AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa ssp. caerulea / MsaG010304

Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsaG010304 MtrunA17_Chr2g0322871 94.248 452 22 2 1 448 1 452 0.0 871
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsaG010304 AT3G21820.1 64.155 438 141 6 13 448 12 435 0.0 556

Find 115 sgRNAs with CRISPR-Local

Find sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
GTATTCTCCCTTGAAATTTA+TGG 0.067754 2:-71585807 MsaT010304.1:CDS
TAGCATGTTTCACGAATTTA+AGG 0.173479 2:+71587224 None:intergenic
AACAAAATTCTAACCTTATC+TGG 0.186766 2:+71585500 None:intergenic
CCTACCAATTTGAATTTCTA+TGG 0.203278 2:+71588296 None:intergenic
GGCTTTACTTGGAAGAATTA+AGG 0.220553 2:-71588272 MsaT010304.1:CDS
TAACTTGTGGTACCTTAATA+TGG 0.256381 2:+71586463 None:intergenic
TCATTTCTTCTACCATATTA+AGG 0.274998 2:-71586475 MsaT010304.1:CDS
CTATAATATATCTCTTCTTT+TGG 0.279823 2:-71586384 MsaT010304.1:CDS
TTGGCACAAGGAGAGATAAT+AGG 0.307934 2:+71588900 None:intergenic
CTTCCGATGACGCGTCATTC+AGG 0.330835 2:-71586077 MsaT010304.1:CDS
AGTACTTGGCAATGTGGTTC+TGG 0.334780 2:-71588171 MsaT010304.1:CDS
GAAATTTATGGACATATCAT+TGG 0.368581 2:-71585795 MsaT010304.1:CDS
GGGTAGAGGAACTTTAGTTT+TGG 0.369192 2:+71588143 None:intergenic
GGTTCCATAGAAATTCAAAT+TGG 0.384219 2:-71588300 MsaT010304.1:CDS
TCACCTAGAGCATCTAGAAT+TGG 0.391161 2:+71585387 None:intergenic
GCTTTACTTGGAAGAATTAA+GGG 0.393075 2:-71588271 MsaT010304.1:CDS
TCCCATTCTTTACTCTGTAC+TGG 0.399911 2:-71587280 MsaT010304.1:CDS
TCCTTTGAATATAGATGTCT+TGG 0.403057 2:+71573569 None:intergenic
CAGAGTAAGGCAATCTGAAT+TGG 0.403334 2:+71588091 None:intergenic
CTCAAGGACCAAATGCTTGT+TGG 0.404124 2:-71588454 MsaT010304.1:CDS
AATTGGTAGGAGGCTTTACT+TGG 0.404200 2:-71588283 MsaT010304.1:CDS
GTTGATTCCCAACAAGCATT+TGG 0.405040 2:+71588446 None:intergenic
GGAGAGATAATAGGGCAAAT+TGG 0.407421 2:+71588909 None:intergenic
CAACGATTCCACAACACCTT+CGG 0.414366 2:+71588122 None:intergenic
TCAAGGACCAAATGCTTGTT+GGG 0.415492 2:-71588453 MsaT010304.1:CDS
ATTATAGTGGTCTGAAACAC+AGG 0.419773 2:+71586400 None:intergenic
TCCTTCACCTCACCAACTTC+AGG 0.424197 2:-71588853 MsaT010304.1:intron
TCATATTTCTCTTTCTCTGC+AGG 0.424740 2:+71586428 None:intergenic
AAGAAGAGAAGAGATTTCAT+TGG 0.427487 2:+71588881 None:intergenic
AATTAAAGAGTTGGCATTTG+AGG 0.440320 2:-71586049 MsaT010304.1:intron
TTTAGGTGTGTATGCTGTAA+AGG 0.445469 2:-71588500 MsaT010304.1:intron
TGGCACAAGGAGAGATAATA+GGG 0.449200 2:+71588901 None:intergenic
TGTCATGTGCAGAGGCTGAT+TGG 0.451283 2:-71587309 MsaT010304.1:CDS
