AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa ssp. caerulea / MsaG015623


Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsaG015623 MtrunA17_Chr3g0120751 94.534 494 14 1 1 481 4 497 0.0 960
MsaG015623 MtrunA17_Chr4g0042701 27.851 456 277 19 40 462 37 473 6.41e-27 113
MsaG015623 MtrunA17_Chr6g0459101 28.846 312 195 9 62 351 65 371 1.93e-26 112
MsaG015623 MtrunA17_Chr4g0072481 22.222 405 276 12 57 447 139 518 5.82e-18 86.7
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsaG015623 AT3G07670.1 70.565 496 118 5 14 481 9 504 0.0 693
MsaG015623 AT3G07670.2 76.503 366 73 1 129 481 1 366 0.0 567
MsaG015623 AT5G14260.4 28.797 316 198 8 62 355 78 388 5.79e-30 121
MsaG015623 AT5G14260.2 28.797 316 198 8 62 355 78 388 1.36e-29 122
MsaG015623 AT5G14260.3 28.797 316 198 8 62 355 78 388 1.36e-29 122
MsaG015623 AT5G14260.1 28.797 316 198 8 62 355 78 388 1.36e-29 122
MsaG015623 AT1G14030.1 28.066 424 257 22 62 458 47 449 9.15e-25 107
MsaG015623 AT3G55080.1 30.909 275 162 10 78 343 59 314 3.43e-24 105
MsaG015623 AT3G55080.3 30.242 248 146 9 105 343 1 230 1.93e-21 96.3
MsaG015623 AT3G55080.5 30.242 248 146 9 105 343 1 230 1.93e-21 96.3
MsaG015623 AT3G55080.4 29.439 214 127 8 139 343 1 199 4.74e-18 85.9
MsaG015623 AT3G55080.2 29.224 219 126 9 139 343 1 204 5.29e-17 82.8
MsaG015623 AT2G18850.2 25.818 275 183 8 62 326 148 411 1.68e-16 82.4
MsaG015623 AT2G18850.1 25.818 275 183 8 62 326 148 411 1.87e-16 82.4

