AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa ssp. caerulea / MsaG038774

Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsaG038774 MtrunA17_Chr7g0250201 84.488 361 7 6 1 315 1 358 0.0 585
MsaG038774 MtrunA17_Chr4g0066271 47.727 308 96 10 35 303 108 389 3.58e-62 203
MsaG038774 MtrunA17_Chr5g0402321 45.926 135 61 4 23 156 8 131 7.29e-27 105
MsaG038774 MtrunA17_Chr4g0041151 41.000 100 48 4 15 111 8 99 2.90e-13 69.3
MsaG038774 MtrunA17_Chr2g0283871 27.103 107 75 1 32 138 11 114 1.88e-11 63.9
MsaG038774 MtrunA17_Chr1g0179531 34.951 103 59 3 44 146 133 227 2.10e-11 64.7
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsaG038774 AT2G44730.1 39.031 351 123 10 26 311 46 370 3.83e-52 176
MsaG038774 AT3G24860.1 37.037 135 69 4 29 159 50 172 6.01e-22 94.4
MsaG038774 AT3G14180.1 29.197 137 87 4 6 138 42 172 4.91e-14 72.8
MsaG038774 AT3G58630.2 32.374 139 80 4 30 159 15 148 3.51e-12 66.6
MsaG038774 AT3G58630.1 32.374 139 80 4 30 159 15 148 3.83e-12 66.6
MsaG038774 AT3G10030.1 32.632 95 57 2 44 138 161 248 1.22e-11 65.9
MsaG038774 AT3G10030.2 32.632 95 57 2 44 138 161 248 1.23e-11 65.9
MsaG038774 AT3G54390.1 33.628 113 63 3 38 149 32 133 4.50e-11 63.2
MsaG038774 AT3G54390.2 33.628 113 63 3 38 149 48 149 4.69e-11 63.2

