AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa ssp. caerulea / MsaG005682

Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsaG005682 MtrunA17_Chr1g0211061 87.654 324 26 5 1 318 1 316 0.0 511
MsaG005682 MtrunA17_Chr7g0221451 70.115 348 68 8 1 318 1 342 1.27e-149 424
MsaG005682 MtrunA17_Chr8g0385751 33.613 357 173 10 10 318 21 361 3.57e-48 165
MsaG005682 MtrunA17_Chr1g0199044 29.605 152 67 5 43 154 56 207 2.09e-12 67.4
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsaG005682 AT2G33550.1 45.732 328 126 12 16 318 14 314 2.19e-75 234
MsaG005682 AT4G31270.1 31.250 112 71 2 43 154 19 124 3.82e-13 69.3
MsaG005682 AT2G35640.1 32.824 131 71 5 43 160 22 148 1.23e-11 65.1

Find 91 sgRNAs with CRISPR-Local

Find sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
TCAATTCCGTCATCGGAATT+AGG 0.129660 1:-84208054 None:intergenic
CCAACTGTAATCTCTTGTTC+TGG 0.278506 1:-84208863 None:intergenic
CAATTCCGTCATCGGAATTA+GGG 0.284671 1:-84208053 None:intergenic
TTCATATTTATGATAGTAAT+AGG 0.301580 1:+84208547 MsaT005682.1:CDS
GTGGACTAGGCAGGAGATTC+TGG 0.308965 1:+84208146 MsaT005682.1:CDS
TTGCAGTTTGATTCTGTTGC+TGG 0.313975 1:-84208890 None:intergenic
TCCGATGACGGAATTGATAA+TGG 0.339364 1:+84208060 MsaT005682.1:CDS
TCTTTCTCCTTCTAGATTTG+AGG 0.339729 1:-84208730 None:intergenic
GGTCGAAACGGTTCCTTGTT+TGG 0.351084 1:+84208213 MsaT005682.1:CDS
GAATCAAACTGCAAGTAATA+TGG 0.352089 1:+84208899 MsaT005682.1:CDS
GGTGGCTGCAACGGCTGTTC+CGG 0.353509 1:+84208479 MsaT005682.1:CDS
CGCAGATTACAAGAAGATTA+AGG 0.365457 1:+84208335 MsaT005682.1:CDS
GATTAAGGAGTGGGAGTCTC+AGG 0.378865 1:+84208350 MsaT005682.1:CDS
CACATCTTCGCCATCATTCA+CGG 0.396485 1:-84208100 None:intergenic
GATAAGCTTGCAAATGCTCT+TGG 0.406542 1:+84208933 MsaT005682.1:CDS
CAACTGTAATCTCTTGTTCT+GGG 0.411973 1:-84208862 None:intergenic
CTCGAGCATTGCCTTCTCCT+TGG 0.418681 1:-84208683 None:intergenic
CGTTTCGACCTGGTTTCAAC+CGG 0.422688 1:-84208200 None:intergenic
TGCTTCTCTGAGACTGAGAT+TGG 0.427099 1:-84208636 None:intergenic
GTGATGAAAGGGAGTCGTTT+TGG 0.430091 1:+84208376 MsaT005682.1:CDS
TCCGGTGGCTGTGGCTGCAC+CGG 0.437897 1:+84208497 MsaT005682.1:CDS
CAACAAGCCTCAAATCTAGA+AGG 0.443939 1:+84208723 MsaT005682.1:CDS
TCACCAACCACCTCTGAAAC+CGG 0.447629 1:-84208516 None:intergenic
CGATTCAGTGTAAGAAGCGA+TGG 0.458477 1:+84208301 MsaT005682.1:CDS
TCTGAGACTGAGATTGGAAC+AGG 0.459059 1:-84208630 None:intergenic
ATAAGCTTGCAAATGCTCTT+GGG 0.460039 1:+84208934 MsaT005682.1:CDS
TCCATTATCAATTCCGTCAT+CGG 0.473675 1:-84208061 None:intergenic
TCTTACACTGAATCGGTGTC+CGG 0.476690 1:-84208293 None:intergenic
CATCGCTTCTTACACTGAAT+CGG 0.477582 1:-84208300 None:intergenic
CCACTCCTCAGTGGCTTCCA+AGG 0.481478 1:+84208666 MsaT005682.1:CDS
AACGGCTGTTCCGGTGGCTG+TGG 0.485143 1:+84208488 MsaT005682.1:CDS
CCGTCATCCGCCGTGAATGA+TGG 0.495613 1:+84208090 MsaT005682.1:CDS
GGCGAAGATGTGAAACCAAC+GGG 0.499148 1:+84208111 MsaT005682.1:CDS
GAGATTCTGGTGCTAGTACA+TGG 0.500266 1:+84208159 MsaT005682.1:CDS
ACCGGTGCAGCCACAGCCAC+CGG 0.509504 1:-84208498 None:intergenic
TTCAGAGGTGGTTGGTGATG+AGG 0.515224 1:+84208521 MsaT005682.1:CDS
CTTCTCAAACGAACCAAACA+AGG 0.517996 1:-84208226 None:intergenic
GTCTCAGGTGAGTGATGAAA+GGG 0.520228 1:+84208365 MsaT005682.1:CDS
GGCTGCAACGGCTGTTCCGG+TGG 0.520416 1:+84208482 MsaT005682.1:CDS
