AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa ssp. caerulea / MsaG016135

Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsaG016135 MtrunA17_Chr3g0125321 100.000 253 0 0 1 253 1 253 0.0 524
MsaG016135 MtrunA17_Chr3g0114411 27.184 206 141 4 35 236 58 258 2.91e-15 73.6
MsaG016135 MtrunA17_Chr7g0259851 26.490 151 107 1 77 227 523 669 1.05e-13 70.5
MsaG016135 MtrunA17_Chr7g0259501 27.568 185 113 5 74 243 201 379 5.01e-13 68.2
MsaG016135 MtrunA17_Chr3g0124921 28.000 175 119 3 70 241 151 321 6.21e-13 67.4
MsaG016135 MtrunA17_Chr5g0401281 29.605 152 100 3 95 241 79 228 7.36e-13 67.4
MsaG016135 MtrunA17_Chr1g0185861 27.568 185 113 5 74 243 205 383 1.13e-12 67.0
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsaG016135 AT4G08455.1 65.234 256 79 3 4 249 6 261 3.13e-118 339
MsaG016135 AT3G56230.1 29.592 196 127 5 49 241 86 273 1.29e-19 85.9
MsaG016135 AT1G01640.2 31.902 163 108 2 80 241 3 163 3.17e-19 82.8
MsaG016135 AT1G01640.1 31.902 163 108 2 80 241 24 184 5.28e-19 82.8
MsaG016135 AT4G37610.1 28.634 227 147 6 30 246 5 226 1.99e-14 72.4
MsaG016135 AT3G06190.1 27.174 184 115 4 74 243 196 374 8.83e-13 67.8
MsaG016135 AT1G21780.2 25.926 189 130 4 58 242 139 321 2.52e-11 63.2
MsaG016135 AT1G21780.1 25.926 189 130 4 58 242 139 321 2.52e-11 63.2
MsaG016135 AT2G40450.1 29.775 178 117 3 83 252 26 203 4.31e-11 61.2
MsaG016135 AT3G06190.5 27.879 165 102 3 74 226 196 355 5.61e-11 62.4
MsaG016135 AT2G39760.1 27.922 154 97 2 97 236 207 360 6.55e-11 62.4
MsaG016135 AT2G05330.1 29.487 156 104 2 101 250 34 189 9.09e-11 60.5
MsaG016135 AT3G43700.1 24.457 184 116 4 74 239 199 377 9.36e-11 61.6

