AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa ssp. caerulea / MsaG017676


Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsaG017676 MtrunA17_Chr3g0143581 97.605 167 4 0 1 167 1 167 2.55e-120 343
MsaG017676 MtrunA17_Chr3g0143571 94.375 160 9 0 172 331 15 174 8.31e-103 299
MsaG017676 MtrunA17_Chr1g0213311 45.872 327 137 8 20 321 24 335 2.36e-90 276
MsaG017676 MtrunA17_Chr3g0079841 38.158 304 114 7 20 317 29 264 1.90e-51 171
MsaG017676 MtrunA17_Chr7g0214501 38.247 251 111 5 81 329 1 209 4.40e-49 166
MsaG017676 MtrunA17_Chr7g0214491 60.656 61 24 0 20 80 25 85 2.40e-19 82.0
MsaG017676 MtrunA17_Chr5g0445971 32.407 108 62 2 17 124 24 120 4.93e-11 60.8
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsaG017676 AT1G76110.1 63.636 308 104 5 18 322 25 327 3.75e-131 377
MsaG017676 AT1G04880.1 41.486 323 156 6 23 321 21 334 7.52e-79 248
MsaG017676 AT3G13350.1 40.476 294 152 4 25 317 34 305 7.72e-65 207
MsaG017676 AT1G55650.1 36.213 301 142 8 27 321 30 286 1.89e-53 179