Find 112 sgRNAs with CRISPR-Local

Find sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
AACCATACTCACTTCTTTAT+TGG 0.118450 3:+89203067 MsaT015623.1:CDS
AGGGAAGAAATCAGGGTATT+TGG 0.193374 3:-89204499 None:intergenic
GAAAGGACTAATAATGTTAT+TGG 0.198637 3:+89204344 MsaT015623.1:CDS
AAAGGCTTGAAAATCTTTAA+TGG 0.210155 3:+89206129 MsaT015623.1:CDS
TGGTTGGCCATTGGAGTTAA+TGG 0.222279 3:+89205505 MsaT015623.1:CDS
TGAAAATCTTTAATGGGTTC+TGG 0.228182 3:+89206136 MsaT015623.1:CDS
GTCTTCTGTTGAGTTGTTTC+GGG 0.232871 3:-89205910 None:intergenic
TTAGAACTGTTGAAGAAATA+TGG 0.237492 3:+89205365 MsaT015623.1:CDS
CAGTTCTAACTTCTCCTTAT+AGG 0.242836 3:-89205351 None:intergenic
TTGAAGAAATATGGATTATC+AGG 0.251255 3:+89205374 MsaT015623.1:CDS
AATGCTTGCTCCTCTATTTC+AGG 0.265403 3:-89205700 None:intergenic
TGTGATGTAATTACCTCTTC+AGG 0.272230 3:-89204519 None:intergenic
TGACACTAGCTTCACTTATA+AGG 0.272407 3:-89202999 None:intergenic
TTCAATACTTCACCAGCTTC+CGG 0.274096 3:-89202937 None:intergenic
TTGTTGCTTTGAAGAATATT+AGG 0.281922 3:+89202288 MsaT015623.1:CDS
CTTGGATTCGTGCCCTCCTT+TGG 0.311412 3:-89205284 None:intergenic
ACAACCATGGTTGAAGCTTC+AGG 0.313304 3:+89202005 None:intergenic
AGTCTTCTGTTGAGTTGTTT+CGG 0.314214 3:-89205911 None:intergenic
ACACAGGTGTTTATTTCATA+TGG 0.317932 3:+89205218 MsaT015623.1:intron
ACTTGGAAGCTTCACAGATT+AGG 0.329419 3:+89204309 MsaT015623.1:CDS
ACCTCTTCAGGGAAGAAATC+AGG 0.336812 3:-89204507 None:intergenic
ATGAGGACTGGTGAATTAAA+AGG 0.337001 3:+89206111 MsaT015623.1:CDS
AAGGAAGAGTTTACAGAATC+AGG 0.341934 3:-89202356 None:intergenic
CTTGGAAGCTTCACAGATTA+GGG 0.342197 3:+89204310 MsaT015623.1:CDS
GTAGGTTCGATTGCCCTCTA+TGG 0.342737 3:+89204812 MsaT015623.1:intron
CTCTGCAACCTCATCATTGA+TGG 0.347009 3:+89202136 MsaT015623.1:CDS
AAGGCTTGAAAATCTTTAAT+GGG 0.349585 3:+89206130 MsaT015623.1:CDS
CAGATGGTTCAGTTATATAT+CGG 0.353139 3:+89203032 MsaT015623.1:CDS
TACCTGCTCACCTGGTTGAT+AGG 0.356905 3:-89205029 None:intergenic
GAAAGAATGCATTGGTTCCT+TGG 0.361542 3:+89204838 MsaT015623.1:CDS
ATTCATCTTCTCTTGAGAAA+TGG 0.363962 3:+89202198 MsaT015623.1:CDS
AAAATACAACAAGTTCTTAC+AGG 0.366598 3:+89205759 MsaT015623.1:CDS
GGCCAACCAGTAATCCTTAT+AGG 0.372376 3:-89205491 None:intergenic
GGTAAGTGGATCGCTAGATT+TGG 0.375776 3:+89205877 MsaT015623.1:intron
TACCAATAAAGAAGTGAGTA+TGG 0.379867 3:-89203069 None:intergenic
GTTGCAAGCAATGGCCAATC+TGG 0.384726 3:-89202973 None:intergenic
TCAATACTTCACCAGCTTCC+GGG 0.387137 3:-89202936 None:intergenic
GAAATCCGATGAGTCCTATA+AGG 0.391559 3:+89205337 MsaT015623.1:CDS
ATTGATGGAAACTATTCCTT+GGG 0.394039 3:+89202151 MsaT015623.1:CDS
TCAGGAGTGATGACAAGTTC+AGG 0.394221 3:-89202338 None:intergenic
ATTCACAAAACAACACATCT+TGG 0.404622 3:+89202080 MsaT015623.1:CDS
GGGGAGCTTCTGTTATCATA+TGG 0.410226 3:+89205254 MsaT015623.1:CDS
TGAATTGTTTGGTTAAAAGT+AGG 0.419376 3:-89202062 None:intergenic
CATTGATGGAAACTATTCCT+TGG 0.421613 3:+89202150 MsaT015623.1:CDS
AAAAGAATTCAGTTCCAGAT+TGG 0.424118 3:+89202959 MsaT015623.1:CDS
TCTCCAGATACAATGATATG+AGG 0.424444 3:+89204463 MsaT015623.1:intron
AAAGAATGCATTGGTTCCTT+GGG 0.460470 3:+89204839 MsaT015623.1:CDS
ACCAACATCAACTTTATCAA+TGG 0.460731 3:-89202255 None:intergenic
CAACCATGGTTGAAGCTTCA+GGG 0.470871 3:+89202006 None:intergenic
GAGTGGAGCTGCCCGGAAGC+TGG 0.475490 3:+89202925 MsaT015623.1:CDS
GAGAAATGGTTGTCTCAGTC+AGG 0.477317 3:+89202212 MsaT015623.1:CDS
AAGGATTACTGGTTGGCCAT+TGG 0.479274 3:+89205496 MsaT015623.1:CDS
AGCAGAACTAGATCGCTACT+TGG 0.487105 3:+89204292 MsaT015623.1:CDS
TCCCTATCAACCAGGTGAGC+AGG 0.488328 3:+89205027 MsaT015623.1:CDS
CTTGAGATATCCTGAAATAG+AGG 0.493097 3:+89205690 MsaT015623.1:CDS