AGGAGTGCCTCCCTGCGTCT+TGG 0.454838 2:+71587244 None:intergenic
GTCATGTGCAGAGGCTGATT+GGG 0.454884 2:-71587308 MsaT010304.1:CDS
CTGATGAAGAGGAGAGTACT+TGG 0.457495 2:-71588185 MsaT010304.1:CDS
TTGATTACATTACCTGAAGT+TGG 0.460100 2:+71588841 None:intergenic
ATATTGCTGTCTTAAGAAGT+TGG 0.461995 2:+71585946 None:intergenic
AAAGAGAACTTCTCAGAGTA+AGG 0.467617 2:+71588078 None:intergenic
AACGATTCCACAACACCTTC+GGG 0.468148 2:+71588123 None:intergenic
CAGGATGCAAATTAAAGAGT+TGG 0.472781 2:-71586058 MsaT010304.1:CDS
TAGCATTAGGACAACATGAA+TGG 0.475883 2:+71580931 None:intergenic
GGGCAAATTGGTGGTTCCAT+TGG 0.477492 2:+71588921 None:intergenic
AAATTCGTGAAACATGCTAA+TGG 0.479165 2:-71587220 MsaT010304.1:intron
AACCTCTTCTCCTTTACTGA+TGG 0.484340 2:+71578368 None:intergenic
AACCTCTTCTCCTTTACTGA+TGG 0.484340 2:+71580562 None:intergenic
TGATATGTCCATAAATTTCA+AGG 0.485450 2:+71585799 None:intergenic
CATGATGACCAACTTGGAAA+AGG 0.493356 2:-71588688 MsaT010304.1:intron
GTCAAACATGATGACCAACT+TGG 0.495473 2:-71588694 MsaT010304.1:CDS
ATCACAATCATGACTCTCAT+TGG 0.496347 2:+71588248 None:intergenic
CATCCTGAATGACGCGTCAT+CGG 0.499769 2:+71586074 None:intergenic
CCTTTGAATATAGATGTCTT+GGG 0.500944 2:+71573570 None:intergenic
AGCTTGGAGACCTATATCAA+TGG 0.502175 2:-71586360 MsaT010304.1:CDS
GCTTGGAGACCTATATCAAT+GGG 0.505745 2:-71586359 MsaT010304.1:CDS
GACATCTATATTCAAAGGAT+CGG 0.510958 2:-71573565 MsaT010304.1:CDS
TCGGAAGAATCAATATCATC+TGG 0.512871 2:+71586093 None:intergenic
ACCTGAAGTTGGTGAGGTGA+AGG 0.512974 2:+71588852 None:intergenic
GAGAGTCATGATTGTGATGT+AGG 0.518145 2:-71588243 MsaT010304.1:CDS
ACCAGTACAGAGTAAAGAAT+GGG 0.520722 2:+71587279 None:intergenic
GTTCCATGCCATGGTGGATG+TGG 0.522113 2:-71588045 MsaT010304.1:CDS
CACCAGTACAGAGTAAAGAA+TGG 0.523065 2:+71587278 None:intergenic
TCCTCTACCCGAAGGTGTTG+TGG 0.524481 2:-71588130 MsaT010304.1:CDS
TCAGTGCAATAATTATTGCT+TGG 0.527075 2:+71578394 None:intergenic
GGTTGTTGCTTCTCCTGTGG+AGG 0.529227 2:-71585555 MsaT010304.1:CDS
TAGAAATTCAAATTGGTAGG+AGG 0.529619 2:-71588293 MsaT010304.1:CDS
TCCACAACACCTTCGGGTAG+AGG 0.530636 2:+71588129 None:intergenic
GCAGTGCAATAATTATTGCT+TGG 0.533837 2:+71580588 None:intergenic
CCTCAAGCTGTTCCATGCCA+TGG 0.534187 2:-71588054 MsaT010304.1:CDS
TTTGGTTGTTGCTTCTCCTG+TGG 0.539607 2:-71585558 MsaT010304.1:CDS
CAACCAATTCTAGATGCTCT+AGG 0.542256 2:-71585390 MsaT010304.1:CDS
GTCCATCAGTAAAGGAGAAG+AGG 0.555524 2:-71578370 MsaT010304.1:intron
CCATGGCATGGAACAGCTTG+AGG 0.556615 2:+71588054 None:intergenic