Find 102 sgRNAs with CRISPR-Local

Find sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
GAGGTTGGTGGTGGTGGTGC+TGG 0.178332 7:+80387575 None:intergenic
ATCAGAGCAGAGGTTTCTTC+TGG 0.224387 7:+80387521 None:intergenic
CCGGTGGTGGGTTTCGGATT+AGG 0.234801 7:-80387001 MsaT038774.1:CDS
CTTCAAAGCTATGGATTCTA+TGG 0.250239 7:-80387264 MsaT038774.1:CDS
TATGGATATGATTATGATTA+GGG 0.250658 7:+80387198 None:intergenic
TCCGGTGGTTCGGGTGGTTT+TGG 0.257177 7:-80387029 MsaT038774.1:CDS
TGAAATGGTGAATGCTATTA+AGG 0.263524 7:-80386802 MsaT038774.1:intron
AGCGCTGCGGGTGGTGGTTC+TGG 0.286831 7:-80387098 MsaT038774.1:CDS
GCGGGTGGTGGTTCTGGTTC+TGG 0.287442 7:-80387092 MsaT038774.1:CDS
AAAATGAACAATTCAGAATC+TGG 0.292564 7:-80386930 MsaT038774.1:CDS
CTATGGATATGATTATGATT+AGG 0.304409 7:+80387197 None:intergenic
GTGTTTCACGGTGGTTAATA+AGG 0.308149 7:+80387168 None:intergenic
CTATACCGGAATGGAGTTTC+CGG 0.308151 7:-80387047 MsaT038774.1:CDS
CACGGTGGTTAATAAGGTTA+TGG 0.312262 7:+80387174 None:intergenic
AGGTTGGTGGTGGTGGTGCT+GGG 0.313697 7:+80387576 None:intergenic
AATGGAGTTTCCGGTGGTTC+GGG 0.316820 7:-80387038 MsaT038774.1:CDS
GGTGGTGCTGGGAGGGAAAG+AGG 0.321617 7:+80387587 None:intergenic
GAATGGAGTTTCCGGTGGTT+CGG 0.324771 7:-80387039 MsaT038774.1:CDS
GTGGTTCCGGTGGTGGGTTT+CGG 0.326675 7:-80387007 MsaT038774.1:CDS
TTGGTGGTGGTGGTGCTGGG+AGG 0.341538 7:+80387579 None:intergenic
CGTTCAGTGTCGTCACAAAA+TGG 0.351174 7:-80387375 MsaT038774.1:CDS
TCTCAGATCGATAACGTTTA+CGG 0.384665 7:+80387345 None:intergenic
GCATTCACCATTTCACCAAT+TGG 0.387583 7:+80386810 None:intergenic
AAGAGATCCAATTGGTGAAA+TGG 0.395479 7:-80386817 MsaT038774.1:CDS
TTAGCGACGGGTGAAGCGTT+AGG 0.398115 7:+80387404 None:intergenic
TGGTGGTGGTGGTGCTGGGA+GGG 0.406759 7:+80387580 None:intergenic
GTATAGCTTATCAAGACTTC+TGG 0.422110 7:+80387064 None:intergenic
ATCTCGTTCTTCTTCTTCGT+GGG 0.425078 7:-80387291 MsaT038774.1:CDS
GCCGTCTTCCACCACCGTGC+TGG 0.426135 7:-80387547 MsaT038774.1:CDS
GTGGGTTCTCTTCAAAGCTA+TGG 0.427834 7:-80387273 MsaT038774.1:CDS
CGAGATGAGGTTGGTGGTGG+TGG 0.430206 7:+80387569 None:intergenic
TCAGAGCAGAGGTTTCTTCT+GGG 0.439590 7:+80387522 None:intergenic
ACCAAAACCACCCGAACCAC+CGG 0.441911 7:+80387028 None:intergenic
CTTAGAAGCGCTGCGGGTGG+TGG 0.446289 7:-80387104 MsaT038774.1:CDS
GATCTCGTTCTTCTTCTTCG+TGG 0.446498 7:-80387292 MsaT038774.1:CDS
TTGTGTTGGGGAAGAGAGAG+AGG 0.447145 7:-80386866 MsaT038774.1:CDS
CGTCGTTATTTAGTGTTTCA+CGG 0.450882 7:+80387156 None:intergenic
ATCAGCAACTTCTTGCCAAT+GGG 0.456799 7:+80387445 None:intergenic
GTGGTGCTGGGAGGGAAAGA+GGG 0.460638 7:+80387588 None:intergenic
TGGTGGAACAAGGCTTGTTA+AGG 0.460822 7:-80386895 MsaT038774.1:CDS
GAAAGAGAAAGAGATCCAAT+TGG 0.461299 7:-80386825 MsaT038774.1:CDS
GAAGAACGAGATCTCGGAAC+AGG 0.461981 7:+80387302 None:intergenic
TCTGGGGTCCAGCACGGTGG+TGG 0.462923 7:+80387539 None:intergenic
TAGCGACGGGTGAAGCGTTA+GGG 0.470209 7:+80387405 None:intergenic
GAAGAGAGAGAGGGAGAGAG+AGG 0.473857 7:-80386856 MsaT038774.1:CDS
CATCAGCAACTTCTTGCCAA+TGG 0.479554 7:+80387444 None:intergenic
ATCGATTCAGTTGGAGAAGA+TGG 0.479775 7:+80387638 None:intergenic
GGTACGGCTGATGGTGGTGA+TGG 0.482216 7:+80387614 None:intergenic
GGTTAATAAGGTTATGGCTA+TGG 0.487606 7:+80387180 None:intergenic
TGATGATGATGATCTTTATG+AGG 0.488793 7:-80387129 MsaT038774.1:CDS
