AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa ssp. caerulea / MsaG019835


Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsaG019835 MtrunA17_Chr4g0024081 94.565 460 20 3 52 511 42 496 0.0 883
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsaG019835 AT3G21810.1 37.671 292 167 4 75 351 7 298 5.16e-46 167
MsaG019835 AT3G21810.2 36.709 237 147 1 118 351 38 274 9.10e-33 129

Find 111 sgRNAs with CRISPR-Local

Find sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
TCCAATCACCAAACATAATT+TGG 0.129454 4:+38385661 MsaT019835.1:CDS
GCGGATCTCCTTGCAGAAAA+AGG 0.236552 4:+38385693 MsaT019835.1:CDS
GTTCCTGAATTCTAGAATTA+AGG 0.245226 4:-38385145 None:intergenic
GCGTGTTGTTGCTGAGAAAA+AGG 0.251314 4:-38380330 None:intergenic
TAGCCTTAATTCTAGAATTC+AGG 0.264978 4:+38385142 MsaT019835.1:CDS
TCGAATGCACAATCAGAAAT+TGG 0.265489 4:+38385368 MsaT019835.1:CDS
TTCTCAGACATTTCTAGAAT+TGG 0.297684 4:+38385578 MsaT019835.1:CDS
TGATAATGGAATGGCATTAC+AGG 0.320982 4:+38386929 MsaT019835.1:CDS
AAGAGGATGGGGAGTATAAA+AGG 0.327357 4:+38385186 MsaT019835.1:CDS
TTGCTGCGGGGAATCAAATC+TGG 0.330633 4:-38386978 None:intergenic
GCAGGAAAGAGAGACTATTT+AGG 0.365279 4:+38382997 MsaT019835.1:intron
TAGAAATACTCTTGAGGATC+AGG 0.371223 4:+38384595 MsaT019835.1:CDS
TGAAAATTCACCATTATAGT+TGG 0.375369 4:-38380517 None:intergenic
GAAAACACAAGAAAGGAATA+TGG 0.376155 4:+38386535 MsaT019835.1:CDS
AGTGGCCAAAGTGATATTTC+TGG 0.381454 4:+38384506 MsaT019835.1:CDS
GGTTGACGGCACTTCAATCC+TGG 0.385159 4:-38386820 None:intergenic
TCAAGGACAGAAAATGATAA+TGG 0.388686 4:+38386915 MsaT019835.1:CDS
TCAATCATCCAGTCTGTTCA+TGG 0.396743 4:+38378532 MsaT019835.1:CDS
GTTACTTCAACTCCATTGTC+AGG 0.404300 4:-38386492 None:intergenic
TCCAAATTATGTTTGGTGAT+TGG 0.421141 4:-38385662 None:intergenic
CAGAAGACATAGGAGAAAAC+AGG 0.454769 4:+38384478 MsaT019835.1:CDS
GTTCTGTTCCAAATTATGTT+TGG 0.459172 4:-38385669 None:intergenic
CATGTGCAAAAGAACAGTTC+TGG 0.459711 4:-38380467 None:intergenic
TCTCGAGCCGGTGAATATCT+TGG 0.463968 4:-38383066 None:intergenic
AAACGTGCATGCAGGGCATT+CGG 0.468056 4:+38386392 MsaT019835.1:intron
TTTAGGTAATAATGACTTGA+GGG 0.469756 4:+38383014 MsaT019835.1:CDS
GTAAGCAATGGTGAGAATAC+TGG 0.475904 4:+38385632 MsaT019835.1:CDS
CGACCTCTTGCCTCTCGAGC+CGG 0.496526 4:-38383078 None:intergenic
ACAACACGCTCGTCGCAACT+TGG 0.497641 4:+38380344 MsaT019835.1:CDS
TGCTGCGGGGAATCAAATCT+GGG 0.499304 4:-38386977 None:intergenic
CAACAACATTCAGTCAGAAA+AGG 0.500378 4:+38386569 MsaT019835.1:CDS
TTCTAGAATTCAGGAACTTG+AGG 0.500849 4:+38385151 MsaT019835.1:CDS
