AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa ssp. caerulea / MsaG013875

Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsaG013875 MtrunA17_Chr3g0099561 95.098 306 2 2 19 311 1 306 0.0 586
MsaG013875 MtrunA17_Chr7g0224601 58.689 305 107 4 19 304 1 305 4.68e-110 322
MsaG013875 MtrunA17_Chr8g0392781 52.907 344 112 4 16 309 8 351 6.53e-109 320
MsaG013875 MtrunA17_Chr1g0177151 62.800 250 80 2 12 250 6 253 3.93e-101 297
MsaG013875 MtrunA17_Chr6g0477171 65.327 199 58 1 63 250 45 243 1.21e-83 253
MsaG013875 MtrunA17_Chr5g0444621 54.812 239 97 1 47 274 25 263 2.17e-80 244
MsaG013875 MtrunA17_Chr3g0083821 57.377 122 44 2 61 178 13 130 6.77e-38 131
MsaG013875 MtrunA17_Chr3g0083811 46.552 116 51 1 190 294 1 116 1.44e-24 95.9
MsaG013875 MtrunA17_Chr5g0444631 66.038 53 18 0 116 168 4 56 1.65e-17 75.5
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsaG013875 AT3G20800.1 79.936 314 39 4 17 309 6 316 1.98e-178 496
MsaG013875 AT5G12980.1 75.517 290 54 3 34 311 27 311 2.16e-158 444
MsaG013875 AT2G32550.2 33.700 273 154 5 43 291 51 320 4.77e-41 145
MsaG013875 AT2G32550.3 34.263 251 140 4 63 291 34 281 1.33e-39 140
MsaG013875 AT2G32550.1 34.513 226 129 4 85 291 1 226 1.33e-34 126