GTTAAGGAGAGAGTTGTGTT+GGG 0.490506 7:-80386879 MsaT038774.1:CDS
TGTTAAGGAGAGAGTTGTGT+TGG 0.492890 7:-80386880 MsaT038774.1:CDS
AAATGAACAATTCAGAATCT+GGG 0.505187 7:-80386929 MsaT038774.1:CDS
TCTGGTTTATGCGGTGGAGA+AGG 0.505466 7:+80387224 None:intergenic
ACAATTCAGAATCTGGGTCT+AGG 0.507620 7:-80386923 MsaT038774.1:CDS
TCCAGCACGGTGGTGGAAGA+CGG 0.513138 7:+80387546 None:intergenic
TGCGCCACGCTTACACCCGT+TGG 0.515491 7:+80386975 None:intergenic
AGAGGGAGAGGTACGGCTGA+TGG 0.518443 7:+80387605 None:intergenic
GAATCTGGGTCTAGGATCAA+TGG 0.522025 7:-80386915 MsaT038774.1:CDS
AACCACCGGAAACTCCATTC+CGG 0.526038 7:+80387042 None:intergenic
GAGGAACTTAGAAGCGCTGC+GGG 0.530673 7:-80387110 MsaT038774.1:CDS
GAAGTCTTGATAAGCTATAC+CGG 0.544701 7:-80387061 MsaT038774.1:CDS
GCTGGGAGGGAAAGAGGGAG+AGG 0.546456 7:+80387593 None:intergenic
CGGCGAGATGAGGTTGGTGG+TGG 0.548164 7:+80387566 None:intergenic
GTTTCGGATTAGGATTCCAA+CGG 0.549612 7:-80386991 MsaT038774.1:CDS
GCTATGGATTCTATGGAGAA+AGG 0.554265 7:-80387257 MsaT038774.1:CDS
TTAAGGAGAGAGTTGTGTTG+GGG 0.559890 7:-80386878 MsaT038774.1:CDS
GGAGTTTCCGGTGGTTCGGG+TGG 0.560032 7:-80387035 MsaT038774.1:CDS
TTTCGGATTAGGATTCCAAC+GGG 0.561959 7:-80386990 MsaT038774.1:CDS
GAAGAAGAAGAACGAGATCT+CGG 0.565455 7:+80387296 None:intergenic
TGCGGTGGAGAAGGAGGAGA+AGG 0.574396 7:+80387233 None:intergenic
CAAATCTCAAAGCAACCCAT+TGG 0.579861 7:-80387460 MsaT038774.1:CDS
GAGGGAAAGAGGGAGAGGTA+CGG 0.580802 7:+80387598 None:intergenic
GGTGTAAGCGTGGCGCAACC+CGG 0.584893 7:-80386969 MsaT038774.1:CDS
GTTTCTTCTGGGGTCCAGCA+CGG 0.585059 7:+80387533 None:intergenic
CTTGATAAGCTATACCGGAA+TGG 0.585220 7:-80387056 MsaT038774.1:CDS
CTAGGATCAATGGTGGAACA+AGG 0.587512 7:-80386905 MsaT038774.1:CDS
GTACGGCTGATGGTGGTGAT+GGG 0.588413 7:+80387615 None:intergenic
GGTTTATGCGGTGGAGAAGG+AGG 0.594549 7:+80387227 None:intergenic
TGTGTTGGGGAAGAGAGAGA+GGG 0.597007 7:-80386865 MsaT038774.1:CDS
TTTCGGAGAAGAACAAGAAG+AGG 0.600983 7:-80386632 MsaT038774.1:CDS
TGGTGGAAGACGGCGAGATG+AGG 0.605549 7:+80387556 None:intergenic
CAGAGCAGAGGTTTCTTCTG+GGG 0.606594 7:+80387523 None:intergenic
TACCGGAATGGAGTTTCCGG+TGG 0.607715 7:-80387044 MsaT038774.1:CDS
CCTAATCCGAAACCCACCAC+CGG 0.609435 7:+80387001 None:intergenic
CAAGAAGAGGAAACTACACA+AGG 0.615632 7:-80386619 MsaT038774.1:CDS
GGAAGACGGCGAGATGAGGT+TGG 0.615913 7:+80387560 None:intergenic
GATTCCAACGGGTGTAAGCG+TGG 0.625455 7:-80386979 MsaT038774.1:CDS
AGACGGCGAGATGAGGTTGG+TGG 0.626962 7:+80387563 None:intergenic
TGGTGGTGGTGATGTTGCCA+TGG 0.630730 7:+80387658 None:intergenic
GGGAGAGGTACGGCTGATGG+TGG 0.634889 7:+80387608 None:intergenic
GAACTTAGAAGCGCTGCGGG+TGG 0.634991 7:-80387107 MsaT038774.1:CDS
GTAGGAGTCGATCAGAGCAG+AGG 0.641923 7:+80387511 None:intergenic
GGTGATGGGATCGATTCAGT+TGG 0.645748 7:+80387629 None:intergenic
GTTAGGGCAACGAACAGCGA+CGG 0.651606 7:+80387421 None:intergenic
TGAGGAACTTAGAAGCGCTG+CGG 0.656102 7:-80387111 MsaT038774.1:CDS
TCTTCTGGGGTCCAGCACGG+TGG 0.656531 7:+80387536 None:intergenic
TCTGGGTCTAGGATCAATGG+TGG 0.665360 7:-80386912 MsaT038774.1:CDS
TCAGTTGGAGAAGATGGTGG+TGG 0.673207 7:+80387644 None:intergenic
GATTCAGTTGGAGAAGATGG+TGG 0.693067 7:+80387641 None:intergenic
AAGAAGAGGAAACTACACAA+GGG 0.724572 7:-80386618 MsaT038774.1:intron
CGTTATTTAGTGTTTCACGG+TGG 0.748281 7:+80387159 None:intergenic