GATTATGATAAATCGTCAAA+GGG 0.494942 3:+89204983 MsaT015623.1:CDS
GAGTCCTTCAAATGGTCATT+CGG 0.496702 3:+89204625 MsaT015623.1:CDS
TTCCTATAAGGATTACTGGT+TGG 0.499844 3:+89205489 MsaT015623.1:CDS
CCCTGATTTCTTCCCTGAAG+AGG 0.501319 3:+89204506 MsaT015623.1:CDS
ACCTGCTCACCTGGTTGATA+GGG 0.506098 3:-89205028 None:intergenic
GGATTATGATAAATCGTCAA+AGG 0.508301 3:+89204982 MsaT015623.1:CDS
CGATATATAACTGAACCATC+TGG 0.510053 3:-89203031 None:intergenic
TGCATTCTTTCCATCCATAG+AGG 0.513905 3:-89204826 None:intergenic
GTGATGTAATTACCTCTTCA+GGG 0.518826 3:-89204518 None:intergenic
GAAGAAGACTGAGGGATATG+AGG 0.527158 3:+89206094 MsaT015623.1:CDS
AATGCCGAATGACCATTTGA+AGG 0.527488 3:-89204629 None:intergenic
ATCATATGGATTTGTTCCAA+AGG 0.534845 3:+89205268 MsaT015623.1:CDS
TTTATGATTACCTGCTCACC+TGG 0.538716 3:-89205037 None:intergenic
AGGAATAAGAGTGGTGGTGT+TGG 0.543116 3:-89202042 None:intergenic
CCTCTTCAGGGAAGAAATCA+GGG 0.543445 3:-89204506 None:intergenic
TTGATCGATCCACAGGTAAG+TGG 0.549849 3:+89205863 MsaT015623.1:intron
GTTCGATTGCCCTCTATGGA+TGG 0.552132 3:+89204816 MsaT015623.1:CDS
AAAGTTGATGTTGGTGAGAG+AGG 0.560244 3:+89202263 MsaT015623.1:CDS
TTATTAGGAGTGGAGCTGCC+CGG 0.560448 3:+89202918 MsaT015623.1:intron
GACAACTCAACTGAATCACT+TGG 0.561180 3:-89205302 None:intergenic
TTCTGGAATCGTTTCCAATG+AGG 0.561253 3:+89206153 MsaT015623.1:CDS
TCCATTGATAAAGTTGATGT+TGG 0.569634 3:+89202254 MsaT015623.1:CDS
TCAACATCGAGTCCTTCAAA+TGG 0.570581 3:+89204617 MsaT015623.1:CDS
TATGGATTTGTTCCAAAGGA+GGG 0.574263 3:+89205272 MsaT015623.1:CDS
TCAATGGACATCTTCTGAGA+AGG 0.574688 3:-89202239 None:intergenic
GCATAAGCCATTAACTCCAA+TGG 0.580262 3:-89205512 None:intergenic
ATAAGGTAAGTTGCAAGCAA+TGG 0.582668 3:-89202982 None:intergenic
CTCCAGATACAATGATATGA+GGG 0.583933 3:+89204464 MsaT015623.1:intron
AGACTGAGGGATATGAGGAC+TGG 0.586138 3:+89206099 MsaT015623.1:CDS
ATATGGATTTGTTCCAAAGG+AGG 0.589672 3:+89205271 MsaT015623.1:CDS
GCATTCTTTCCATCCATAGA+GGG 0.590910 3:-89204825 None:intergenic
CTTCTCCTTATAGGACTCAT+CGG 0.591036 3:-89205342 None:intergenic
GTTAAAAGTAGGAATAAGAG+TGG 0.593264 3:-89202051 None:intergenic
TGAAGAAATATGGATTATCA+GGG 0.595613 3:+89205375 MsaT015623.1:CDS
AATAGTTTCCATCAATGATG+AGG 0.598821 3:-89202144 None:intergenic
CTTTCTAAAGCAGCTAGCCG+TGG 0.603623 3:+89205934 MsaT015623.1:CDS
GTGTCATGAAATCTTCCAGA+TGG 0.603983 3:+89203016 MsaT015623.1:CDS
GCTTTGAAGAATATTAGGAA+AGG 0.605109 3:+89202293 MsaT015623.1:CDS
TTAGGGAGAGAGCAATTGAA+AGG 0.606641 3:+89204327 MsaT015623.1:CDS
CATCCCTGAAGCTTCAACCA+TGG 0.608019 3:-89202009 None:intergenic
TATGGATGGAAAGAATGCAT+TGG 0.613912 3:+89204830 MsaT015623.1:CDS
GTTAGTCCTTCAAGCATGAG+AGG 0.621487 3:+89205545 MsaT015623.1:CDS
CATGAGAGGAAAATTTGAAG+AGG 0.626190 3:+89205559 MsaT015623.1:CDS
TGATTCATCATGTCTGCCCA+AGG 0.634383 3:-89204855 None:intergenic
CATGATGAATCATAGTTGTG+AGG 0.635915 3:+89204866 MsaT015623.1:CDS
GATATTGCGAAGAAGACTGA+GGG 0.640825 3:+89206086 MsaT015623.1:intron
ACTTGTGTAATAGCGAGCGC+AGG 0.651320 3:+89205957 MsaT015623.1:CDS
AGAAGTGAGTATGGTTGACG+AGG 0.657046 3:-89203060 None:intergenic
GAATCATTCTCACATCCCCA+AGG 0.662703 3:-89202167 None:intergenic
ACGGATCGTCCCTATCAACC+AGG 0.664539 3:+89205019 MsaT015623.1:CDS
AAAAGTAGGAATAAGAGTGG+TGG 0.668503 3:-89202048 None:intergenic
TCTTCTGTTGAGTTGTTTCG+GGG 0.672386 3:-89205909 None:intergenic
AGATATTGCGAAGAAGACTG+AGG 0.673237 3:+89206085 MsaT015623.1:intron
TTGATGGAAACTATTCCTTG+GGG 0.675898 3:+89202152 MsaT015623.1:CDS
AAAGGGAATTGTCTTTACGA+CGG 0.683033 3:+89205000 MsaT015623.1:CDS
GGAGTGATGACAAGTTCAGG+AGG 0.684706 3:-89202335 None:intergenic
CTCGCTATTACACAAGTCCA+CGG 0.710247 3:-89205951 None:intergenic