TTGTTCTGTATGCAGATCAC+AGG 0.506871 4:+38385526 MsaT019835.1:intron
CAGGTCCGACTTCAAAGGTT+CGG 0.509285 4:+38385545 MsaT019835.1:CDS
ACTTCAATCCTGGATTCCTT+CGG 0.509539 4:-38386810 None:intergenic
TCCCCGCAGCAATTATTCAC+AGG 0.509785 4:+38386989 MsaT019835.1:CDS
GTTACCGTTGTGTTTATCAT+CGG 0.510198 4:+38378594 MsaT019835.1:CDS
AGCGTTGATATTGTAAGCAA+TGG 0.513750 4:+38385620 MsaT019835.1:CDS
CTGATACTAATGAAACTTCA+AGG 0.514385 4:+38386898 MsaT019835.1:CDS
GTAACCACCTTCGAGGTAGC+TGG 0.514586 4:-38378576 None:intergenic
AACTTCCAGAAATATCACTT+TGG 0.517782 4:-38384511 None:intergenic
AAATTATGTTTGGTGATTGG+AGG 0.521526 4:-38385659 None:intergenic
ATATAGTCCACTGAGGTCTC+CGG 0.522959 4:+38383531 MsaT019835.1:CDS
ACTAGGCACCAAGATCTTGA+AGG 0.524279 4:+38386513 MsaT019835.1:CDS
AACCTGTGAATAATTGCTGC+GGG 0.525149 4:-38386991 None:intergenic
GTTGATATTGAGCATGATAA+CGG 0.525710 4:+38386873 MsaT019835.1:CDS
TGAGGTCTCCGGAGAAAAGA+AGG 0.526705 4:+38383542 MsaT019835.1:CDS
ACATACAGCCGAAGGAATCC+AGG 0.526971 4:+38386802 MsaT019835.1:intron
CTCAGTTAAACAAAGAGGAT+GGG 0.527683 4:+38385174 MsaT019835.1:CDS
ATCACCTCCAAGATATTCAC+CGG 0.528176 4:+38383059 MsaT019835.1:CDS
TGGAATGGCATTACAGGTGA+AGG 0.528941 4:+38386935 MsaT019835.1:CDS
TGAGGGATAAACTTGACAAA+AGG 0.534124 4:+38383031 MsaT019835.1:CDS
CTTGAAGGAAAACACAAGAA+AGG 0.535513 4:+38386528 MsaT019835.1:CDS
ACCTTCGAGGTAGCTGGCAG+CGG 0.535764 4:-38378570 None:intergenic
CAATAATTCCATGAACAGAC+TGG 0.536995 4:-38378540 None:intergenic
TTCTAGAATTGGTGCTGATG+AGG 0.537743 4:+38385589 MsaT019835.1:CDS
GCTCAGTTAAACAAAGAGGA+TGG 0.540853 4:+38385173 MsaT019835.1:CDS
ACCGTTGTGTTTATCATCGG+AGG 0.549225 4:+38378597 MsaT019835.1:CDS
AGAGGTCGGCAGACCATTCG+CGG 0.553269 4:+38383093 MsaT019835.1:CDS
CTTCTTGAACACTCTCATCC+AGG 0.556266 4:-38385115 None:intergenic
ATCTTGTGTCTAACCGCGAA+TGG 0.556846 4:-38383106 None:intergenic
CGAGCCGGTGAATATCTTGG+AGG 0.558434 4:-38383063 None:intergenic
GACAGAAAATGATAATGGAA+TGG 0.562419 4:+38386920 MsaT019835.1:CDS
CTAGTTAAACCATGTCCACA+TGG 0.563579 4:-38387174 None:intergenic
TCAACTTTGAACAATTCGAT+CGG 0.563735 4:-38380374 None:intergenic
TTACTTCAACTCCATTGTCA+GGG 0.564290 4:-38386491 None:intergenic
GATCACAGGTCCGACTTCAA+AGG 0.566508 4:+38385540 MsaT019835.1:intron
AGCAGCAGCCCATGTGGACA+TGG 0.566741 4:+38387165 MsaT019835.1:CDS
AAGATATTCACCGGCTCGAG+AGG 0.567135 4:+38383068 MsaT019835.1:CDS
TGTGAGGAGGCCCCTGACAA+TGG 0.567240 4:+38386480 MsaT019835.1:CDS
TAACTTAATGTGCAGTATGA+GGG 0.569651 4:+38387091 MsaT019835.1:intron
