AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa ssp. caerulea / MsaG016431

Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsaG016431 MtrunA17_Chr3g0128651 99.187 369 3 0 1 369 1 369 0.0 754
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsaG016431 AT2G38560.1 52.972 387 149 11 6 369 2 378 1.31e-118 348
MsaG016431 AT2G42725.1 48.031 127 65 1 189 314 104 230 7.89e-32 120
MsaG016431 AT4G18720.1 53.153 111 51 1 189 298 105 215 1.79e-29 115
MsaG016431 AT5G42325.1 40.625 128 58 3 189 314 104 215 2.99e-19 86.3

Find 89 sgRNAs with CRISPR-Local

Find sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
GCGAGTTTGCATTTGGTAAT+AGG 0.248412 3:+97811705 None:intergenic
GTCCTTAATGTTTAATCTTA+AGG 0.250681 3:-97811944 MsaT016431.1:CDS
ATTCAGCGCGAGACAAAATA+AGG 0.257557 3:-97812128 MsaT016431.1:CDS
ATCCTTAAGATTAAACATTA+AGG 0.282366 3:+97811942 None:intergenic
ATCAGAAGAACCCTGATTTC+CGG 0.285749 3:-97811921 MsaT016431.1:CDS
AGGACCTATACTTGACCTTT+TGG 0.308451 3:+97811962 None:intergenic
AGTCCGTATTATTTGAAAAC+TGG 0.312826 3:-97812002 MsaT016431.1:CDS
CTGTTGACTTAATTGCGATA+TGG 0.314443 3:-97812494 MsaT016431.1:CDS
GCCAAGGTGGAGAAAGTTAA+TGG 0.315639 3:-97812333 MsaT016431.1:CDS
AATTGATCAGTAGTAGCTTT+TGG 0.339749 3:+97811760 None:intergenic
GAGGCAACGGGTTTCTTCGC+TGG 0.347716 3:+97814196 None:intergenic
ACTGTCACTGCCACACGAAT+AGG 0.349730 3:+97812027 None:intergenic
CAGCACTGCGAGTTTGCATT+TGG 0.373188 3:+97811698 None:intergenic
AGCATCCCAGGGAGAACATT+CGG 0.381324 3:-97812524 MsaT016431.1:CDS
CTCCTTCGCTTTGATGTTCG+AGG 0.381420 3:+97812233 None:intergenic
CGTCATGAGCTCAGCAGAAA+TGG 0.387279 3:-97811857 MsaT016431.1:CDS
GAACGGGGCCTCTGATTCTA+AGG 0.389336 3:-97812436 MsaT016431.1:CDS
ATCATAGTCTTCAGCTTTGG+TGG 0.390447 3:+97812162 None:intergenic
CTTTGGTGGAGCAGCAGTGC+TGG 0.400922 3:+97812176 None:intergenic
GAAAACTGGGGTCCTTCAAA+TGG 0.424609 3:-97811988 MsaT016431.1:CDS
TTGATCATAGTCTTCAGCTT+TGG 0.429713 3:+97812159 None:intergenic
TACTGTTGAGCCACAGCGGC+TGG 0.438165 3:-97811881 MsaT016431.1:CDS
TTCAAGCGCATCGAGGCAAC+GGG 0.440343 3:+97814184 None:intergenic
GCATCCCAGGGAGAACATTC+GGG 0.444394 3:-97812523 MsaT016431.1:CDS
CTCATGACGGCCAGCCGCTG+TGG 0.450612 3:+97811871 None:intergenic
CTGTCACTGCCACACGAATA+GGG 0.453244 3:+97812028 None:intergenic
AGGCAACGGGTTTCTTCGCT+GGG 0.460026 3:+97814197 None:intergenic
TCCTTCAAATGGAGCCCAAA+AGG 0.467781 3:-97811977 MsaT016431.1:CDS
AAACTCTCACCAAGCATCCC+AGG 0.468100 3:-97812536 MsaT016431.1:CDS
GTGGTTGGGTTCGATGGAGA+AGG 0.470982 3:-97814297 None:intergenic
GGTTCATCAAAGCTGAGCTC+TGG 0.479292 3:-97812306 MsaT016431.1:CDS
TTCTTCGCTGGGACTATCAT+CGG 0.481323 3:+97814208 None:intergenic
AATGTTCTCCCTGGGATGCT+TGG 0.486291 3:+97812527 None:intergenic
CAAGTGACATAGGTTGTCAT+AGG 0.486857 3:+97811670 None:intergenic
CCCATTAACTTTCTCCACCT+TGG 0.490756 3:+97812332 None:intergenic
CCTTTCTCAACCTTCACTGA+AGG 0.497037 3:+97812363 None:intergenic
GTCCGTATTATTTGAAAACT+GGG 0.498242 3:-97812001 MsaT016431.1:CDS
GTTCAAGCGCATCGAGGCAA+CGG 0.502578 3:+97814183 None:intergenic
TTCCGGAGAAAAGTTCTGCT+TGG 0.505519 3:-97811904 MsaT016431.1:CDS
CCAAGGTGGAGAAAGTTAAT+GGG 0.509185 3:-97812332 MsaT016431.1:CDS
