AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa ssp. caerulea / MsaG001900


Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsaG001900 MtrunA17_Chr1g0169171 61.538 325 101 4 31 354 1 302 8.39e-121 350
MsaG001900 MtrunA17_Chr1g0169081 92.899 169 11 1 187 354 156 324 1.30e-112 330
MsaG001900 MtrunA17_Chr1g0169161 73.529 170 43 1 184 353 166 333 1.44e-86 265
MsaG001900 MtrunA17_Chr3g0125151 70.866 127 35 1 228 354 1 125 1.90e-63 197
MsaG001900 MtrunA17_Chr3g0125161 72.881 118 32 0 2 119 16 133 1.08e-54 177
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsaG001900 AT3G06160.5 23.055 347 222 6 6 352 8 309 3.69e-18 84.3
MsaG001900 AT3G06160.4 23.055 347 222 6 6 352 8 309 3.69e-18 84.3
MsaG001900 AT3G06160.3 23.055 347 222 6 6 352 8 309 3.69e-18 84.3
MsaG001900 AT3G06160.1 23.563 348 219 7 6 352 23 324 3.86e-18 84.7
MsaG001900 AT3G06160.2 24.138 348 217 8 6 352 67 368 7.68e-18 84.3
MsaG001900 AT4G01580.1 37.374 99 58 3 8 105 30 125 4.75e-12 64.7
MsaG001900 AT3G18960.2 37.624 101 59 3 8 107 30 127 1.14e-11 63.5
MsaG001900 AT3G18960.1 37.624 101 59 3 8 107 30 127 1.25e-11 63.9