GACTATTCTACTTGTTGCGA+AGG 0.556978 2:-71585363 MsaT010304.1:intron
CCCAAGACATCTATATTCAA+AGG 0.560215 2:-71573570 MsaT010304.1:CDS
AGAGGATCAACTTGTTCTCA+AGG 0.562698 2:-71588470 MsaT010304.1:CDS
GAGGTCGAAAGCATCATCAC+AGG 0.568061 2:+71573541 None:intergenic
AAAGAAGAGATATATTATAG+TGG 0.568749 2:+71586387 None:intergenic
TGATATGTCGAATCCAGATA+AGG 0.572546 2:-71585513 MsaT010304.1:intron
GTGGAGAAGCTAACTACTGC+AGG 0.575778 2:-71588026 MsaT010304.1:intron
TATATTCCTCCTTGCTGCAA+AGG 0.577155 2:-71587079 MsaT010304.1:intron
AATGGATTCATCTGATGAAG+AGG 0.579769 2:-71588196 MsaT010304.1:CDS
CCATAGAAATTCAAATTGGT+AGG 0.580291 2:-71588296 MsaT010304.1:CDS
GCACTGAGGTCCATCAGTAA+AGG 0.583080 2:-71578378 MsaT010304.1:CDS
GCACTGCGGTCCATCAGTAA+AGG 0.583080 2:-71580572 MsaT010304.1:CDS
TGGTTCAAACAGCTTTGCAA+AGG 0.585606 2:+71580951 None:intergenic
GATATGTCCATAAATTTCAA+GGG 0.590090 2:+71585800 None:intergenic
TCTCCACATCCACCATGGCA+TGG 0.590484 2:+71588042 None:intergenic
GTCCATCAGTAAAGGAGAAG+AGG 0.601601 2:-71580564 MsaT010304.1:intron
TGAAGTTGGTGAGGTGAAGG+AGG 0.605547 2:+71588855 None:intergenic
AGAGTTCTGATCCAAGACGC+AGG 0.612606 2:-71587255 MsaT010304.1:CDS
GTTGTGGAATCGTTGATGAA+TGG 0.612754 2:-71588114 MsaT010304.1:CDS
CTTTGCATGCAGGATAGAGA+TGG 0.614349 2:-71578417 MsaT010304.1:intron
CTTTGCATGCAGGATAGAGA+TGG 0.614349 2:-71580611 MsaT010304.1:intron
GAAACTCTACCTTTGCAGCA+AGG 0.615703 2:+71587070 None:intergenic
TCAAAGTGTCTGTAGGTGGT+GGG 0.622876 2:-71586127 MsaT010304.1:intron
GAATCAACACTCTTTCAACA+AGG 0.626409 2:-71588431 MsaT010304.1:intron
GAGATAATAGGGCAAATTGG+TGG 0.635124 2:+71588912 None:intergenic
TGCTGTAAAGGACTTCAAAG+AGG 0.636104 2:-71588488 MsaT010304.1:CDS
TAAGACAGCAATATTTGACA+AGG 0.637239 2:-71585937 MsaT010304.1:CDS
GAAGAGATTTCATTGGCACA+AGG 0.637905 2:+71588888 None:intergenic
GAGGAGAGTACTTGGCAATG+TGG 0.638765 2:-71588177 MsaT010304.1:CDS
CAAGCTGTTCCATGCCATGG+TGG 0.645326 2:-71588051 MsaT010304.1:CDS
TACATTACCTGAAGTTGGTG+AGG 0.645717 2:+71588846 None:intergenic
GAGTTCTGATCCAAGACGCA+GGG 0.650140 2:-71587254 MsaT010304.1:CDS
AGGTCGAAAGCATCATCACA+GGG 0.667386 2:+71573542 None:intergenic
ACTAAAGTTCCTCTACCCGA+AGG 0.681829 2:-71588138 MsaT010304.1:CDS
AGTACAGAGTAAAGAATGGG+AGG 0.682996 2:+71587282 None:intergenic
GTCTTGGGTGAATCATGAGA+TGG 0.685534 2:+71573585 None:intergenic
TTCTGATCCAAGACGCAGGG+AGG 0.689681 2:-71587251 MsaT010304.1:CDS
TAGCTTCTCCACATCCACCA+TGG 0.691170 2:+71588037 None:intergenic
TTGTAGCATGTCATGTGCAG+AGG 0.693250 2:-71587317 MsaT010304.1:intron