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
Chromosome Type Strat End Strand Name
Chr3 gene 89202011 89206173 89202011 ID=MsaG015623
Chr3 mRNA 89202011 89206173 89202011 ID=MsaT015623.1;Parent=MsaG015623
Chr3 exon 89202011 89202364 89202011 ID=MsaT015623.1.exon1;Parent=MsaT015623.1
Chr3 CDS 89202011 89202364 89202011 ID=cds.MsaT015623.1;Parent=MsaT015623.1
Chr3 exon 89202925 89203088 89202925 ID=MsaT015623.1.exon2;Parent=MsaT015623.1
Chr3 CDS 89202925 89203088 89202925 ID=cds.MsaT015623.1;Parent=MsaT015623.1
Chr3 exon 89204286 89204369 89204286 ID=MsaT015623.1.exon3;Parent=MsaT015623.1
Chr3 CDS 89204286 89204369 89204286 ID=cds.MsaT015623.1;Parent=MsaT015623.1
Chr3 exon 89204470 89204527 89204470 ID=MsaT015623.1.exon4;Parent=MsaT015623.1
Chr3 CDS 89204470 89204527 89204470 ID=cds.MsaT015623.1;Parent=MsaT015623.1
Chr3 exon 89204613 89204666 89204613 ID=MsaT015623.1.exon5;Parent=MsaT015623.1
Chr3 CDS 89204613 89204666 89204613 ID=cds.MsaT015623.1;Parent=MsaT015623.1
Chr3 exon 89204816 89204887 89204816 ID=MsaT015623.1.exon6;Parent=MsaT015623.1
Chr3 CDS 89204816 89204887 89204816 ID=cds.MsaT015623.1;Parent=MsaT015623.1
Chr3 exon 89204968 89205048 89204968 ID=MsaT015623.1.exon7;Parent=MsaT015623.1
Chr3 CDS 89204968 89205048 89204968 ID=cds.MsaT015623.1;Parent=MsaT015623.1
Chr3 exon 89205224 89205396 89205224 ID=MsaT015623.1.exon8;Parent=MsaT015623.1
Chr3 CDS 89205224 89205396 89205224 ID=cds.MsaT015623.1;Parent=MsaT015623.1
Chr3 exon 89205478 89205580 89205478 ID=MsaT015623.1.exon9;Parent=MsaT015623.1
Chr3 CDS 89205478 89205580 89205478 ID=cds.MsaT015623.1;Parent=MsaT015623.1
Chr3 exon 89205688 89205780 89205688 ID=MsaT015623.1.exon10;Parent=MsaT015623.1
Chr3 CDS 89205688 89205780 89205688 ID=cds.MsaT015623.1;Parent=MsaT015623.1
Chr3 exon 89205878 89206000 89205878 ID=MsaT015623.1.exon11;Parent=MsaT015623.1
Chr3 CDS 89205878 89206000 89205878 ID=cds.MsaT015623.1;Parent=MsaT015623.1
Chr3 exon 89206087 89206173 89206087 ID=MsaT015623.1.exon12;Parent=MsaT015623.1
Chr3 CDS 89206087 89206173 89206087 ID=cds.MsaT015623.1;Parent=MsaT015623.1
Gene Sequence

