCAAAGGTGTGGCTTC+TGG 0.295709 5:-16851153 None:intergenic
ATGAAGAAATCAATGTAAAT+AGG 0.314425 5:+16850443 MsaT026104.1:CDS
GGAAAGGGTGGGTCTAAATT+TGG 0.328323 5:+16848545 MsaT026104.1:CDS
GCCCGTGCTCTGATTTCATC+GGG 0.342991 5:-16851204 None:intergenic
GAAGGGAGGAAGCGGAAGAA+AGG 0.345922 5:+16848467 MsaT026104.1:CDS
CAATGAAGGTGCCAGGAATA+TGG 0.348747 5:+16849345 MsaT026104.1:CDS
GCTGTCCGTATGTTGATATT+TGG 0.349835 5:-16850110 None:intergenic
TAGGAGATTAGCCAAGGATT+TGG 0.358266 5:+16850462 MsaT026104.1:CDS
CAAGGATTTGGTTGATAAAT+GGG 0.367845 5:+16850474 MsaT026104.1:CDS
GGAAGGTGGGTCTGGGAAGA+AGG 0.369572 5:+16848493 MsaT026104.1:CDS
AAGAGACGGTGATCTTGATT+TGG 0.370436 5:+16850987 MsaT026104.1:CDS
GACGAATCGTTGTCGTAAAC+CGG 0.375541 5:-16848344 None:intergenic
AAGGGAAGGAAGGTGGGTCT+GGG 0.392644 5:+16848486 MsaT026104.1:CDS
AATGGCGCTGCCACCGGAGC+TGG 0.393163 5:+16848421 MsaT026104.1:CDS
TCATAATGCTCTAGATCTAT+AGG 0.398034 5:-16850247 None:intergenic
ACCGGAGCTGGAAGATGAAT+TGG 0.398311 5:+16848433 MsaT026104.1:CDS
TGGCCTTGATGCATGTTGCC+TGG 0.404163 5:-16851133 None:intergenic
GAGATGTGGGATGCACTTGC+TGG 0.404558 5:+16848626 MsaT026104.1:CDS
AAGAGGACGCTGAGCTTAAT+CGG 0.405962 5:+16849853 MsaT026104.1:CDS
TGCGAAATACTGAGGATGAT+AGG 0.410044 5:+16850808 MsaT026104.1:CDS
GTTATCATCATCCATATTCC+TGG 0.415889 5:-16849356 None:intergenic
AGAGGGGTTGGTGGGAAAAG+TGG 0.424017 5:+16848578 MsaT026104.1:CDS
TGCCCGTGCTCTGATTTCAT+CGG 0.425272 5:-16851205 None:intergenic
AAGGCCAGAAGCCACACCTT+TGG 0.425652 5:+16851149 MsaT026104.1:CDS
AAGGGAGGAAGCGGAAGAAA+GGG 0.426415 5:+16848468 MsaT026104.1:CDS
TTCTTGAGTTTATTGACTGC+AGG 0.426596 5:-16849885 None:intergenic
AGGAAGATGAAGGGAGGAAG+CGG 0.427861 5:+16848459 MsaT026104.1:CDS
TTCTCCTGGCGATGCTCCAC+AGG 0.429208 5:+16849432 MsaT026104.1:CDS
AGGATGATAGGGTTCCTTAC+AGG 0.430195 5:+16850820 MsaT026104.1:CDS
AAGAAGGAGAAGAGGCTGAA+AGG 0.431465 5:+16848509 MsaT026104.1:CDS
GGTCCGGAGAGTCATCTTCC+AGG 0.432990 5:+16851115 MsaT026104.1:CDS
CCATTTATCAACCAAATCCT+TGG 0.433652 5:-16850473 None:intergenic
GGTGGTTCTAAGAGAGGGGT+TGG 0.434042 5:+16848566 MsaT026104.1:CDS
TTCTTAATCAAGCGTTTCCT+CGG 0.434552 5:-16848377 None:intergenic
TGCTAAATTTATTGAAGAGT+TGG 0.438820 5:+16850060 MsaT026104.1:CDS
TTAACCGATGGCCTCCTGTA+AGG 0.442423 5:-16850834 None:intergenic
CAGCTGAAGAGAAGTGGTCT+TGG 0.447062 5:+16850280 MsaT026104.1:CDS
AAGCGGAAGAAAGGGAAGGA+AGG 0.452307 5:+16848476 MsaT026104.1:CDS
TTTATTAGTTGAGAATGTTA+TGG 0.452902 5:+16849809 MsaT026104.1:CDS