ACTCTACCTTTGCAGCAAGG+AGG 0.701447 2:+71587073 None:intergenic
TAAAGCTTTCAAAAGAGACG+AGG 0.709737 2:-71580910 MsaT010304.1:intron
AAGCAATAATTATTGCACTG+AGG 0.745949 2:-71578392 MsaT010304.1:CDS
AAGCAATAATTATTGCACTG+CGG 0.787000 2:-71580586 MsaT010304.1:CDS

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
Chromosome Type Strat End Strand Name
Chr2 gene 71573538 71588940 71573538 ID=MsaG010304
Chr2 mRNA 71573538 71588940 71573538 ID=MsaT010304.1;Parent=MsaG010304
Chr2 exon 71573538 71573612 71573538 ID=MsaT010304.1.exon16;Parent=MsaT010304.1
Chr2 CDS 71573538 71573612 71573538 ID=cds.MsaT010304.1;Parent=MsaT010304.1
Chr2 exon 71578371 71578427 71578371 ID=MsaT010304.1.exon15;Parent=MsaT010304.1
Chr2 CDS 71578371 71578427 71578371 ID=cds.MsaT010304.1;Parent=MsaT010304.1
Chr2 exon 71580565 71580621 71580565 ID=MsaT010304.1.exon14;Parent=MsaT010304.1
Chr2 CDS 71580565 71580621 71580565 ID=cds.MsaT010304.1;Parent=MsaT010304.1
Chr2 exon 71580911 71580987 71580911 ID=MsaT010304.1.exon13;Parent=MsaT010304.1
Chr2 CDS 71580911 71580987 71580911 ID=cds.MsaT010304.1;Parent=MsaT010304.1
Chr2 exon 71585364 71585433 71585364 ID=MsaT010304.1.exon12;Parent=MsaT010304.1
Chr2 CDS 71585364 71585433 71585364 ID=cds.MsaT010304.1;Parent=MsaT010304.1
Chr2 exon 71585514 71585583 71585514 ID=MsaT010304.1.exon11;Parent=MsaT010304.1
Chr2 CDS 71585514 71585583 71585514 ID=cds.MsaT010304.1;Parent=MsaT010304.1
Chr2 exon 71585774 71585828 71585774 ID=MsaT010304.1.exon10;Parent=MsaT010304.1
Chr2 CDS 71585774 71585828 71585774 ID=cds.MsaT010304.1;Parent=MsaT010304.1
Chr2 exon 71585925 71585973 71585925 ID=MsaT010304.1.exon9;Parent=MsaT010304.1
Chr2 CDS 71585925 71585973 71585925 ID=cds.MsaT010304.1;Parent=MsaT010304.1
Chr2 exon 71586050 71586134 71586050 ID=MsaT010304.1.exon8;Parent=MsaT010304.1
Chr2 CDS 71586050 71586134 71586050 ID=cds.MsaT010304.1;Parent=MsaT010304.1
Chr2 exon 71586347 71586498 71586347 ID=MsaT010304.1.exon7;Parent=MsaT010304.1
Chr2 CDS 71586347 71586498 71586347 ID=cds.MsaT010304.1;Parent=MsaT010304.1
Chr2 exon 71587080 71587111 71587080 ID=MsaT010304.1.exon6;Parent=MsaT010304.1
Chr2 CDS 71587080 71587111 71587080 ID=cds.MsaT010304.1;Parent=MsaT010304.1
Chr2 exon 71587221 71587333 71587221 ID=MsaT010304.1.exon5;Parent=MsaT010304.1
Chr2 CDS 71587221 71587333 71587221 ID=cds.MsaT010304.1;Parent=MsaT010304.1
Chr2 exon 71588027 71588361 71588027 ID=MsaT010304.1.exon4;Parent=MsaT010304.1
Chr2 CDS 71588027 71588361 71588027 ID=cds.MsaT010304.1;Parent=MsaT010304.1