Find 61 sgRNAs with CRISPR-Local

Find sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
AAATCCTTGATAACATTCTT+TGG 0.259575 1:+28394190 None:intergenic
TAGAGATGAAAATTCTTTAG+AGG 0.303868 1:-28395167 MsaT001900.1:CDS
TGTTAAGGGTGCACATTGTT+AGG 0.310846 1:-28393795 MsaT001900.1:CDS
AAAGAATTGTACCAATTCAT+TGG 0.326483 1:+28394534 None:intergenic
CTTACCAGCTTTGCACTTGC+AGG 0.327904 1:+28394775 None:intergenic
TGAACTTGATGCGTTCAAAA+AGG 0.339507 1:-28395297 MsaT001900.1:CDS
AGAGAGGCCAAGTACGTATA+TGG 0.345367 1:-28393933 MsaT001900.1:CDS
TGCTGCTGTTGATGATATTA+TGG 0.347297 1:-28394933 MsaT001900.1:CDS
CGAGAATGAAAGAATGTATA+AGG 0.350460 1:-28394831 MsaT001900.1:CDS
GCAATAAAGTGTGGATTTCC+CGG 0.353942 1:+28394577 None:intergenic
ATCAAGTTCACAAAAGCATT+AGG 0.355825 1:+28395310 None:intergenic
TGCTGAAATGTATATTCAAC+CGG 0.363963 1:-28394596 MsaT001900.1:CDS
ATGGAACAATCGAAATGTTA+AGG 0.368271 1:-28393810 MsaT001900.1:CDS
TTGTACCAATTCATTGGGTC+TGG 0.396197 1:+28394540 None:intergenic
ATATTGAAAACAACGTATTC+AGG 0.401283 1:-28395120 MsaT001900.1:CDS
CTCTTCGTCTACGATCTCTT+AGG 0.403586 1:+28395254 None:intergenic
TCAAGTTCACAAAAGCATTA+GGG 0.428525 1:+28395311 None:intergenic
TCATTCCAGACCCAATGAAT+TGG 0.429879 1:-28394545 MsaT001900.1:intron
AAGAATTGTACCAATTCATT+GGG 0.434349 1:+28394535 None:intergenic
ATATGTGTTGTACTTATTTG+TGG 0.442759 1:+28393961 None:intergenic
CATCTCTCCATATACGTACT+TGG 0.448522 1:+28393926 None:intergenic
CATGTCAAAGCTCGTCGTAT+TGG 0.455772 1:-28395226 MsaT001900.1:CDS
TATTCCAAAGAATGTTATCA+AGG 0.458986 1:-28394194 MsaT001900.1:CDS
AGATCATGATGATGATATTA+CGG 0.459074 1:-28394900 MsaT001900.1:CDS
TATGATGGAGGATGAGGAAG+AGG 0.471010 1:-28395029 MsaT001900.1:CDS
TGGAACAATCGAAATGTTAA+GGG 0.479872 1:-28393809 MsaT001900.1:CDS
GATGGTCGAGTACGTGTGCT+AGG 0.481978 1:-28393907 MsaT001900.1:CDS
CCTTGTGTGTTGCCACTGTA+AGG 0.488769 1:-28394140 MsaT001900.1:intron
GAAGAAGTCTGGGTAATCCT+TGG 0.492866 1:+28395584 None:intergenic
TTGTGGCAAGATGTGATGAT+AGG 0.494426 1:+28393978 None:intergenic
GAGATCGTAGACGAAGAGAT+TGG 0.495197 1:-28395249 MsaT001900.1:CDS
TAATAATATGATGGAGGATG+AGG 0.497070 1:-28395035 MsaT001900.1:CDS
GTCGAGTACGTGTGCTAGGG+TGG 0.503803 1:-28393903 MsaT001900.1:CDS
AGAACCTGCAAGTGCAAAGC+TGG 0.504053 1:-28394779 MsaT001900.1:intron
GGAGGAAAATAATAATATGA+TGG 0.511899 1:-28395044 MsaT001900.1:CDS
ATCAATGTGTGAAAAGAAGA+AGG 0.520397 1:-28395077 MsaT001900.1:CDS
AGAGAAGCACGCTGAAAGAA+TGG 0.532134 1:-28395547 MsaT001900.1:intron
AAGGGTGCACATTGTTAGGA+AGG 0.552584 1:-28393791 MsaT001900.1:CDS
CCTTACAGTGGCAACACACA+AGG 0.552665 1:+28394140 None:intergenic
GGAAAATAATAATATGATGG+AGG 0.559551 1:-28395041 MsaT001900.1:CDS
TGATGATGATATTACGGCAG+AGG 0.566025 1:-28394894 MsaT001900.1:CDS
AGATGAAAATTCTTTAGAGG+AGG 0.577073 1:-28395164 MsaT001900.1:CDS
GATGAGGAAGAGGACAATGA+TGG 0.588535 1:-28395019 MsaT001900.1:CDS
GATGATGATTATGATTATGA+TGG 0.594417 1:-28394971 MsaT001900.1:CDS
CAAGTACGTATATGGAGAGA+TGG 0.596390 1:-28393925 MsaT001900.1:CDS
CATCATGATACCGATGATGA+TGG 0.600687 1:-28394866 MsaT001900.1:CDS
AATTGTAACTAAGATGGCCA+AGG 0.605912 1:-28395601 None:intergenic
GAAGAAGGTAAATGACGAGG+AGG 0.609557 1:-28395062 MsaT001900.1:CDS
GAGATTGTGCTACGTGAAGA+TGG 0.612102 1:-28393829 MsaT001900.1:CDS
ATGGTCGAGTACGTGTGCTA+GGG 0.616130 1:-28393906 MsaT001900.1:CDS
CATTCAGAGTAATGACTTAG+CGG 0.619259 1:-28394001 MsaT001900.1:CDS
TCGAGTACGTGTGCTAGGGT+GGG 0.622095 1:-28393902 MsaT001900.1:CDS
GTTGTCATCACCATCATCAT+CGG 0.625480 1:+28394856 None:intergenic
TGTTGATGATATTATGGCAG+AGG 0.631230 1:-28394927 MsaT001900.1:CDS
TCTTTCAGCGTGCTTCTCTG+AGG 0.632246 1:+28395551 None:intergenic
GCTGAAATGTATATTCAACC+GGG 0.649231 1:-28394595 MsaT001900.1:CDS
ATTAGAATTATACCTTACAG+TGG 0.654416 1:+28394128 None:intergenic
ACAACACATATCGAAAAGAG+AGG 0.662380 1:-28393949 MsaT001900.1:CDS
TGATGATGACGACGATGATG+AGG 0.667494 1:-28394993 MsaT001900.1:CDS
AAAGAAGAAGGTAAATGACG+AGG 0.671120 1:-28395065 MsaT001900.1:CDS
CTTACAGTGGCAACACACAA+GGG 0.686432 1:+28394141 None:intergenic