GACAACATGAGCTGCCATGC+TGG 0.571700 4:-38386841 None:intergenic
TCGGTTGAAACAGCAAGAAG+TGG 0.579611 4:+38386411 MsaT019835.1:CDS
GGATGAGAGTGTTCAAGAAG+TGG 0.580126 4:+38385118 MsaT019835.1:CDS
TCAGTTAAACAAAGAGGATG+GGG 0.582580 4:+38385175 MsaT019835.1:CDS
GAACCGAAAATCCCAACTAT+CGG 0.583849 4:+38384753 MsaT019835.1:CDS
CACAACGGTAACCACCTTCG+AGG 0.583878 4:-38378583 None:intergenic
GCCGCTGCCAGCTACCTCGA+AGG 0.584623 4:+38378569 MsaT019835.1:CDS
TGAGCTGCCATGCTGGTTGA+CGG 0.590544 4:-38386834 None:intergenic
ATTTAGGTAATAATGACTTG+AGG 0.602441 4:+38383013 MsaT019835.1:CDS
GATCTCCGAACCTTTGAAGT+CGG 0.606184 4:-38385550 None:intergenic
GCATGCAGAACGAGATTCTG+TGG 0.609093 4:+38385718 MsaT019835.1:CDS
CGGTTGAAACAGCAAGAAGT+GGG 0.611761 4:+38386412 MsaT019835.1:CDS
AAACAGCAAGAAGTGGGAAG+CGG 0.617248 4:+38386418 MsaT019835.1:CDS
AAGAGTATTTCTAGAACCAG+AGG 0.619782 4:-38384585 None:intergenic
GCTGCCAGCTACCTCGAAGG+TGG 0.624077 4:+38378572 MsaT019835.1:CDS
TACTTCAACTCCATTGTCAG+GGG 0.624441 4:-38386490 None:intergenic
GGAATGGCATTACAGGTGAA+GGG 0.625351 4:+38386936 MsaT019835.1:CDS
TGAAGTGCCGTCAACCAGCA+TGG 0.625663 4:+38386827 MsaT019835.1:CDS
TGGTTCTAGAAATACTCTTG+AGG 0.626257 4:+38384589 MsaT019835.1:CDS
ACAATGGAGTTGAAGTAACT+AGG 0.628231 4:+38386496 MsaT019835.1:CDS
GGCAGCTCATGTTGTCGATG+AGG 0.635035 4:+38386848 MsaT019835.1:CDS
TGTGGATGGTCTTGATGAAG+AGG 0.636361 4:+38387132 MsaT019835.1:CDS
TGAGGCTCAGTTAAACAAAG+AGG 0.640733 4:+38385169 MsaT019835.1:CDS
AGTTGCAAGATGAACTGAAG+AGG 0.645881 4:+38385391 MsaT019835.1:CDS
TAACCTGTGAATAATTGCTG+CGG 0.646818 4:-38386992 None:intergenic
AACGAGAATGTGGATGTGGA+TGG 0.650385 4:+38387118 MsaT019835.1:CDS
ATCGATTGACAAGAGTTGTG+AGG 0.651602 4:+38386464 MsaT019835.1:CDS
TCACCGGCTCGAGAGGCAAG+AGG 0.653046 4:+38383075 MsaT019835.1:CDS
TTATGTGCGCTTTATCAGAA+CGG 0.656000 4:+38380432 MsaT019835.1:CDS
CGGCTCGAGAGGCAAGAGGT+CGG 0.660465 4:+38383079 MsaT019835.1:CDS
GGTGCAGTGACAGAAGACAT+AGG 0.669837 4:+38384468 MsaT019835.1:intron
AGGAGAAAACAGGATATCAG+TGG 0.680364 4:+38384488 MsaT019835.1:CDS
TAGTTAAACCATGTCCACAT+GGG 0.685652 4:-38387173 None:intergenic
GATTGACAAGAGTTGTGAGG+AGG 0.689653 4:+38386467 MsaT019835.1:CDS
CATAATTTGGAACAGAACAG+CGG 0.694176 4:+38385674 MsaT019835.1:CDS
ACCTGTGAATAATTGCTGCG+GGG 0.699773 4:-38386990 None:intergenic
GCTGCGGGGAATCAAATCTG+GGG 0.713601 4:-38386976 None:intergenic
TCTGTGGAAGAGTTACAACA+AGG 0.739554 4:+38385734 MsaT019835.1:CDS
ACCTCCGATGATAAACACAA+CGG 0.740253 4:-38378598 None:intergenic
TTGCAGAATATAGTCCACTG+AGG 0.772392 4:+38383524 MsaT019835.1:intron