Find 79 sgRNAs with CRISPR-Local

Find sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
CCAGGACTGACCAATCATTT+TGG 0.213880 3:+111937287 None:intergenic
TGAAGTTAGTTACATGAATT+TGG 0.218590 3:+111938695 None:intergenic
GCACTATAATTTACCATCTT+AGG 0.243959 3:+111938129 None:intergenic
AGACGATGATTCATGTCTTT+TGG 0.244218 3:-111937616 MsaT017676.1:CDS
TTAACGACCCTACTCTCTTT+TGG 0.246597 3:-111938752 MsaT017676.1:CDS
TTATATAGTGTCAGTGAAAT+TGG 0.257424 3:-111937559 MsaT017676.1:CDS
GTAAACTCCCTTTCTCTGTT+TGG 0.269610 3:+111937309 None:intergenic
AAGTTATAGCCACTCCTATT+TGG 0.286925 3:+111937372 None:intergenic
TTCAGAGCTGAGACTATTCC+AGG 0.293074 3:+111937269 None:intergenic
AGTTCACTTCTTCAAAGTTC+AGG 0.296129 3:-111938334 MsaT017676.1:CDS
TAAACTCCCTTTCTCTGTTT+GGG 0.301975 3:+111937310 None:intergenic
CCAACTATCCAAAGCCAAAT+AGG 0.317522 3:-111937386 MsaT017676.1:CDS
TATTGAACAATAGCTAATTC+AGG 0.323525 3:+111938156 None:intergenic
CTATTTGGCTTTGGATAGTT+GGG 0.336021 3:+111937387 None:intergenic
CCTATTTGGCTTTGGATAGT+TGG 0.350904 3:+111937386 None:intergenic
TTACCAAAACATTGGCTTAA+GGG 0.366684 3:-111937084 MsaT017676.1:CDS
TTTACCAAAACATTGGCTTA+AGG 0.369159 3:-111937085 MsaT017676.1:CDS
TAGCCACTCCTATTTGGCTT+TGG 0.371071 3:+111937378 None:intergenic
TTGGGAAAAGGAACAATAGA+AGG 0.380812 3:-111937597 MsaT017676.1:CDS
AGCGGTTTCTCCTTCATCAT+TGG 0.385924 3:-111937496 MsaT017676.1:CDS
AGGTTGTTTCAGAGAAGAAA+TGG 0.390622 3:-111938455 MsaT017676.1:CDS
TCCTACCCAAGCGATGAGTT+TGG 0.411390 3:+111937436 None:intergenic
GAGAAGAAATGGAGAGAAGT+AGG 0.422027 3:-111938444 MsaT017676.1:CDS
TGTCCCTTAAGCCAATGTTT+TGG 0.427681 3:+111937081 None:intergenic
TGTTCAATATTCACCTAAGA+TGG 0.427917 3:-111938142 MsaT017676.1:CDS
AGGGAGTTTACCAAAATGAT+TGG 0.428453 3:-111937297 MsaT017676.1:CDS
AACTCTACCCAAACAGAGAA+AGG 0.437948 3:-111937317 MsaT017676.1:CDS
TATATAGTGTCAGTGAAATT+GGG 0.442454 3:-111937558 MsaT017676.1:CDS
CCAAAATGATTGGTCAGTCC+TGG 0.444792 3:-111937287 MsaT017676.1:CDS
TTGCATAGGATTCCTGTGAT+TGG 0.455163 3:-111938613 MsaT017676.1:intron
GTTCACTTCTTCAAAGTTCA+GGG 0.455272 3:-111938333 MsaT017676.1:CDS
CAATCACCAAACTCATCGCT+TGG 0.458935 3:-111937442 MsaT017676.1:CDS
TGGGTTCAGAAGTTCTCAAA+GGG 0.460026 3:-111937539 MsaT017676.1:CDS
TCGTCGCTTTCACTTTCTCA+TGG 0.469995 3:-111938721 MsaT017676.1:CDS
TTTGCCTTCGTCGTCGTCGC+CGG 0.479624 3:+111938812 None:intergenic
TCTCAGCTCTGAAGAAAGAA+TGG 0.490573 3:-111937259 MsaT017676.1:intron
AAGGTACAAAAGAGAGTTGA+CGG 0.495764 3:-111937054 MsaT017676.1:CDS
CGATGAGTTTGGTGATTGAA+TGG 0.504304 3:+111937447 None:intergenic
GATTCCTGTGATTGGTGGTA+AGG 0.506284 3:-111938605 MsaT017676.1:CDS
TTGCAGATTTACCAAAACAT+TGG 0.511934 3:-111937092 MsaT017676.1:intron
ATAGAAGGAAAATTTGATTG+TGG 0.518312 3:-111937582 MsaT017676.1:CDS
AAACTCATCGCTTGGGTAGG+AGG 0.523054 3:-111937434 MsaT017676.1:CDS
TTCTCTACGTGGAAGTTACA+AGG 0.523185 3:-111938567 MsaT017676.1:CDS
TTGGCTTAAGGGACAAAGAA+AGG 0.525876 3:-111937073 MsaT017676.1:CDS
AGAGTGTCCCAAAAGAGAGT+AGG 0.527303 3:+111938744 None:intergenic
GAGTGTCCCAAAAGAGAGTA+GGG 0.533581 3:+111938745 None:intergenic
AATCACCAAACTCATCGCTT+GGG 0.544065 3:-111937441 MsaT017676.1:CDS
CATAGGATTCCTGTGATTGG+TGG 0.550359 3:-111938610 MsaT017676.1:intron
AGTGCTGAATCTCATGATGA+AGG 0.550456 3:-111938111 MsaT017676.1:intron
GTCGTTGTGAGAGGCGAGTG+GGG 0.551529 3:+111938779 None:intergenic
CGAAATAGTAATACCTGGTG+AGG 0.553336 3:+111938296 None:intergenic
TTGGTGATTGAATGGCTCAA+TGG 0.554617 3:+111937455 None:intergenic
AAAAGAAGCGCTTGTAGTGG+TGG 0.559395 3:+111938401 None:intergenic
CGTCGTTGTGAGAGGCGAGT+GGG 0.567003 3:+111938778 None:intergenic
GAAATAGTAATACCTGGTGA+GGG 0.568622 3:+111938297 None:intergenic
ACTCTACCCAAACAGAGAAA+GGG 0.569820 3:-111937316 MsaT017676.1:CDS
TTGGGTTCAGAAGTTCTCAA+AGG 0.586901 3:-111937540 MsaT017676.1:CDS
GGAGTACAAACAGAAAATGA+AGG 0.592924 3:-111937033 MsaT017676.1:CDS
GCTAATTCAGGTTTCCACGA+TGG 0.602804 3:+111938168 None:intergenic
AAGGAGAAGCGGTTATGAGA+AGG 0.604277 3:-111938548 MsaT017676.1:intron
AGCTCCTTACCACCAATCAC+AGG 0.612482 3:+111938601 None:intergenic
GTTAACGACGTCGTTGTGAG+AGG 0.614603 3:+111938770 None:intergenic
TCGTTGTGAGAGGCGAGTGG+GGG 0.615838 3:+111938780 None:intergenic
ACGTCGTTGTGAGAGGCGAG+TGG 0.618608 3:+111938777 None:intergenic
TTGTGCAGACAGAAGAACTC+GGG 0.623939 3:-111937010 MsaT017676.1:CDS
TACAAAAGAAGCGCTTGTAG+TGG 0.625201 3:+111938398 None:intergenic
TGTTGTGTAACCAATGATGA+AGG 0.625666 3:+111937486 None:intergenic
AACTCCGGCGACGACGACGA+AGG 0.636321 3:-111938816 MsaT017676.1:CDS
TATCCAAAGCCAAATAGGAG+TGG 0.645627 3:-111937381 MsaT017676.1:CDS
TGATTTGCACGTTCTCTACG+TGG 0.652993 3:-111938578 MsaT017676.1:CDS
AAATAGTAATACCTGGTGAG+GGG 0.654247 3:+111938298 None:intergenic
GCGGTGAGAAGCAAGAACTC+CGG 0.655187 3:-111938831 MsaT017676.1:CDS
ACCAAACTCATCGCTTGGGT+AGG 0.660160 3:-111937437 MsaT017676.1:CDS
GTGGAAGTTACAAGGAGAAG+CGG 0.661449 3:-111938559 MsaT017676.1:CDS
AATAGTAATACCTGGTGAGG+GGG 0.665808 3:+111938299 None:intergenic
GTTGTGCAGACAGAAGAACT+CGG 0.678933 3:-111937011 MsaT017676.1:CDS
TTTCTGGTAACAGTCCATCG+TGG 0.712333 3:-111938182 MsaT017676.1:CDS
GGGTTCAGAAGTTCTCAAAG+GGG 0.716935 3:-111937538 MsaT017676.1:CDS
TCATTGGTTACACAACACAA+CGG 0.736779 3:-111937480 MsaT017676.1:CDS