Find 67 sgRNAs with CRISPR-Local

Find sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
TCCTAAAACTAATAGGTTAC+AGG 0.263882 3:+94516779 None:intergenic
ATTTGATCTCCAAACTGAAT+TGG 0.305803 3:-94516713 MsaT016135.1:CDS
TTGCAGGTACCGGCGTCGTC+GGG 0.313630 3:+94517546 None:intergenic
TGCAGCCACGCTAGGGTTAT+AGG 0.318170 3:-94516499 None:intergenic
TCAAGCATGGCTCTGAAAAC+TGG 0.323355 3:+94516921 None:intergenic
GGCAGTGATCATGGAGAATA+TGG 0.334507 3:-94516622 MsaT016135.1:CDS
CTAATAGGTTACAGGCCATT+TGG 0.355315 3:+94516787 None:intergenic
AGCTTTCTCCCAATTCAGTT+TGG 0.363821 3:+94516704 None:intergenic
TGAAGCTTATCTTGCCAAAC+AGG 0.369315 3:-94516529 MsaT016135.1:CDS
CCAATTGCAAGATGCAGCTT+TGG 0.375309 3:-94516643 MsaT016135.1:CDS
CTGACGTTTGAATTCCTCTT+CGG 0.381082 3:+94517497 None:intergenic
AGACTTTGGATTTGAGGTCT+TGG 0.386775 3:+94517472 None:intergenic
GGAAGGAGACTTTGGATTTG+AGG 0.393809 3:+94517466 None:intergenic
GGCTGCAGTATTAACCTGTT+TGG 0.400932 3:+94516515 None:intergenic
TTTGATCTCCAAACTGAATT+GGG 0.405372 3:-94516712 MsaT016135.1:CDS
CCAAAGCTGCATCTTGCAAT+TGG 0.405862 3:+94516643 None:intergenic
TACAGGCCATTTGGTTATCA+AGG 0.418138 3:+94516796 None:intergenic
CGAAACATCAGCAATCTTGA+TGG 0.418642 3:+94516869 None:intergenic
GAGAGTGAGGAAGGAGACTT+TGG 0.418723 3:+94517458 None:intergenic
AACGGCCTTGTGAGCGGGAA+TGG 0.421444 3:+94517365 None:intergenic
TGCAGCTTTGGCAGTGATCA+TGG 0.425358 3:-94516631 MsaT016135.1:CDS
TTCGTCGTAGCATTCTTTGC+AGG 0.425478 3:+94517530 None:intergenic
AGCCATGCTTGAGAATGATA+TGG 0.435569 3:-94516910 MsaT016135.1:CDS
TTTGCAGGTACCGGCGTCGT+CGG 0.460574 3:+94517545 None:intergenic
GTTAATACTGCAGCCACGCT+AGG 0.472280 3:-94516507 MsaT016135.1:CDS
GAATTCCTCTTCGGTTTCGT+TGG 0.472827 3:+94517506 None:intergenic
AACTATCACCGGACGGAAGA+AGG 0.480804 3:+94517397 None:intergenic
AGCTGCATCTTGCAATTGGT+TGG 0.493566 3:+94516647 None:intergenic
AACTAATCCTCGTTTAGTTG+TGG 0.493649 3:-94516559 MsaT016135.1:CDS
GTAGCATTCTTTGCAGGTAC+CGG 0.496432 3:+94517536 None:intergenic
GTATCAGGTGAAGCATCTTA+AGG 0.500142 3:-94516751 MsaT016135.1:CDS
TCCTTCCATTCCCGCTCACA+AGG 0.504228 3:-94517370 MsaT016135.1:CDS
CTCCATATCATTCTCAAGCA+TGG 0.507732 3:+94516908 None:intergenic
AGGAGAAGCGAGAGTGAGGA+AGG 0.513816 3:+94517449 None:intergenic
ACGAGAACGGCCTTGTGAGC+GGG 0.514027 3:+94517360 None:intergenic
GTCGTCGTCGTAATCGCTCT+CGG 0.517038 3:+94517617 None:intergenic
GCCTTGTGAGCGGGAATGGA+AGG 0.523187 3:+94517369 None:intergenic
AAGAAGGACAAGATCGGTGG+TGG 0.529952 3:+94517413 None:intergenic
AAATGAAGATTACACTGAGT+TGG 0.536697 3:-94516586 MsaT016135.1:CDS
TGAAGATTACACTGAGTTGG+TGG 0.540608 3:-94516583 MsaT016135.1:CDS
AGCATGCCTTGATAACCAAA+TGG 0.551457 3:-94516802 MsaT016135.1:CDS
GATCTTGTCCTTCTTCCGTC+CGG 0.559785 3:-94517405 MsaT016135.1:CDS
CGAAGCCAACGAAACCGAAG+AGG 0.562358 3:-94517511 MsaT016135.1:CDS
TACACTGTGCAACGGTGCCG+TGG 0.563730 3:+94517642 None:intergenic
TTAATACTGCAGCCACGCTA+GGG 0.570249 3:-94516506 MsaT016135.1:CDS
AGAATGATATGGAGGAAAGC+CGG 0.570838 3:-94516899 MsaT016135.1:CDS
CAAGAGGAGAAGCGAGAGTG+AGG 0.574599 3:+94517445 None:intergenic
GGCATTGTGTTGATGTGCAA+AGG 0.583175 3:+94516668 None:intergenic
TGCAGGTACCGGCGTCGTCG+GGG 0.583425 3:+94517547 None:intergenic
CAATCTTGATGGTGCCACTC+CGG 0.589211 3:+94516880 None:intergenic
CTCGCAAGAGAGACATCTCA+TGG 0.590091 3:+94517581 None:intergenic
AGGACAAGATCGGTGGTGGA+AGG 0.595036 3:+94517417 None:intergenic
GACGAGAACGGCCTTGTGAG+CGG 0.616158 3:+94517359 None:intergenic
GATTACGACCCCGACGACGC+CGG 0.624267 3:-94517555 MsaT016135.1:CDS
CATGAGATGTCTCTCTTGCG+AGG 0.633418 3:-94517580 MsaT016135.1:CDS
AGAGAGGGTACTGACGAGAA+CGG 0.641189 3:+94517347 None:intergenic
CATGCTTGAGAATGATATGG+AGG 0.646700 3:-94516907 MsaT016135.1:CDS
GGACGGAAGAAGGACAAGAT+CGG 0.653862 3:+94517407 None:intergenic
GGAAGGAGAGAAACTATCAC+CGG 0.659659 3:+94517386 None:intergenic
GTGGTGGAAGGAGCATCAAG+AGG 0.662081 3:+94517429 None:intergenic
GGAGAGAAACTATCACCGGA+CGG 0.673542 3:+94517390 None:intergenic
TATATTTCCACAACTAAACG+AGG 0.674137 3:+94516552 None:intergenic
TCTCGGAGTACACTGTGCAA+CGG 0.678301 3:+94517634 None:intergenic
AACAATCAGATAGAATGCCA+CGG 0.686225 3:-94517659 None:intergenic
GATATGGAGGAAAGCCGGAG+TGG 0.686483 3:-94516894 MsaT016135.1:CDS
CGGAAGAAGGACAAGATCGG+TGG 0.689295 3:+94517410 None:intergenic
GCATTCCTATAACCCTAGCG+TGG 0.731788 3:+94516494 None:intergenic