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
Chromosome Type Strat End Strand Name
Chr4 gene 38378195 38387192 38378195 ID=MsaG019835
Chr4 mRNA 38378195 38387192 38378195 ID=MsaT019835.1;Parent=MsaG019835
Chr4 exon 38378195 38378197 38378195 ID=MsaT019835.1.exon1;Parent=MsaT019835.1
Chr4 CDS 38378195 38378197 38378195 ID=cds.MsaT019835.1;Parent=MsaT019835.1
Chr4 exon 38378527 38378618 38378527 ID=MsaT019835.1.exon2;Parent=MsaT019835.1
Chr4 CDS 38378527 38378618 38378527 ID=cds.MsaT019835.1;Parent=MsaT019835.1
Chr4 exon 38378730 38378752 38378730 ID=MsaT019835.1.exon3;Parent=MsaT019835.1
Chr4 CDS 38378730 38378752 38378730 ID=cds.MsaT019835.1;Parent=MsaT019835.1
Chr4 exon 38380316 38380528 38380316 ID=MsaT019835.1.exon4;Parent=MsaT019835.1
Chr4 CDS 38380316 38380528 38380316 ID=cds.MsaT019835.1;Parent=MsaT019835.1
Chr4 exon 38383001 38383114 38383001 ID=MsaT019835.1.exon5;Parent=MsaT019835.1
Chr4 CDS 38383001 38383114 38383001 ID=cds.MsaT019835.1;Parent=MsaT019835.1
Chr4 exon 38383530 38383563 38383530 ID=MsaT019835.1.exon6;Parent=MsaT019835.1
Chr4 CDS 38383530 38383563 38383530 ID=cds.MsaT019835.1;Parent=MsaT019835.1
Chr4 exon 38384475 38384616 38384475 ID=MsaT019835.1.exon7;Parent=MsaT019835.1
Chr4 CDS 38384475 38384616 38384475 ID=cds.MsaT019835.1;Parent=MsaT019835.1
Chr4 exon 38384718 38384774 38384718 ID=MsaT019835.1.exon8;Parent=MsaT019835.1
Chr4 CDS 38384718 38384774 38384718 ID=cds.MsaT019835.1;Parent=MsaT019835.1
Chr4 exon 38385110 38385207 38385110 ID=MsaT019835.1.exon9;Parent=MsaT019835.1
Chr4 CDS 38385110 38385207 38385110 ID=cds.MsaT019835.1;Parent=MsaT019835.1
Chr4 exon 38385341 38385412 38385341 ID=MsaT019835.1.exon10;Parent=MsaT019835.1
Chr4 CDS 38385341 38385412 38385341 ID=cds.MsaT019835.1;Parent=MsaT019835.1
Chr4 exon 38385541 38385755 38385541 ID=MsaT019835.1.exon11;Parent=MsaT019835.1
Chr4 CDS 38385541 38385755 38385541 ID=cds.MsaT019835.1;Parent=MsaT019835.1
Chr4 exon 38386406 38386590 38386406 ID=MsaT019835.1.exon12;Parent=MsaT019835.1
Chr4 CDS 38386406 38386590 38386406 ID=cds.MsaT019835.1;Parent=MsaT019835.1
Chr4 exon 38386810 38387010 38386810 ID=MsaT019835.1.exon13;Parent=MsaT019835.1
Chr4 CDS 38386810 38387010 38386810 ID=cds.MsaT019835.1;Parent=MsaT019835.1
Chr4 exon 38387106 38387192 38387106 ID=MsaT019835.1.exon14;Parent=MsaT019835.1
Chr4 CDS 38387106 38387192 38387106 ID=cds.MsaT019835.1;Parent=MsaT019835.1
Gene Sequence