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
Chromosome Type Strat End Strand Name
Chr1 gene 28393786 28395610 28393786 ID=MsaG001900
Chr1 mRNA 28393786 28395610 28393786 ID=MsaT001900.1;Parent=MsaG001900
Chr1 exon 28393786 28394025 28393786 ID=MsaT001900.1.exon5;Parent=MsaT001900.1
Chr1 CDS 28393786 28394025 28393786 ID=cds.MsaT001900.1;Parent=MsaT001900.1
Chr1 exon 28394141 28394218 28394141 ID=MsaT001900.1.exon4;Parent=MsaT001900.1
Chr1 CDS 28394141 28394218 28394141 ID=cds.MsaT001900.1;Parent=MsaT001900.1
Chr1 exon 28394546 28394670 28394546 ID=MsaT001900.1.exon3;Parent=MsaT001900.1
Chr1 CDS 28394546 28394670 28394546 ID=cds.MsaT001900.1;Parent=MsaT001900.1
Chr1 exon 28394780 28395338 28394780 ID=MsaT001900.1.exon2;Parent=MsaT001900.1
Chr1 CDS 28394780 28395338 28394780 ID=cds.MsaT001900.1;Parent=MsaT001900.1
Chr1 exon 28395548 28395610 28395548 ID=MsaT001900.1.exon1;Parent=MsaT001900.1
Chr1 CDS 28395548 28395610 28395548 ID=cds.MsaT001900.1;Parent=MsaT001900.1
Gene Sequence

>MsaT001900.1

ATGGCCAAGGATTACCCAGACTTCTTCAAAGTTTTTTCCTCAGAGAAGCACGCTGAAAGAATGCGTATCCCTAATGCTTTTGTGAACTTGATGCGTTCAAAAAGGAGGGTAATAAATGATTTTATCCTAAGAGATCGTAGACGAAGAGATTGGCATGTCAAAGCTCGTCGTATTGGCGATGAGCTTTATTTTGACGATGGCTGGAAGCAATTTAGAGATGAAAATTCTTTAGAGGAGGACGATTTCCTTGTTTTTACACATATTGAAAACAACGTATTCAGGTTCAAAATTCTTCAACTATCATCAATGTGTGAAAAGAAGAAGGTAAATGACGAGGAGGAAAATAATAATATGATGGAGGATGAGGAAGAGGACAATGATGGTGATGATGATGACGACGATGATGAGGATGATGATTATGATTATGATGGTGATGATGCTGCTGCTGCTGCTGTTGATGATATTATGGCAGAGGAAGAAGATCATGATGATGATATTACGGCAGAGGAAGAACATCATGATACCGATGATGATGGTGATGACAACGACGAGAATGAAAGAATGTATAAGGAAATTAGTAGAAGTAAACATCAACATTGTAGAACCTGCAAGTGCAAAGCTGCGGACATTGGGAGCAGCTCTGCACGTTCAAAACTCGAAGATGACGAAATTGATGCTGAAATGTATATTCAACCGGGAAATCCACACTTTATTGCAAAATATATTCATTCCAGACCCAATGAATTGTTTATTCCAAAGAATGTTATCAAGGATTTCTGCCTCTACTTCACAAAACATGTCACCCTTGTGTGTTGCCACTGTAAGGACATTCAGAGTAATGACTTAGCGGCCTATCATCACATCTTGCCACAAATAAGTACAACACATATCGAAAAGAGAGGCCAAGTACGTATATGGAGAGATGGTCGAGTACGTGTGCTAGGGTGGGAAGATTTTTGTGGAAAGAGCAAGATCACAGAAAATGATAGTTGCTTATGCGAGATTGTGCTACGTGAAGATGGAACAATCGAAATGTTAAGGGTGCACATTGTTAGGAAGGAATGA

Protein sequence

>MsaT001900.1

MAKDYPDFFKVFSSEKHAERMRIPNAFVNLMRSKRRVINDFILRDRRRRDWHVKARRIGDELYFDDGWKQFRDENSLEEDDFLVFTHIENNVFRFKILQLSSMCEKKKVNDEEENNNMMEDEEEDNDGDDDDDDDEDDDYDYDGDDAAAAAVDDIMAEEEDHDDDITAEEEHHDTDDDGDDNDENERMYKEISRSKHQHCRTCKCKAADIGSSSARSKLEDDEIDAEMYIQPGNPHFIAKYIHSRPNELFIPKNVIKDFCLYFTKHVTLVCCHCKDIQSNDLAAYHHILPQISTTHIEKRGQVRIWRDGRVRVLGWEDFCGKSKITENDSCLCEIVLREDGTIEMLRVHIVRKE*