GGTAGTAGTAGTGGAAAGGG+TGG 0.455568 5:+16848533 MsaT026104.1:CDS
ATTTACATTGATTTCTTCAT+CGG 0.467117 5:-16850440 None:intergenic
GGAGTGGAACCTGCTTTGTA+TGG 0.468796 5:+16849394 MsaT026104.1:CDS
GAGGGGTTGGTGGGAAAAGT+GGG 0.469594 5:+16848579 MsaT026104.1:CDS
TCCAATTCATCTTCCAGCTC+CGG 0.470206 5:-16848434 None:intergenic
TGAAGACGGTGAACCGTTGA+TGG 0.474457 5:+16848211 MsaT026104.1:CDS
TAAGAAATTGCAGCAGTTGA+GGG 0.478322 5:+16852335 MsaT026104.1:CDS
TACGATGAACCACGTTCTCC+TGG 0.481367 5:+16849418 MsaT026104.1:CDS
TCGAAATCGTCGAGTTGTTG+TGG 0.481542 5:-16848275 None:intergenic
ACTAATAAAGCAATTTCTGC+AGG 0.487697 5:-16849795 None:intergenic
TCGTCGAGTTGTTGTGGCTC+CGG 0.492659 5:-16848269 None:intergenic
AGGCCAGCAACTAAAGCTGC+AGG 0.496201 5:+16850955 MsaT026104.1:intron
CGAGTACTCTTATTAAATAT+AGG 0.497284 5:-16850774 None:intergenic
GAAGGAGAAGAGGCTGAAAG+GGG 0.497568 5:+16848511 MsaT026104.1:CDS
TGAGGAAGATGATGAAATCA+AGG 0.503820 5:+16849728 MsaT026104.1:CDS
GGTTCTAAGAGAGGGGTTGG+TGG 0.507545 5:+16848569 MsaT026104.1:CDS
GTTCTAAGAGAGGGGTTGGT+GGG 0.509279 5:+16848570 MsaT026104.1:CDS
TTGTAATGCAGGCCTAGGTC+CGG 0.510730 5:+16851099 MsaT026104.1:intron
TGGCTTGAGCCACTTCCTGA+TGG 0.511317 5:+16850080 MsaT026104.1:CDS
CGGAAGAAAGGGAAGGAAGG+TGG 0.513410 5:+16848479 MsaT026104.1:CDS
GCGAAATACTGAGGATGATA+GGG 0.519731 5:+16850809 MsaT026104.1:CDS
ACAGTCAATGGCGCTGCCAC+CGG 0.522918 5:+16848415 MsaT026104.1:CDS
TTGATTAAGAAAAGTGATAC+CGG 0.525069 5:+16848389 MsaT026104.1:CDS
TCAACCTGTGGAGCATCGCC+AGG 0.525860 5:-16849436 None:intergenic
GGCAGACTTCCATCAGGAAG+TGG 0.528403 5:-16850089 None:intergenic
CGGATTGTCTTCGTAACCCA+TGG 0.532356 5:-16848091 None:intergenic
AATTGGAGGAGGAAGATGAA+GGG 0.534814 5:+16848450 MsaT026104.1:CDS
CTATATTTAATAAGAGTACT+CGG 0.535250 5:+16850775 MsaT026104.1:CDS
GAATTGGAGGAGGAAGATGA+AGG 0.537209 5:+16848449 MsaT026104.1:CDS
AATTTGGTGGTTCTAAGAGA+GGG 0.537655 5:+16848561 MsaT026104.1:CDS
ATCCGACGGCGAAGGATCAC+CGG 0.537994 5:+16848250 MsaT026104.1:CDS
ATATTTGGCAGACTTCCATC+AGG 0.539886 5:-16850095 None:intergenic
AGGATGACAATGAAGGTGCC+AGG 0.539918 5:+16849338 MsaT026104.1:intron
CACCAACCTTCATACGATGC+TGG 0.541202 5:-16851245 None:intergenic
TTGCCTGGAAGATGACTCTC+CGG 0.543382 5:-16851118 None:intergenic
ATAAGAAATTGCAGCAGTTG+AGG 0.546540 5:+16852334 MsaT026104.1:CDS
GAGGAAGCGGAAGAAAGGGA+AGG 0.547980 5:+16848472 MsaT026104.1:CDS
CTCCGGTGATCCTTCGCCGT+CGG 0.548204 5:-16848252 None:intergenic
GGAGCTGGAAGATGAATTGG+AGG 0.551704 5:+16848436 MsaT026104.1:CDS