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
Chromosome Type Strat End Strand Name
Chr7 gene 80386380 80387678 80386380 ID=MsaG038774
Chr7 mRNA 80386380 80387678 80386380 ID=MsaT038774.1;Parent=MsaG038774
Chr7 exon 80386380 80386396 80386380 ID=MsaT038774.1.exon3;Parent=MsaT038774.1
Chr7 CDS 80386380 80386396 80386380 ID=cds.MsaT038774.1;Parent=MsaT038774.1
Chr7 exon 80386619 80386685 80386619 ID=MsaT038774.1.exon2;Parent=MsaT038774.1
Chr7 CDS 80386619 80386685 80386619 ID=cds.MsaT038774.1;Parent=MsaT038774.1
Chr7 exon 80386803 80387678 80386803 ID=MsaT038774.1.exon1;Parent=MsaT038774.1
Chr7 CDS 80386803 80387678 80386803 ID=cds.MsaT038774.1;Parent=MsaT038774.1
Gene Sequence

>MsaT038774.1

ATGGCAACATCACCACCACCATCTTCTCCAACTGAATCGATCCCATCACCACCATCAGCCGTACCTCTCCCTCTTTCCCTCCCAGCACCACCACCACCAACCTCATCTCGCCGTCTTCCACCACCGTGCTGGACCCCAGAAGAAACCTCTGCTCTGATCGACTCCTACCGTGAAAAATGGTACTCTCTCGGTCGAACAAATCTCAAAGCAACCCATTGGCAAGAAGTTGCTGATGCCGTCGCTGTTCGTTGCCCTAACGCTTCACCCGTCGCTAAAACTGCCGTTCAGTGTCGTCACAAAATGGAAAAGCTCCGTAAACGTTATCGATCTGAGATTCAGAAACTTAGATCTCTTCCTGTTCCGAGATCTCGTTCTTCTTCTTCGTGGGTTCTCTTCAAAGCTATGGATTCTATGGAGAAAGGTCCTTCTCCTCCTTCTCCACCGCATAAACCAGAAAACCCTAATCATAATCATATCCATAGCCATAACCTTATTAACCACCGTGAAACACTAAATAACGACGATTATGATGATGATGATCTTTATGAGGAACTTAGAAGCGCTGCGGGTGGTGGTTCTGGTTCTGGTAATACCAGAAGTCTTGATAAGCTATACCGGAATGGAGTTTCCGGTGGTTCGGGTGGTTTTGGTGGTTCCGGTGGTGGGTTTCGGATTAGGATTCCAACGGGTGTAAGCGTGGCGCAACCCGGATCAAAATTCTATCCAAAAATGAACAATTCAGAATCTGGGTCTAGGATCAATGGTGGAACAAGGCTTGTTAAGGAGAGAGTTGTGTTGGGGAAGAGAGAGAGGGAGAGAGAGGTTGAGAGAGAAAGAGAAAGAGATCCAATTGGTGAAATGGTGAATGCTATTAAGCAGAGGATTGTTGAAGCTTTTGCGAAAGCTGTTTCGGAGAAGAACAAGAAGAGGAAACTACACAAGGGTAGGTTGACACAATGA
Protein sequence

>MsaT038774.1

MATSPPPSSPTESIPSPPSAVPLPLSLPAPPPPTSSRRLPPPCWTPEETSALIDSYREKWYSLGRTNLKATHWQEVADAVAVRCPNASPVAKTAVQCRHKMEKLRKRYRSEIQKLRSLPVPRSRSSSSWVLFKAMDSMEKGPSPPSPPHKPENPNHNHIHSHNLINHRETLNNDDYDDDDLYEELRSAAGGGSGSGNTRSLDKLYRNGVSGGSGGFGGSGGGFRIRIPTGVSVAQPGSKFYPKMNNSESGSRINGGTRLVKERVVLGKREREREVERERERDPIGEMVNAIKQRIVEAFAKAVSEKNKKRKLHKGRLTQ*