Find 71 sgRNAs with CRISPR-Local

Find sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
AGGAATAGCATCCTTGTATC+AGG 0.295510 3:+62548857 None:intergenic
TGGATTTGCTTGTTGTGTTC+AGG 0.306518 3:+62547880 None:intergenic
TGCAGCCACTTCCTAGTTGT+TGG 0.322430 3:+62545660 None:intergenic
TCCCCTGTGCCTGCGCACTA+TGG 0.322674 3:-62547405 MsaT013875.1:CDS
AGAAAGTAACATTACCATTC+AGG 0.363182 3:+62548837 None:intergenic
TTCACAATGTTGGAGGGAAT+CGG 0.370583 3:-62545629 MsaT013875.1:CDS
GCAGCCACTTCCTAGTTGTT+GGG 0.391810 3:+62545661 None:intergenic
CCATTGCTATGGAATTCATT+TGG 0.401738 3:-62550327 MsaT013875.1:CDS
GATTGTGCTGGAGTGAGGTT+GGG 0.411334 3:+62549379 None:intergenic
TGATTGTGCTGGAGTGAGGT+TGG 0.420676 3:+62549378 None:intergenic
ATGAACAACTCTTCTTCATT+CGG 0.422033 3:-62553032 MsaT013875.1:CDS
TTTGTTAGACGATGTGGGCT+TGG 0.423511 3:-62546598 MsaT013875.1:CDS
GTGCCTGCGCACTATGGAGA+TGG 0.431875 3:-62547399 MsaT013875.1:CDS
CATAGAAGAAGACACGGATT+GGG 0.432929 3:+62553052 None:intergenic
GCTGTCTTCCTGACATGTTA+AGG 0.435901 3:-62546277 MsaT013875.1:CDS
CCTCCTCCACCTTGCAGTGC+AGG 0.438234 3:+62545603 None:intergenic
CACACTCGATTTGATTGTGC+TGG 0.438779 3:+62549367 None:intergenic
TACTTGAGGCTTACTAGTCT+TGG 0.443121 3:-62547846 MsaT013875.1:CDS
TCACAATGTTGGAGGGAATC+GGG 0.446766 3:-62545628 MsaT013875.1:CDS
CAAATGAATTCCATAGCAAT+GGG 0.454592 3:+62550328 None:intergenic
CAATGCTCTTGCCCTGCTCC+AGG 0.456652 3:-62549344 MsaT013875.1:intron
TACTATTGCAGCACTTCTGC+AGG 0.460816 3:-62550304 MsaT013875.1:intron
CCTCAAGTACTCAAAAGGTC+TGG 0.463934 3:+62547860 None:intergenic
TCTCCATAGTGCGCAGGCAC+AGG 0.464066 3:+62547402 None:intergenic
CTGTCTTCCTGACATGTTAA+GGG 0.464598 3:-62546276 MsaT013875.1:CDS
CCTGCACTGCAAGGTGGAGG+AGG 0.475249 3:-62545603 MsaT013875.1:CDS
TCCCGCTTCTTCCAACTCGA+TGG 0.477236 3:-62552994 MsaT013875.1:CDS
AAGATCTCGCCCCATTGCTA+TGG 0.486631 3:-62550338 MsaT013875.1:CDS
TCATAGAAGAAGACACGGAT+TGG 0.492314 3:+62553051 None:intergenic
GTAAGCCTCAAGTACTCAAA+AGG 0.495117 3:+62547855 None:intergenic
GTAGCATCCCTTAACATGTC+AGG 0.500922 3:+62546269 None:intergenic
CGCTCTTCTCGAACTCTCCA+AGG 0.503850 3:-62552919 MsaT013875.1:intron
TGCCTGCGCACTATGGAGAT+GGG 0.509168 3:-62547398 MsaT013875.1:CDS
AAACTCATCTAACCTGGAGC+AGG 0.510559 3:+62549332 None:intergenic
GTTCCTGCACTGCAAGGTGG+AGG 0.514765 3:-62545606 MsaT013875.1:CDS
CAACAACTGATTCACAATGT+TGG 0.517621 3:-62545639 MsaT013875.1:CDS
CCAAATGAATTCCATAGCAA+TGG 0.523846 3:+62550327 None:intergenic
AGCCATCGAGTTGGAAGAAG+CGG 0.531152 3:+62552992 None:intergenic
TTGGAAGAAGCGGGAGAAGG+AGG 0.534762 3:+62553002 None:intergenic
TTGCTTGTTGTGTTCAGGAA+CGG 0.537424 3:+62547885 None:intergenic
CTCCATAGTGCGCAGGCACA+GGG 0.541034 3:+62547403 None:intergenic
CTTACTAGTCTTGGTGTCAT+CGG 0.543029 3:-62547837 MsaT013875.1:CDS
GGGGAGTGAGCTCTCTAAAA+CGG 0.547334 3:-62547378 MsaT013875.1:intron
TAGCATCTCACCCTGATACA+AGG 0.553761 3:-62548868 MsaT013875.1:CDS
ACAAGGATGCTATTCCTGAA+TGG 0.556336 3:-62548851 MsaT013875.1:intron
GCCATCGAGTTGGAAGAAGC+GGG 0.561952 3:+62552993 None:intergenic
TGCTTCAACAGACGAGATGA+TGG 0.564466 3:+62546496 None:intergenic
GAGTTGGAAGAAGCGGGAGA+AGG 0.571715 3:+62552999 None:intergenic
TCCCCATCTCCATAGTGCGC+AGG 0.574764 3:+62547396 None:intergenic
AACTGATTCACAATGTTGGA+GGG 0.575243 3:-62545635 MsaT013875.1:CDS
TTCAGAAGAAGCCATCGAGT+TGG 0.578031 3:+62552983 None:intergenic
AGGTTGGGAGGAGACAAAAC+AGG 0.578541 3:+62549394 None:intergenic
CAACTGATTCACAATGTTGG+AGG 0.581651 3:-62545636 MsaT013875.1:CDS
TTCAGGAGGACCCAACAACT+AGG 0.584464 3:-62545671 MsaT013875.1:intron
AGGACCCAACAACTAGGAAG+TGG 0.596471 3:-62545665 MsaT013875.1:CDS
ATAGAAGAAGACACGGATTG+GGG 0.603072 3:+62553053 None:intergenic
AATCGGGTTCCTGCACTGCA+AGG 0.603945 3:-62545612 MsaT013875.1:CDS
TGTGCTGGAGTGAGGTTGGG+AGG 0.609651 3:+62549382 None:intergenic
GATTTGATTGTGCTGGAGTG+AGG 0.624347 3:+62549374 None:intergenic
AACTCATCTAACCTGGAGCA+GGG 0.624665 3:+62549333 None:intergenic
GGAATAGCATCCTTGTATCA+GGG 0.625986 3:+62548858 None:intergenic
TTCGTCTGTCAGATAACCCG+AGG 0.629082 3:-62546456 MsaT013875.1:intron
TGTCATCGGTGCACTAGTGA+AGG 0.630356 3:-62547823 MsaT013875.1:intron
GCCTGCGCACTATGGAGATG+GGG 0.643265 3:-62547397 MsaT013875.1:CDS
CGGGTTCCTGCACTGCAAGG+TGG 0.654150 3:-62545609 MsaT013875.1:CDS
TCCATAGTGCGCAGGCACAG+GGG 0.677780 3:+62547404 None:intergenic
TCACCAGGTTGATGATACTG+AGG 0.679946 3:-62547459 MsaT013875.1:intron
GTTGTTCATAGAAGAAGACA+CGG 0.685278 3:+62553046 None:intergenic
TAGAAGAAGACACGGATTGG+GGG 0.694498 3:+62553054 None:intergenic
AGGAACGGATACAAATACAG+AGG 0.734864 3:+62547900 None:intergenic
AAATGAATTCCATAGCAATG+GGG 0.758849 3:+62550329 None:intergenic