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
Chromosome Type Strat End Strand Name
Chr3 gene 111937001 111938865 111937001 ID=MsaG017676
Chr3 mRNA 111937001 111938865 111937001 ID=MsaT017676.1;Parent=MsaG017676
Chr3 exon 111937001 111937108 111937001 ID=MsaT017676.1.exon6;Parent=MsaT017676.1
Chr3 CDS 111937001 111937108 111937001 ID=cds.MsaT017676.1;Parent=MsaT017676.1
Chr3 exon 111937260 111937645 111937260 ID=MsaT017676.1.exon5;Parent=MsaT017676.1
Chr3 CDS 111937260 111937645 111937260 ID=cds.MsaT017676.1;Parent=MsaT017676.1
Chr3 exon 111938112 111938210 111938112 ID=MsaT017676.1.exon4;Parent=MsaT017676.1
Chr3 CDS 111938112 111938210 111938112 ID=cds.MsaT017676.1;Parent=MsaT017676.1
Chr3 exon 111938310 111938475 111938310 ID=MsaT017676.1.exon3;Parent=MsaT017676.1
Chr3 CDS 111938310 111938475 111938310 ID=cds.MsaT017676.1;Parent=MsaT017676.1
Chr3 exon 111938549 111938627 111938549 ID=MsaT017676.1.exon2;Parent=MsaT017676.1
Chr3 CDS 111938549 111938627 111938549 ID=cds.MsaT017676.1;Parent=MsaT017676.1
Chr3 exon 111938708 111938865 111938708 ID=MsaT017676.1.exon1;Parent=MsaT017676.1
Chr3 CDS 111938708 111938865 111938708 ID=cds.MsaT017676.1;Parent=MsaT017676.1
Gene Sequence

>MsaT017676.1

ATGTCATCATCGGCGGTGAGAAGCAAGAACTCCGGCGACGACGACGAAGGCAAACACTACCCTCCCCCACTCGCCTCTCACAACGACGTCGTTAACGACCCTACTCTCTTTTGGGACACTCTTCGTCGCTTTCACTTTCTCATGGCTACCAAATTCATGATTCCTGTGATTGGTGGTAAGGAGCTTGATTTGCACGTTCTCTACGTGGAAGTTACAAGGAGAAGCGGTTATGAGAAGGTTGTTTCAGAGAAGAAATGGAGAGAAGTAGGTAGTGTATTTAGATTCTCATCCACCACTACAAGCGCTTCTTTTGTACTAAGAAAACACTATTTGAATCTTCTTTATCATTACGAACAAGTTCACTTCTTCAAAGTTCAGGGTCCTATTTACACCCCCTCACCAGATGCATTTTCTGGTAACAGTCCATCGTGGAAACCTGAATTAGCTATTGTTCAATATTCACCTAAGATGGTAAATTATAGTGCTGAATCTCATGATGAAGTTCATGTAGACGATGATTCATGTCTTTTGGGAAAAGGAACAATAGAAGGAAAATTTGATTGTGGTTATATAGTGTCAGTGAAATTGGGTTCAGAAGTTCTCAAAGGGGTGCTTTACCATCCAGAAAAAGCGGTTTCTCCTTCATCATTGGTTACACAACACAACGGTGCCATTGAGCCATTCAATCACCAAACTCATCGCTTGGGTAGGAGGAAGAGAAGAAAAAGAAAGTGGGATCCCAACTATCCAAAGCCAAATAGGAGTGGCTATAACTTTTTCTTTGCTGAAAAGCATTACAAGCTCAAAGAACTCTACCCAAACAGAGAAAGGGAGTTTACCAAAATGATTGGTCAGTCCTGGAATAGTCTCAGCTCTGAAGAAAGAATGATTTACCAAAACATTGGCTTAAGGGACAAAGAAAGGTACAAAAGAGAGTTGACGGAGTACAAACAGAAAATGAAGGTTGTGCAGACAGAAGAACTCGGGCGTCCATAA

Protein sequence

>MsaT017676.1

MSSSAVRSKNSGDDDEGKHYPPPLASHNDVVNDPTLFWDTLRRFHFLMATKFMIPVIGGKELDLHVLYVEVTRRSGYEKVVSEKKWREVGSVFRFSSTTTSASFVLRKHYLNLLYHYEQVHFFKVQGPIYTPSPDAFSGNSPSWKPELAIVQYSPKMVNYSAESHDEVHVDDDSCLLGKGTIEGKFDCGYIVSVKLGSEVLKGVLYHPEKAVSPSSLVTQHNGAIEPFNHQTHRLGRRKRRKRKWDPNYPKPNRSGYNFFFAEKHYKLKELYPNREREFTKMIGQSWNSLSSEERMIYQNIGLRDKERYKRELTEYKQKMKVVQTEELGRP*