Chr2 exon 71588432 71588517 71588432 ID=MsaT010304.1.exon3;Parent=MsaT010304.1
Chr2 CDS 71588432 71588517 71588432 ID=cds.MsaT010304.1;Parent=MsaT010304.1
Chr2 exon 71588689 71588764 71588689 ID=MsaT010304.1.exon2;Parent=MsaT010304.1
Chr2 CDS 71588689 71588764 71588689 ID=cds.MsaT010304.1;Parent=MsaT010304.1
Chr2 exon 71588854 71588940 71588854 ID=MsaT010304.1.exon1;Parent=MsaT010304.1
Chr2 CDS 71588854 71588940 71588854 ID=cds.MsaT010304.1;Parent=MsaT010304.1
Gene Sequence

>MsaT010304.1

ATGGAACCACCAATTTGCCCTATTATCTCTCCTTGTGCCAATGAAATCTCTTCTCTTCTTTCTCCTCCTTCACCTCACCAACTTCAGGAATATTATCAAAACATTTTCTCTTCAAGGCACTGCAATGACATCACTGTCAAACATGATGACCAACTTGGAAAAGGTGTGTATGCTGTAAAGGACTTCAAAGAGGATCAACTTGTTCTCAAGGACCAAATGCTTGTTGGGAATCAACACTCTTTCAACAAGATTGATTGTTTTGTCTGTAGCTTCTGCTTTCGTTTTATTGGTTCCATAGAAATTCAAATTGGTAGGAGGCTTTACTTGGAAGAATTAAGGGCCAATGAGAGTCATGATTGTGATGTAGGAAGCTCTTCGAAAAACTGTCATGAAATGGATTCATCTGATGAAGAGGAGAGTACTTGGCAATGTGGTTCTGGAAGTTCCAAAACTAAAGTTCCTCTACCCGAAGGTGTTGTGGAATCGTTGATGAATGGCCAATTCAGATTGCCTTACTCTGAGAAGTTCTCTTTGCCTCAAGCTGTTCCATGCCATGGTGGATGTGGAGAAGCTAACTACTGCAGCATGTCATGTGCAGAGGCTGATTGGGAGTCCTCCCATTCTTTACTCTGTACTGGTGAGAGTTCTGATCCAAGACGCAGGGAGGCACTCCTTAAATTCGTGAAACATGCTAATGAAACAAATGATATATTCCTCCTTGCTGCAAAGGTCATTTCTTCTACCATATTAAGGTACCACAAGTTAAAAGCAAATTGTCCTGCAGAGAAAGAGAAATATGATGCATCCTGTGTTTCAGACCACTATAATATATCTCTTCTTTTGGAAGCTTGGAGACCTATATCAATGGGATACAAAAAAAGGTGGTGGGACTGCGCACTACCAGATGATATTGATTCTTCCGATGACGCGTCATTCAGGATGCAAATTAAAGAGTTGGCATTTGAGTCTCTCCAACTTCTTAAGACAGCAATATTTGACAAGGAATGTGAGCCATTATTCTCCCTTGAAATTTATGGACATATCATTGGCATGTTTGAGCTGAATAATCTTGATTTGGTTGTTGCTTCTCCTGTGGAGGATTACTTTTTATACATCAATGATATGTCGAATCCAGATAAGAAAGAAGCTGAGAAAATTACACAACCAATTCTAGATGCTCTAGGTGAAGACTATTCTACTTGTTGCGAAGGAACTGCATTTTTTCCTTTGCAAAGCTGTTTGAACCATTCATGTTGTCCTAATGCTAAAGCTTTCAAAAGAGACGAGGATAGAGATGGCCAAGCAATAATTATTGCACTGCGGTCCATCAGTAAAGGAGAAGAGGATAGAGATGGCCAAGCAATAATTATTGCACTGAGGTCCATCAGTAAAGGAGAAGAGGAGCACCATCTCATGATTCACCCAAGACATCTATATTCAAAGGATCGGCCCTGTGATGATGCTTTCGACCTCTAA
Protein sequence

>MsaT010304.1

MEPPICPIISPCANEISSLLSPPSPHQLQEYYQNIFSSRHCNDITVKHDDQLGKGVYAVKDFKEDQLVLKDQMLVGNQHSFNKIDCFVCSFCFRFIGSIEIQIGRRLYLEELRANESHDCDVGSSSKNCHEMDSSDEEESTWQCGSGSSKTKVPLPEGVVESLMNGQFRLPYSEKFSLPQAVPCHGGCGEANYCSMSCAEADWESSHSLLCTGESSDPRRREALLKFVKHANETNDIFLLAAKVISSTILRYHKLKANCPAEKEKYDASCVSDHYNISLLLEAWRPISMGYKKRWWDCALPDDIDSSDDASFRMQIKELAFESLQLLKTAIFDKECEPLFSLEIYGHIIGMFELNNLDLVVASPVEDYFLYINDMSNPDKKEAEKITQPILDALGEDYSTCCEGTAFFPLQSCLNHSCCPNAKAFKRDEDRDGQAIIIALRSISKGEEDRDGQAIIIALRSISKGEEEHHLMIHPRHLYSKDRPCDDAFDL*