CTCAGTGGCTTCCAAGGAGA+AGG 0.523796 1:+84208672 MsaT005682.1:CDS
GGTTAGAACGTAACGAGGGT+TGG 0.525104 1:-84208032 None:intergenic
CACCGTTGTAACCTTCCCGT+TGG 0.525108 1:-84208126 None:intergenic
ACGTTGAGTTGAGGAGAGAG+AGG 0.528535 1:+84208406 MsaT005682.1:CDS
GTGAGAAACATGGTGTGAAC+CGG 0.529962 1:+84208274 MsaT005682.1:CDS
GAAGGTTACAACGGTGGACT+AGG 0.530482 1:+84208133 MsaT005682.1:CDS
CCATCATTCACGGCGGATGA+CGG 0.532480 1:-84208090 None:intergenic
GTTACAACGGTGGACTAGGC+AGG 0.534691 1:+84208137 MsaT005682.1:CDS
AGAGGTGGTTGGTGATGAGG+AGG 0.536029 1:+84208524 MsaT005682.1:CDS
AGGAGAGAGAGGAAATTGCC+TGG 0.537062 1:+84208417 MsaT005682.1:CDS
TGATTCAGCGGTGGCTGCAA+CGG 0.542719 1:+84208470 MsaT005682.1:CDS
GCACCGGTTTCAGAGGTGGT+TGG 0.543134 1:+84208513 MsaT005682.1:CDS
AAGGAGAAAGAAAGAGGAAG+CGG 0.544131 1:+84208742 MsaT005682.1:CDS
ATCTAGAAGGAGAAAGAAAG+AGG 0.547355 1:+84208736 MsaT005682.1:CDS
TTGGTTCGTTTGAGAAGAAG+TGG 0.552340 1:+84208232 MsaT005682.1:CDS
AGTCTCAGGTGAGTGATGAA+AGG 0.552467 1:+84208364 MsaT005682.1:CDS
CGGTTGAAACCAGGTCGAAA+CGG 0.555133 1:+84208201 MsaT005682.1:CDS
CTTCTCCTTGGAAGCCACTG+AGG 0.555485 1:-84208671 None:intergenic
GAAAGAACGATGCTGAAAGC+CGG 0.556340 1:+84208181 MsaT005682.1:CDS
AACAAGGAACCGTTTCGACC+TGG 0.557484 1:-84208210 None:intergenic
TTACAAGAAGATTAAGGAGT+GGG 0.557499 1:+84208341 MsaT005682.1:CDS
AGGAAGCGGTTTGCAACAGA+AGG 0.571454 1:+84208756 MsaT005682.1:CDS
GCTGAAAGCCGGTTGAAACC+AGG 0.575628 1:+84208192 MsaT005682.1:CDS
GATTCAGTGTAAGAAGCGAT+GGG 0.580190 1:+84208302 MsaT005682.1:CDS
GGCTGCACCGGTTTCAGAGG+TGG 0.581806 1:+84208509 MsaT005682.1:CDS
CCTTGGAAGCCACTGAGGAG+TGG 0.583205 1:-84208666 None:intergenic
TGTGGCTGCACCGGTTTCAG+AGG 0.592183 1:+84208506 MsaT005682.1:CDS
CTTAATCTTCTTGTAATCTG+CGG 0.598671 1:-84208334 None:intergenic
TTATAATATTCTTGATTCAG+CGG 0.602422 1:+84208458 MsaT005682.1:CDS
CCAGAACAAGAGATTACAGT+TGG 0.612831 1:+84208863 MsaT005682.1:CDS
GATGCTATGTGAACAGCTAG+AGG 0.617201 1:+84208839 MsaT005682.1:CDS
CAGTGTGTTCCACTCCTCAG+TGG 0.621372 1:+84208657 MsaT005682.1:CDS
TCTTCGTACTGTGAGAAACA+TGG 0.622882 1:+84208264 MsaT005682.1:CDS
AACAGAAGGCAATGAAGAGG+AGG 0.623007 1:+84208770 MsaT005682.1:CDS
TGGCGAAGATGTGAAACCAA+CGG 0.623950 1:+84208110 MsaT005682.1:CDS
TCTAACCCTAATTCCGATGA+CGG 0.628696 1:+84208048 MsaT005682.1:CDS
GTTTGAGAAGAAGTGGACGT+TGG 0.629824 1:+84208239 MsaT005682.1:CDS
TAATATTCTTGATTCAGCGG+TGG 0.634646 1:+84208461 MsaT005682.1:CDS
TGCAACAGAAGGCAATGAAG+AGG 0.638315 1:+84208767 MsaT005682.1:CDS
ATTACAAGAAGATTAAGGAG+TGG 0.640078 1:+84208340 MsaT005682.1:CDS
CAAGGAGAAGGCAATGCTCG+AGG 0.643488 1:+84208684 MsaT005682.1:CDS
TCATTCACGGCGGATGACGG+TGG 0.658142 1:-84208087 None:intergenic
GGTTGATGAACGTTGAGTTG+AGG 0.661503 1:+84208397 MsaT005682.1:CDS
ACCTCCCAATCAAAACAACC+AGG 0.662249 1:-84208435 None:intergenic
ATTAGGGTTAGAACGTAACG+AGG 0.673798 1:-84208037 None:intergenic
AAGATGTGAAACCAACGGGA+AGG 0.680756 1:+84208115 MsaT005682.1:CDS
CAACGGGAAGGTTACAACGG+TGG 0.688026 1:+84208127 MsaT005682.1:CDS
GATAGTAATAGGAAAGTGAG+CGG 0.698735 1:+84208558 MsaT005682.1:CDS
AACCAACGGGAAGGTTACAA+CGG 0.725397 1:+84208124 MsaT005682.1:CDS
ATTCAGTGTAAGAAGCGATG+GGG 0.726554 1:+84208303 MsaT005682.1:CDS
TTAGGGTTAGAACGTAACGA+GGG 0.750121 1:-84208036 None:intergenic
ATCTTCGCCATCATTCACGG+CGG 0.776820 1:-84208097 None:intergenic