>MsaT015623.1

ATGGTTGAAGCTTCAGGGATGATGATGTTCACCAACACCACCACTCTTATTCCTACTTTTAACCAAACAATTCACAAAACAACACATCTTGGATTCTCACGTAGAAACAATGCTCATTTTTCACTCTCTGCAACCTCATCATTGATGGAAACTATTCCTTGGGGATGTGAGAATGATTCAATTGAAAATTCATCTTCTCTTGAGAAATGGTTGTCTCAGTCAGGTCTTCCTTCTCAGAAGATGTCCATTGATAAAGTTGATGTTGGTGAGAGAGGACTTGTTGCTTTGAAGAATATTAGGAAAGGAGAGAAGCTTCTTTTTGTTCCTCCTGAACTTGTCATCACTCCTGATTCTGAGTGGAGCTGCCCGGAAGCTGGTGAAGTATTGAAAAAGAATTCAGTTCCAGATTGGCCATTGCTTGCAACTTACCTTATAAGTGAAGCTAGTGTCATGAAATCTTCCAGATGGTTCAGTTATATATCGGCTTTACCTCGTCAACCATACTCACTTCTTTATTGGTCACAAGCAGAACTAGATCGCTACTTGGAAGCTTCACAGATTAGGGAGAGAGCAATTGAAAGGACTAATAATGTTATTGGAACATACAATGATATGAGGGTTAGAATATTTTCCAAATACCCTGATTTCTTCCCTGAAGAGGTGTTCAACATCGAGTCCTTCAAATGGTCATTCGGCATTCTTTTCTCGCGCATGGTTCGATTGCCCTCTATGGATGGAAAGAATGCATTGGTTCCTTGGGCAGACATGATGAATCATAGTTGTGAGGTGGAGACTTTTTTGGATTATGATAAATCGTCAAAGGGAATTGTCTTTACGACGGATCGTCCCTATCAACCAGGTGAGCAGGTGTTTATTTCATATGGAAAAAAATCAAACGGGGAGCTTCTGTTATCATATGGATTTGTTCCAAAGGAGGGCACGAATCCAAGTGATTCAGTTGAGTTGTCACTGTCACTCAAGAAATCCGATGAGTCCTATAAGGAGAAGTTAGAACTGTTGAAGAAATATGGATTATCAGGATCTCAGTGTTTTCCTATAAGGATTACTGGTTGGCCATTGGAGTTAATGGCTTATGCTTATTTAGCTGTTAGTCCTTCAAGCATGAGAGGAAAATTTGAAGAGGACTTGAGATATCCTGAAATAGAGGAGCAAGCATTGCAATTTATACTAGACAGTTGTGAATCTAGTATCTCAAAATACAACAAGTTCTTACAGGTAAGTGGATCGCTAGATTTGGATGTGACTTCCCCGAAACAACTCAACAGAAGACTCTTTCTAAAGCAGCTAGCCGTGGACTTGTGTAATAGCGAGCGCAGGATATTGTTTCGTGCTCAATATATATTGCGAAGAAGACTGAGGGATATGAGGACTGGTGAATTAAAAGGCTTGAAAATCTTTAATGGGTTCTGGAATCGTTTCCAATGA

Protein sequence

>MsaT015623.1

MVEASGMMMFTNTTTLIPTFNQTIHKTTHLGFSRRNNAHFSLSATSSLMETIPWGCENDSIENSSSLEKWLSQSGLPSQKMSIDKVDVGERGLVALKNIRKGEKLLFVPPELVITPDSEWSCPEAGEVLKKNSVPDWPLLATYLISEASVMKSSRWFSYISALPRQPYSLLYWSQAELDRYLEASQIRERAIERTNNVIGTYNDMRVRIFSKYPDFFPEEVFNIESFKWSFGILFSRMVRLPSMDGKNALVPWADMMNHSCEVETFLDYDKSSKGIVFTTDRPYQPGEQVFISYGKKSNGELLLSYGFVPKEGTNPSDSVELSLSLKKSDESYKEKLELLKKYGLSGSQCFPIRITGWPLELMAYAYLAVSPSSMRGKFEEDLRYPEIEEQALQFILDSCESSISKYNKFLQVSGSLDLDVTSPKQLNRRLFLKQLAVDLCNSERRILFRAQYILRRRLRDMRTGELKGLKIFNGFWNRFQ*