TGATACCGGAAAACAGTCAA+TGG 0.558638 5:+16848403 MsaT026104.1:CDS
GGAAGAAAGGGAAGGAAGGT+GGG 0.559866 5:+16848480 MsaT026104.1:CDS
GAAGATGACTCTCCGGACCT+AGG 0.562550 5:-16851111 None:intergenic
AGAGAACAGCTGAAGAGAAG+TGG 0.564504 5:+16850274 MsaT026104.1:CDS
AGGTGAAGTTAATGAGATGT+GGG 0.565360 5:+16848613 MsaT026104.1:CDS
TACTCTTATTAAATATAGGT+CGG 0.568735 5:-16850770 None:intergenic
CTTCCAGGCAACATGCATCA+AGG 0.569051 5:+16851130 MsaT026104.1:CDS
AAGCATCAGCTTACTTTGAG+AGG 0.569628 5:-16849929 None:intergenic
CCCCGATGAAATCAGAGCAC+GGG 0.570961 5:+16851203 MsaT026104.1:CDS
TGGAGGAGGAAGATGAAGGG+AGG 0.576145 5:+16848453 MsaT026104.1:CDS
AAGGAGAAGAGGCTGAAAGG+GGG 0.577876 5:+16848512 MsaT026104.1:CDS
GTCTGCCAAATATCAACATA+CGG 0.578071 5:+16850105 MsaT026104.1:CDS
AATTCATCTTCCAGCTCCGG+TGG 0.578459 5:-16848431 None:intergenic
AAATTTGGTGGTTCTAAGAG+AGG 0.579251 5:+16848560 MsaT026104.1:CDS
GAGAGGACTTCTATAAGAAG+AGG 0.579982 5:-16849912 None:intergenic
ACAAGACCAGCATCGTATGA+AGG 0.580052 5:+16851239 MsaT026104.1:CDS
TTTAGGTATCGTGATGAAGA+CGG 0.580572 5:+16848197 MsaT026104.1:intron
GCTTGAGGTTACAGCAGAAG+AGG 0.589644 5:+16849836 MsaT026104.1:CDS
GAAGAGAAGTGGTCTTGGAA+AGG 0.592321 5:+16850285 MsaT026104.1:CDS
GCTACAAAACTGAGTGTGGA+AGG 0.593775 5:+16852381 MsaT026104.1:CDS
GTCATCAAGGATGACAATGA+AGG 0.596566 5:+16849331 MsaT026104.1:intron
GCTGGAAGATGAATTGGAGG+AGG 0.598340 5:+16848439 MsaT026104.1:CDS
GAATGTTATGGCTGAGCTTG+AGG 0.598789 5:+16849821 MsaT026104.1:CDS
TCAGGCTACAAAACTGAGTG+TGG 0.600746 5:+16852377 MsaT026104.1:CDS
GACGTACAATCCGACGGCGA+AGG 0.604113 5:+16848242 MsaT026104.1:CDS
ATTTGGTGGTTCTAAGAGAG+GGG 0.606119 5:+16848562 MsaT026104.1:CDS
TCATCGTAACCATACAAAGC+AGG 0.606767 5:-16849403 None:intergenic
TGTAAATAGGAGATTAGCCA+AGG 0.607197 5:+16850456 MsaT026104.1:CDS
AAGGTGAAGTTAATGAGATG+TGG 0.610064 5:+16848612 MsaT026104.1:CDS
ACCCCGATGAAATCAGAGCA+CGG 0.612796 5:+16851202 MsaT026104.1:CDS
GGTTCCTTACAGGAGGCCAT+CGG 0.612819 5:+16850830 MsaT026104.1:CDS
TTTCTAGGCTGAGGAAGGTG+AGG 0.613066 5:+16849710 MsaT026104.1:intron
AAGGGTGGGTCTAAATTTGG+TGG 0.617169 5:+16848548 MsaT026104.1:CDS
TCGTGCTCGGTCACAGACAC+CGG 0.620079 5:+16848325 MsaT026104.1:CDS
GATAACTTTATAGATGACAC+TGG 0.622093 5:+16849373 MsaT026104.1:CDS
GAGTGTGGAAGGTCGTGGTA+TGG 0.624754 5:+16852392 MsaT026104.1:CDS
TGCACTTGCTGGAAATTCTG+AGG 0.634543 5:+16848637 MsaT026104.1:CDS
AAACTGAGTGTGGAAGGTCG+TGG 0.635870 5:+16852387 MsaT026104.1:CDS
CTTTATAGATGACACTGGAG+TGG 0.636330 5:+16849378 MsaT026104.1:CDS