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
Chromosome Type Strat End Strand Name
Chr3 gene 62545578 62553108 62545578 ID=MsaG013875
Chr3 mRNA 62545578 62553108 62545578 ID=MsaT013875.1;Parent=MsaG013875
Chr3 exon 62545578 62545688 62545578 ID=MsaT013875.1.exon10;Parent=MsaT013875.1
Chr3 CDS 62545578 62545688 62545578 ID=cds.MsaT013875.1;Parent=MsaT013875.1
Chr3 exon 62546250 62546319 62546250 ID=MsaT013875.1.exon9;Parent=MsaT013875.1
Chr3 CDS 62546250 62546319 62546250 ID=cds.MsaT013875.1;Parent=MsaT013875.1
Chr3 exon 62546457 62546521 62546457 ID=MsaT013875.1.exon8;Parent=MsaT013875.1
Chr3 CDS 62546457 62546521 62546457 ID=cds.MsaT013875.1;Parent=MsaT013875.1
Chr3 exon 62546554 62546646 62546554 ID=MsaT013875.1.exon7;Parent=MsaT013875.1
Chr3 CDS 62546554 62546646 62546554 ID=cds.MsaT013875.1;Parent=MsaT013875.1
Chr3 exon 62547379 62547474 62547379 ID=MsaT013875.1.exon6;Parent=MsaT013875.1
Chr3 CDS 62547379 62547474 62547379 ID=cds.MsaT013875.1;Parent=MsaT013875.1
Chr3 exon 62547824 62547930 62547824 ID=MsaT013875.1.exon5;Parent=MsaT013875.1
Chr3 CDS 62547824 62547930 62547824 ID=cds.MsaT013875.1;Parent=MsaT013875.1
Chr3 exon 62548852 62548894 62548852 ID=MsaT013875.1.exon4;Parent=MsaT013875.1
Chr3 CDS 62548852 62548894 62548852 ID=cds.MsaT013875.1;Parent=MsaT013875.1
Chr3 exon 62549345 62549434 62549345 ID=MsaT013875.1.exon3;Parent=MsaT013875.1
Chr3 CDS 62549345 62549434 62549345 ID=cds.MsaT013875.1;Parent=MsaT013875.1
Chr3 exon 62550305 62550376 62550305 ID=MsaT013875.1.exon2;Parent=MsaT013875.1
Chr3 CDS 62550305 62550376 62550305 ID=cds.MsaT013875.1;Parent=MsaT013875.1
Chr3 exon 62552920 62553108 62552920 ID=MsaT013875.1.exon1;Parent=MsaT013875.1
Chr3 CDS 62552920 62553108 62552920 ID=cds.MsaT013875.1;Parent=MsaT013875.1
Gene Sequence

>MsaT013875.1

ATGTCTACATCACTAGCCACATGTGAAAATTGCCCCCAATCCGTGTCTTCTTCTATGAACAACTCTTCTTCATTCGGTTCTGTTCCTCCTTCTCCCGCTTCTTCCAACTCGATGGCTTCTTCTGAACAACTCGTTCTCGAACTCAGCAATCCCGAACTCCGTGAAAACGCTCTTCTCGAACTCTCCAAGAAGAGGGAGCAATTTCAAGATCTCGCCCCATTGCTATGGAATTCATTTGGTACTATTGCAGCACTTCTGCAGGAAATTGTTTCAATATATCCTGTTTTGTCTCCTCCCAACCTCACTCCAGCACAATCAAATCGAGTGTGCAATGCTCTTGCCCTGCTCCAGTGTGTAGCATCTCACCCTGATACAAGGATGCTATTCCTGAATGCGCACATTCCTCTGTATTTGTATCCGTTCCTGAACACAACAAGCAAATCCAGACCTTTTGAGTACTTGAGGCTTACTAGTCTTGGTGTCATCGGTGCACTAGTGAAGGTTGATGATACTGAGGTTATTAGTTTTCTGCTTTCGACTGAAATAATTCCCCTGTGCCTGCGCACTATGGAGATGGGGAGTGAGCTCTCTAAAACGGTTGCAACATTTATTGTTCAAAAGATTTTGTTAGACGATGTGGGCTTGGACTATATTTGTACTACAGCTGAGCGCTTTTTCGCTGTTGGTCGACAACCATCATCTCGTCTGTTGAAGCATATCATTCGATGCTATCTTCGTCTGTCAGATAACCCGAGGGCTTGTGATGCATTAAGAAGCTGTCTTCCTGACATGTTAAGGGATGCTACATTCAGCAGCTGCCTTCGTGAGGACCCAACAACTAGGAAGTGGCTGCAACAACTGATTCACAATGTTGGAGGGAATCGGGTTCCTGCACTGCAAGGTGGAGGAGGTTTTGATCATCTAATGGTGAATTGA
Protein sequence

>MsaT013875.1

MSTSLATCENCPQSVSSSMNNSSSFGSVPPSPASSNSMASSEQLVLELSNPELRENALLELSKKREQFQDLAPLLWNSFGTIAALLQEIVSIYPVLSPPNLTPAQSNRVCNALALLQCVASHPDTRMLFLNAHIPLYLYPFLNTTSKSRPFEYLRLTSLGVIGALVKVDDTEVISFLLSTEIIPLCLRTMEMGSELSKTVATFIVQKILLDDVGLDYICTTAERFFAVGRQPSSRLLKHIIRCYLRLSDNPRACDALRSCLPDMLRDATFSSCLREDPTTRKWLQQLIHNVGGNRVPALQGGGGFDHLMVN*