>MsaT019835.1

ATGCTGTATCAATCATCCAGTCTGTTCATGGAATTATTGTTTGAAGCCGCTGCCAGCTACCTCGAAGGTGGTTACCGTTGTGTTTATCATCGGAGGTGTTTTGAGGCAGAGAGTTGTGAATTTACTTCATTCCCTTTTTCTCAGCAACAACACGCTCGTCGCAACTTGGAAAATCTCCGATCGAATTGTTCAAAGTTGAAGATGTTTGATCAACGAAAGCAGTTCAAGACGAAGTTATGTGCGCTTTATCAGAACGGTCGATGTAATCGCCAGAACTGTTCTTTTGCACATGGGAATATCGAGCTTCGACGATTTTCTTCCAACTATAATGGAAAGAGAGACTATTTAGGTAATAATGACTTGAGGGATAAACTTGACAAAAGGTATTTATCACCTCCAAGATATTCACCGGCTCGAGAGGCAAGAGGTCGGCAGACCATTCGCGAATATAGTCCACTGAGGTCTCCGGAGAAAAGAAGTGACAGAAGACATAGGAGAAAACAGGATATCAGTGGCCAAAGTGATATTTCTGGAAGTTTAAAAGTCTCTGAGAGAATTAATGATCCAGTTAAAGAAGAAAAAATGATTTCCTCTGGTTCTAGAAATACTCTTGAGGATCAGCTGAAGAAAGTACACTCTGATATCAAAACTCTTGAGAACCGAAAATCCCAACTATCGGTCTGCCTGGATGAGAGTGTTCAAGAAGTGGATAGCCTTAATTCTAGAATTCAGGAACTTGAGGCTCAGTTAAACAAAGAGGATGGGGAGTATAAAAGAATTACTTCAAAAATAAGGAAGTTTGTTCGAATGCACAATCAGAAATTGGAGTTGCAAGATGAACTGAAGAGATCACAGGTCCGACTTCAAAGGTTCGGAGATCAGCTTTTCTCAGACATTTCTAGAATTGGTGCTGATGAGGAAGATTTAAGCGTTGATATTGTAAGCAATGGTGAGAATACTGGTCTTCCTCCAATCACCAAACATAATTTGGAACAGAACAGCGGATCTCCTTGCAGAAAAAGGGTGCATGCAGAACGAGATTCTGTGGAAGAGTTACAACAAGGGCATTCGGTTGAAACAGCAAGAAGTGGGAAGCGGTCTCGTTTGAGTTTGTCTGCTCAATCGATTGACAAGAGTTGTGAGGAGGCCCCTGACAATGGAGTTGAAGTAACTAGGCACCAAGATCTTGAAGGAAAACACAAGAAAGGAATATGGAATTCTTCTAACAACAACATTCAGTCAGAAAAGCCGAAGGAATCCAGGATTGAAGTGCCGTCAACCAGCATGGCAGCTCATGTTGTCGATGAGGAAGTTGATATTGAGCATGATAACGGAACTGATACTAATGAAACTTCAAGGACAGAAAATGATAATGGAATGGCATTACAGGTGAAGGGCATATCTCTCATGCTTACCCCAGATTTGATTCCCCGCAGCAATTATTCACAGTATGAGGGTAAAAACGAGAATGTGGATGTGGATGGTCTTGATGAAGAGGCAGCAGCAGCAGCAGCAGCCCATGTGGACATGGTTTAA

Protein sequence

>MsaT019835.1

MLYQSSSLFMELLFEAAASYLEGGYRCVYHRRCFEAESCEFTSFPFSQQQHARRNLENLRSNCSKLKMFDQRKQFKTKLCALYQNGRCNRQNCSFAHGNIELRRFSSNYNGKRDYLGNNDLRDKLDKRYLSPPRYSPAREARGRQTIREYSPLRSPEKRSDRRHRRKQDISGQSDISGSLKVSERINDPVKEEKMISSGSRNTLEDQLKKVHSDIKTLENRKSQLSVCLDESVQEVDSLNSRIQELEAQLNKEDGEYKRITSKIRKFVRMHNQKLELQDELKRSQVRLQRFGDQLFSDISRIGADEEDLSVDIVSNGENTGLPPITKHNLEQNSGSPCRKRVHAERDSVEELQQGHSVETARSGKRSRLSLSAQSIDKSCEEAPDNGVEVTRHQDLEGKHKKGIWNSSNNNIQSEKPKESRIEVPSTSMAAHVVDEEVDIEHDNGTDTNETSRTENDNGMALQVKGISLMLTPDLIPRSNYSQYEGKNENVDVDGLDEEAAAAAAAHVDMV*