GTAGTAGTAGTGGAAAGGGT+GGG 0.636679 5:+16848534 MsaT026104.1:CDS
GGTCTGGGAAGAAGGAGAAG+AGG 0.645533 5:+16848501 MsaT026104.1:CDS
ATGATAGGGTTCCTTACAGG+AGG 0.648469 5:+16850823 MsaT026104.1:CDS
GATCACAAAATCCAAAGGTG+TGG 0.648790 5:-16851160 None:intergenic
ATTCGTCGAAATCAAAGCCG+AGG 0.649525 5:+16848360 MsaT026104.1:CDS
GGCCAGCAACTAAAGCTGCA+GGG 0.650244 5:+16850956 MsaT026104.1:intron
GCAGGGATGCAATCAAGAGA+CGG 0.653217 5:+16850973 MsaT026104.1:CDS
TGAAGACATGCGAAATACTG+AGG 0.655646 5:+16850800 MsaT026104.1:CDS
CCCGTGCTCTGATTTCATCG+GGG 0.659095 5:-16851203 None:intergenic
GGAGCATCGCCAGGAGAACG+TGG 0.660883 5:-16849427 None:intergenic
GGGCGGATCACAAAATCCAA+AGG 0.663103 5:-16851165 None:intergenic
TACGACGACGTACAATCCGA+CGG 0.665565 5:+16848236 MsaT026104.1:CDS
ACGTCGTCGTAATCCATCAA+CGG 0.684522 5:-16848224 None:intergenic
AAAAGTGGGAATGATCGTGA+AGG 0.734592 5:+16848593 MsaT026104.1:CDS

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
Chromosome Type Strat End Strand Name
Chr5 gene 16848093 16852428 16848093 ID=MsaG026104
Chr5 mRNA 16848093 16852428 16848093 ID=MsaT026104.1;Parent=MsaG026104
Chr5 exon 16848093 16848112 16848093 ID=MsaT026104.1.exon1;Parent=MsaT026104.1
Chr5 CDS 16848093 16848112 16848093 ID=cds.MsaT026104.1;Parent=MsaT026104.1
Chr5 exon 16848202 16848658 16848202 ID=MsaT026104.1.exon2;Parent=MsaT026104.1
Chr5 CDS 16848202 16848658 16848202 ID=cds.MsaT026104.1;Parent=MsaT026104.1
Chr5 exon 16849340 16849453 16849340 ID=MsaT026104.1.exon3;Parent=MsaT026104.1
Chr5 CDS 16849340 16849453 16849340 ID=cds.MsaT026104.1;Parent=MsaT026104.1
Chr5 exon 16849717 16849937 16849717 ID=MsaT026104.1.exon4;Parent=MsaT026104.1
Chr5 CDS 16849717 16849937 16849717 ID=cds.MsaT026104.1;Parent=MsaT026104.1
Chr5 exon 16850025 16850154 16850025 ID=MsaT026104.1.exon5;Parent=MsaT026104.1
Chr5 CDS 16850025 16850154 16850025 ID=cds.MsaT026104.1;Parent=MsaT026104.1
Chr5 exon 16850244 16850306 16850244 ID=MsaT026104.1.exon6;Parent=MsaT026104.1
Chr5 CDS 16850244 16850306 16850244 ID=cds.MsaT026104.1;Parent=MsaT026104.1
Chr5 exon 16850418 16850495 16850418 ID=MsaT026104.1.exon7;Parent=MsaT026104.1
Chr5 CDS 16850418 16850495 16850418 ID=cds.MsaT026104.1;Parent=MsaT026104.1
Chr5 exon 16850768 16850859 16850768 ID=MsaT026104.1.exon8;Parent=MsaT026104.1
Chr5 CDS 16850768 16850859 16850768 ID=cds.MsaT026104.1;Parent=MsaT026104.1
Chr5 exon 16850957 16851019 16850957 ID=MsaT026104.1.exon9;Parent=MsaT026104.1