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
Chromosome Type Strat End Strand Name
Chr1 gene 84208021 84208977 84208021 ID=MsaG005682
Chr1 mRNA 84208021 84208977 84208021 ID=MsaT005682.1;Parent=MsaG005682
Chr1 exon 84208021 84208977 84208021 ID=MsaT005682.1.exon1;Parent=MsaT005682.1
Chr1 CDS 84208021 84208977 84208021 ID=cds.MsaT005682.1;Parent=MsaT005682.1
Gene Sequence

>MsaT005682.1

ATGGATTTCGACCAACCCTCGTTACGTTCTAACCCTAATTCCGATGACGGAATTGATAATGGAACACCACCGTCATCCGCCGTGAATGATGGCGAAGATGTGAAACCAACGGGAAGGTTACAACGGTGGACTAGGCAGGAGATTCTGGTGCTAGTACATGGAAAGAACGATGCTGAAAGCCGGTTGAAACCAGGTCGAAACGGTTCCTTGTTTGGTTCGTTTGAGAAGAAGTGGACGTTGGTTTCTTCGTACTGTGAGAAACATGGTGTGAACCGGACACCGATTCAGTGTAAGAAGCGATGGGGCAATCTCACCGCAGATTACAAGAAGATTAAGGAGTGGGAGTCTCAGGTGAGTGATGAAAGGGAGTCGTTTTGGTTGATGAACGTTGAGTTGAGGAGAGAGAGGAAATTGCCTGGTTGTTTTGATTGGGAGGTTTATAATATTCTTGATTCAGCGGTGGCTGCAACGGCTGTTCCGGTGGCTGTGGCTGCACCGGTTTCAGAGGTGGTTGGTGATGAGGAGGTTCATATTTATGATAGTAATAGGAAAGTGAGCGGTGAAGATGAGTTGTTTTCTGATACGGAGAACGATGATCATGTTCTTTCACCTGTTCCAATCTCAGTCTCAGAGAAGCAGTGTGTTCCACTCCTCAGTGGCTTCCAAGGAGAAGGCAATGCTCGAGGTGCGAGCAATGAGAAACAACAAGCCTCAAATCTAGAAGGAGAAAGAAAGAGGAAGCGGTTTGCAACAGAAGGCAATGAAGAGGAGGAAAGTGTGCAAAGTGAATTAATTGAAGTGTTAGAGAAAAATGGCAAGATGCTATGTGAACAGCTAGAGGCCCAGAACAAGAGATTACAGTTGGATCGCCAGCAACAGAATCAAACTGCAAGTAATATGGTTGCTGTGCTTGATAAGCTTGCAAATGCTCTTGGGAGAATTGCTGATAAATTGTAG
Protein sequence

>MsaT005682.1

MDFDQPSLRSNPNSDDGIDNGTPPSSAVNDGEDVKPTGRLQRWTRQEILVLVHGKNDAESRLKPGRNGSLFGSFEKKWTLVSSYCEKHGVNRTPIQCKKRWGNLTADYKKIKEWESQVSDERESFWLMNVELRRERKLPGCFDWEVYNILDSAVAATAVPVAVAAPVSEVVGDEEVHIYDSNRKVSGEDELFSDTENDDHVLSPVPISVSEKQCVPLLSGFQGEGNARGASNEKQQASNLEGERKRKRFATEGNEEEESVQSELIEVLEKNGKMLCEQLEAQNKRLQLDRQQQNQTASNMVAVLDKLANALGRIADKL*