GGGACTATCATCGGTGGAGG+TGG 0.510748 3:+97814217 None:intergenic
ATGGAAAGACGTCATTATCA+AGG 0.517700 3:-97812475 MsaT016431.1:CDS
AAAAGCCCGAATGTTCTCCC+TGG 0.523075 3:+97812518 None:intergenic
GCAGTTAACACAAGTGACAT+AGG 0.530050 3:+97811660 None:intergenic
CTAAGGTTGAGTCAACGAAT+GGG 0.530166 3:-97812419 MsaT016431.1:CDS
CCTTCAGTGAAGGTTGAGAA+AGG 0.536034 3:-97812363 MsaT016431.1:CDS
GAAGGAGAAAGAGAAAGAGT+TGG 0.537798 3:-97814279 MsaT016431.1:CDS
AGCATCCGCCGCTTTCTTCG+CGG 0.541475 3:+97814241 None:intergenic
AGAGGCAGATGAAGATATGA+TGG 0.547455 3:-97812070 MsaT016431.1:CDS
GTGGAGAAAGTTAATGGGAA+TGG 0.557971 3:-97812327 MsaT016431.1:CDS
TCTCCGAGATGCTTTAGCTA+AGG 0.559780 3:-97812100 MsaT016431.1:CDS
TTCAGCGCGAGACAAAATAA+GGG 0.562584 3:-97812127 MsaT016431.1:CDS
GCTGAGCTCTGGAAATGTAA+AGG 0.564072 3:-97812295 MsaT016431.1:CDS
GCAAAAGAGTCCTTCAGTGA+AGG 0.568044 3:-97812373 MsaT016431.1:CDS
TCTAAGGTTGAGTCAACGAA+TGG 0.570762 3:-97812420 MsaT016431.1:CDS
AGTTTGCATTTGGTAATAGG+TGG 0.578245 3:+97811708 None:intergenic
AAAGCCCGAATGTTCTCCCT+GGG 0.578463 3:+97812519 None:intergenic
CTGATCAATTTAAGTGTGGT+CGG 0.587454 3:-97811747 MsaT016431.1:CDS
TATTCGTGTGGCAGTGACAG+TGG 0.587816 3:-97812025 MsaT016431.1:CDS
GCTTTGTTCGACTGTGAGCG+TGG 0.588912 3:-97811790 MsaT016431.1:CDS
CAGAAATGGCTAGTGAGCAA+AGG 0.590372 3:-97811843 MsaT016431.1:CDS
AGACCTTAGCTAAAGCATCT+CGG 0.591289 3:+97812097 None:intergenic
AATGGGGAGAGAGCTAAAGC+TGG 0.591506 3:-97812402 MsaT016431.1:CDS
GTGTTAACTGCAACAACCGT+TGG 0.591905 3:-97811648 MsaT016431.1:CDS
AAATGTAAAGGCACAAAATG+TGG 0.596450 3:-97812283 MsaT016431.1:CDS
TTCGCTGGGACTATCATCGG+TGG 0.598548 3:+97814211 None:intergenic
GAGCCCAAAAGGTCAAGTAT+AGG 0.599758 3:-97811966 MsaT016431.1:CDS
AACTCTCACCAAGCATCCCA+GGG 0.605206 3:-97812535 MsaT016431.1:CDS
CAAAATTCTCGTCAATACCC+AGG 0.608507 3:-97814135 MsaT016431.1:intron
GAAAGGAGAAAGTGCCAAGG+TGG 0.613295 3:-97812346 MsaT016431.1:CDS
GCTGGGACTATCATCGGTGG+AGG 0.613512 3:+97814214 None:intergenic
ATGGGGAGAGAGCTAAAGCT+GGG 0.620446 3:-97812401 MsaT016431.1:CDS
AGTGTGGTCGGTGTGGACAA+AGG 0.621667 3:-97811735 MsaT016431.1:CDS
TTTAGCTAAGGTCTTTGAAG+AGG 0.626494 3:-97812088 MsaT016431.1:CDS
TGACTCAACCTTAGAATCAG+AGG 0.626857 3:+97812428 None:intergenic
CAATTTAAGTGTGGTCGGTG+TGG 0.627337 3:-97811742 MsaT016431.1:CDS
TACCTCGAACATCAAAGCGA+AGG 0.634021 3:-97812235 MsaT016431.1:CDS
CTCGAACATCAAAGCGAAGG+AGG 0.641252 3:-97812232 MsaT016431.1:CDS
ACTACTGATCAATTTAAGTG+TGG 0.648979 3:-97811751 MsaT016431.1:CDS
GTACGAAGCCGCGAAGAAAG+CGG 0.650598 3:-97814249 MsaT016431.1:CDS
TGAGAAAGGAGAAAGTGCCA+AGG 0.657225 3:-97812349 MsaT016431.1:CDS
AGTACTAACAAAACTTCCAA+CGG 0.659265 3:+97811632 None:intergenic
TAAGGTTGAGTCAACGAATG+GGG 0.661593 3:-97812418 MsaT016431.1:CDS
CATTTCTGCTGAGCTCATGA+CGG 0.685355 3:+97811858 None:intergenic
CGAAGCCGCGAAGAAAGCGG+CGG 0.685814 3:-97814246 MsaT016431.1:CDS
TCCGTATTATTTGAAAACTG+GGG 0.694223 3:-97812000 MsaT016431.1:CDS
TGCATGTGACCCTATTCGTG+TGG 0.704457 3:-97812037 MsaT016431.1:CDS
TGAGCTGTTCAAGCGCATCG+AGG 0.741948 3:+97814177 None:intergenic
TTGGTACTGTTGAGCCACAG+CGG 0.784321 3:-97811885 MsaT016431.1:CDS