Chr5 CDS 16850957 16851019 16850957 ID=cds.MsaT026104.1;Parent=MsaT026104.1
Chr5 exon 16851110 16851260 16851110 ID=MsaT026104.1.exon10;Parent=MsaT026104.1
Chr5 CDS 16851110 16851260 16851110 ID=cds.MsaT026104.1;Parent=MsaT026104.1
Chr5 exon 16852330 16852428 16852330 ID=MsaT026104.1.exon11;Parent=MsaT026104.1
Chr5 CDS 16852330 16852428 16852330 ID=cds.MsaT026104.1;Parent=MsaT026104.1
Gene Sequence

>MsaT026104.1

ATGGGTTACGAAGACAATCCGTATCGTGATGAAGACGGTGAACCGTTGATGGATTACGACGACGTACAATCCGACGGCGAAGGATCACCGGAGCCACAACAACTCGACGATTTCGAAGAAGAAGATGTTGACAATTTTCATGATCGTGCTCGGTCACAGACACCGGTTTACGACAACGATTCGTCGAAATCAAAGCCGAGGAAACGCTTGATTAAGAAAAGTGATACCGGAAAACAGTCAATGGCGCTGCCACCGGAGCTGGAAGATGAATTGGAGGAGGAAGATGAAGGGAGGAAGCGGAAGAAAGGGAAGGAAGGTGGGTCTGGGAAGAAGGAGAAGAGGCTGAAAGGGGGTAGTAGTAGTGGAAAGGGTGGGTCTAAATTTGGTGGTTCTAAGAGAGGGGTTGGTGGGAAAAGTGGGAATGATCGTGAAGGTGAAGTTAATGAGATGTGGGATGCACTTGCTGGAAATTCTGAGGATGACAATGAAGGTGCCAGGAATATGGATGATGATAACTTTATAGATGACACTGGAGTGGAACCTGCTTTGTATGGTTACGATGAACCACGTTCTCCTGGCGATGCTCCACAGGCTGAGGAAGGTGAGGAAGATGATGAAATCAAGGATCTTTTCAAGATGGGCAAGAAAAAGAAGAAGAACGAGAGAAGTCCTGCAGAAATTGCTTTATTAGTTGAGAATGTTATGGCTGAGCTTGAGGTTACAGCAGAAGAGGACGCTGAGCTTAATCGGCAGCACAAGCCTGCAGTCAATAAACTCAAGAAGTTGCCTCTTCTTATAGAAGTCCTCTCAAAGAAACAGCTTCAGCTAGAGTTTTTAGATCACGGAGTGCTAAATTTATTGAAGAGTTGGCTTGAGCCACTTCCTGATGGAAGTCTGCCAAATATCAACATACGGACAGCAATTTTGAAGATTTTGAATGATTTGCCTATAGATCTAGAGCATTATGATAGAAGAGAACAGCTGAAGAGAAGTGGTCTTGGAAAGGTTATTATGTTTTTATCAAGGTCCGATGAAGAAATCAATGTAAATAGGAGATTAGCCAAGGATTTGGTTGATAAATGGAGCCGACCTATATTTAATAAGAGTACTCGGTTTGAAGACATGCGAAATACTGAGGATGATAGGGTTCCTTACAGGAGGCCATCGGTTAAAAAGCCAGCAACTAAAGCTGCAGGGATGCAATCAAGAGACGGTGATCTTGATTTGGATCTTTCACAGCCTAGGTCCGGAGAGTCATCTTCCAGGCAACATGCATCAAGGCCAGAAGCCACACCTTTGGATTTTGTGATCCGCCCCCAATCTAAAATTGACCCCGATGAAATCAGAGCACGGGCAAAACAAGCTACACAAGACCAGCATCGTATGAAGATGAATAAGAAATTGCAGCAGTTGAGGGCACCAAAAAAGAAGCAGCTTCAGGCTACAAAACTGAGTGTGGAAGGTCGTGGTATGGCCAAATACTTTTAA

Protein sequence

>MsaT026104.1

MGYEDNPYRDEDGEPLMDYDDVQSDGEGSPEPQQLDDFEEEDVDNFHDRARSQTPVYDNDSSKSKPRKRLIKKSDTGKQSMALPPELEDELEEEDEGRKRKKGKEGGSGKKEKRLKGGSSSGKGGSKFGGSKRGVGGKSGNDREGEVNEMWDALAGNSEDDNEGARNMDDDNFIDDTGVEPALYGYDEPRSPGDAPQAEEGEEDDEIKDLFKMGKKKKKNERSPAEIALLVENVMAELEVTAEEDAELNRQHKPAVNKLKKLPLLIEVLSKKQLQLEFLDHGVLNLLKSWLEPLPDGSLPNINIRTAILKILNDLPIDLEHYDRREQLKRSGLGKVIMFLSRSDEEINVNRRLAKDLVDKWSRPIFNKSTRFEDMRNTEDDRVPYRRPSVKKPATKAAGMQSRDGDLDLDLSQPRSGESSSRQHASRPEATPLDFVIRPQSKIDPDEIRARAKQATQDQHRMKMNKKLQQLRAPKKKQLQATKLSVEGRGMAKYF*