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
Chromosome Type Strat End Strand Name
Chr3 gene 94516500 94517667 94516500 ID=MsaG016135
Chr3 mRNA 94516500 94517667 94516500 ID=MsaT016135.1;Parent=MsaG016135
Chr3 exon 94516500 94516955 94516500 ID=MsaT016135.1.exon2;Parent=MsaT016135.1
Chr3 CDS 94516500 94516955 94516500 ID=cds.MsaT016135.1;Parent=MsaT016135.1
Chr3 exon 94517362 94517667 94517362 ID=MsaT016135.1.exon1;Parent=MsaT016135.1
Chr3 CDS 94517362 94517667 94517362 ID=cds.MsaT016135.1;Parent=MsaT016135.1
Gene Sequence

>MsaT016135.1

ATGCCACGGCACCGTTGCACAGTGTACTCCGAGAGCGATTACGACGACGACGACGATAACGTCACCATGAGATGTCTCTCTTGCGAGGACGATTACGACCCCGACGACGCCGGTACCTGCAAAGAATGCTACGACGAAGCCAACGAAACCGAAGAGGAATTCAAACGTCAGATCCAAGACCTCAAATCCAAAGTCTCCTTCCTCACTCTCGCTTCTCCTCTTGATGCTCCTTCCACCACCGATCTTGTCCTTCTTCCGTCCGGTGATAGTTTCTCTCCTTCCATTCCCGCTCACAAGGCCGTTCTCGTTAGTCGCTCTCCAGTTTTCAGAGCCATGCTTGAGAATGATATGGAGGAAAGCCGGAGTGGCACCATCAAGATTGCTGATGTTTCGTACGATGCTCTTCGTGCTTTTGTTAACTACTTGTACACTGCTGAAGCATGCCTTGATAACCAAATGGCCTGTAACCTATTAGTTTTAGGAGAAAAGTATCAGGTGAAGCATCTTAAGGCGTATTGTGAGAAGTATTTGATCTCCAAACTGAATTGGGAGAAAGCTATTGTCAACTTTGCCTTTGCACATCAACACAATGCCAACCAATTGCAAGATGCAGCTTTGGCAGTGATCATGGAGAATATGGACAACCTCACTAAAAATGAAGATTACACTGAGTTGGTGGAAACTAATCCTCGTTTAGTTGTGGAAATATATGAAGCTTATCTTGCCAAACAGGTTAATACTGCAGCCACGCTAGGGTTATAG
Protein sequence

>MsaT016135.1

MPRHRCTVYSESDYDDDDDNVTMRCLSCEDDYDPDDAGTCKECYDEANETEEEFKRQIQDLKSKVSFLTLASPLDAPSTTDLVLLPSGDSFSPSIPAHKAVLVSRSPVFRAMLENDMEESRSGTIKIADVSYDALRAFVNYLYTAEACLDNQMACNLLVLGEKYQVKHLKAYCEKYLISKLNWEKAIVNFAFAHQHNANQLQDAALAVIMENMDNLTKNEDYTELVETNPRLVVEIYEAYLAKQVNTAATLGL*