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
Chromosome Type Strat End Strand Name
Chr3 gene 97811636 97814306 97811636 ID=MsaG016431
Chr3 mRNA 97811636 97814306 97811636 ID=MsaT016431.1;Parent=MsaG016431
Chr3 exon 97811636 97812574 97811636 ID=MsaT016431.1.exon2;Parent=MsaT016431.1
Chr3 CDS 97811636 97812574 97811636 ID=cds.MsaT016431.1;Parent=MsaT016431.1
Chr3 exon 97814136 97814306 97814136 ID=MsaT016431.1.exon1;Parent=MsaT016431.1
Chr3 CDS 97814136 97814306 97814136 ID=cds.MsaT016431.1;Parent=MsaT016431.1
Gene Sequence

>MsaT016431.1

ATGGAGAAGGAGAAAGAGAAAGAGTTGGTCGAATTGTACGAAGCCGCGAAGAAAGCGGCGGATGCTTCCACCTCCACCGATGATAGTCCCAGCGAAGAAACCCGTTGCCTCGATGCGCTTGAACAGCTCAAGAATTTTCCGGTCAATTACAAAATTCTCGTCAATACCCAGGTGGGAAAACATCTTAAAACTCTCACCAAGCATCCCAGGGAGAACATTCGGGCTTTTGCTGTTGACTTAATTGCGATATGGAAAGACGTCATTATCAAGGAAACAAGTAAAAATAAGAACGGGGCCTCTGATTCTAAGGTTGAGTCAACGAATGGGGAGAGAGCTAAAGCTGGGAAATTGCAAAAGAGTCCTTCAGTGAAGGTTGAGAAAGGAGAAAGTGCCAAGGTGGAGAAAGTTAATGGGAATGGTTCATCAAAGCTGAGCTCTGGAAATGTAAAGGCACAAAATGTGGATGTCAAAATTGAGAAAACTGATCGTACCTCGAACATCAAAGCGAAGGAGGAAAAACCAGTATCTGTGGCAAAGAAAATTTCATCCAGCACTGCTGCTCCACCAAAGCTGAAGACTATGATCAAATCTAACGATTCAGCGCGAGACAAAATAAGGGAACTTCTCCGAGATGCTTTAGCTAAGGTCTTTGAAGAGGCAGATGAAGATATGATGGATGAAGTGAATGCATGTGACCCTATTCGTGTGGCAGTGACAGTGGAGTCCGTATTATTTGAAAACTGGGGTCCTTCAAATGGAGCCCAAAAGGTCAAGTATAGGTCCTTAATGTTTAATCTTAAGGATCAGAAGAACCCTGATTTCCGGAGAAAAGTTCTGCTTGGTACTGTTGAGCCACAGCGGCTGGCCGTCATGAGCTCAGCAGAAATGGCTAGTGAGCAAAGGAAGCAAGAGAATGAGAAAATCGAGCAGAAAGCTTTGTTCGACTGTGAGCGTGGACTTCAACCAAAAGCTACTACTGATCAATTTAAGTGTGGTCGGTGTGGACAAAGGAAAACCACCTATTACCAAATGCAAACTCGCAGTGCTGATGAACCTATGACAACCTATGTCACTTGTGTTAACTGCAACAACCGTTGGAAGTTTTGTTAG
Protein sequence

>MsaT016431.1

MEKEKEKELVELYEAAKKAADASTSTDDSPSEETRCLDALEQLKNFPVNYKILVNTQVGKHLKTLTKHPRENIRAFAVDLIAIWKDVIIKETSKNKNGASDSKVESTNGERAKAGKLQKSPSVKVEKGESAKVEKVNGNGSSKLSSGNVKAQNVDVKIEKTDRTSNIKAKEEKPVSVAKKISSSTAAPPKLKTMIKSNDSARDKIRELLRDALAKVFEEADEDMMDEVNACDPIRVAVTVESVLFENWGPSNGAQKVKYRSLMFNLKDQKNPDFRRKVLLGTVEPQRLAVMSSAEMASEQRKQENEKIEQKALFDCERGLQPKATTDQFKCGRCGQRKTTYYQMQTRSADEPMTTYVTCVNCNNRWKFC*