AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa ssp. caerulea / MsaG017260

Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsaG017260 MtrunA17_Chr3g0138401 96.084 383 13 1 1 381 34 416 0.0 741
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsaG017260 AT4G32570.1 38.281 384 156 12 1 376 49 359 7.23e-49 169
MsaG017260 AT4G32570.2 39.298 285 103 6 1 283 49 265 1.70e-47 165

Find 123 sgRNAs with CRISPR-Local

Find sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
TAATTCTGATTCCTCATTTA+TGG 0.101310 3:-107404048 MsaT017260.1:CDS
CTAAGATTGATGCGAATAAA+TGG 0.197424 3:-107403725 MsaT017260.1:CDS
ATCAGTAGCAGCGGTGTTTA+TGG 0.205391 3:+107403512 None:intergenic
TCCACCTCCGAAACCGTTTC+TGG 0.230412 3:-107404740 MsaT017260.1:intron
ATTATATTAGTTAGAGGTTT+TGG 0.247280 3:+107403453 None:intergenic
AATTCTGATTCCTCATTTAT+GGG 0.297898 3:-107404047 MsaT017260.1:CDS
GTTTATGGAACTTAAAATTC+CGG 0.306770 3:+107403527 None:intergenic
ACCAGCTTTGCAGTAGATTT+CGG 0.332699 3:+107401334 None:intergenic
CATAGTGGAGAAAATGAAAC+AGG 0.343306 3:-107401295 MsaT017260.1:CDS
GATTCTATTATATTAGTTAG+AGG 0.379814 3:+107403447 None:intergenic
GACCATTTGAAAGGCATCTC+TGG 0.380703 3:+107404019 None:intergenic
TCTCTCCTCCAGACGCATTT+CGG 0.381595 3:+107403841 None:intergenic
GATGTTATAATGGCTTTGGC+TGG 0.382975 3:-107401391 MsaT017260.1:CDS
TTCCACCGACGTTAGGTTAC+CGG 0.385652 3:-107404810 MsaT017260.1:CDS
TTTATGGAACTTAAAATTCC+GGG 0.391734 3:+107403528 None:intergenic
CTCGAGGGAGTTCCATTCTA+TGG 0.400380 3:-107404131 MsaT017260.1:CDS
AACTAACTTCAAACAAGCTT+AGG 0.400478 3:-107403623 MsaT017260.1:CDS
TGCTAAAGATACTAGAAATC+CGG 0.405348 3:-107400663 MsaT017260.1:CDS
GGAGAAAGGGCCACGAGCAC+CGG 0.406027 3:+107404763 None:intergenic
TAAGCTTGTTTGAAGTTAGT+TGG 0.412879 3:+107403625 None:intergenic
CATGGGAAGTTGTCTGCTAC+TGG 0.416162 3:-107401238 MsaT017260.1:CDS
GCCACGAGCACCGGCGGAGG+AGG 0.420220 3:+107404772 None:intergenic
GTGCTTACCAGAAACGGTTT+CGG 0.424015 3:+107404733 None:intergenic
CGCGGAGGATGCTGCATGGA+AGG 0.427118 3:+107403675 None:intergenic
ATCTGGCGGCTGGCAGGTGT+TGG 0.436258 3:+107403280 None:intergenic
CTGGGTCAAATGGTGGATCT+TGG 0.437897 3:-107401372 MsaT017260.1:CDS
GGCAGATGTTATAATGGCTT+TGG 0.438099 3:-107401395 MsaT017260.1:CDS
TGATGATGTCCACCAACATA+AGG 0.439728 3:-107403224 MsaT017260.1:intron
GAAGTTAGTTGGTGTGCAAA+AGG 0.439875 3:+107403636 None:intergenic
CAGGTCCTCCGAAATGCGTC+TGG 0.445569 3:-107403849 MsaT017260.1:CDS
TCACTTCTTGGGCCATAGAA+TGG 0.448253 3:+107404119 None:intergenic
CGCATCAATCTTAGTGTTGG+CGG 0.457246 3:+107403734 None:intergenic
TCAAAACTCACATTTGATGA+AGG 0.458213 3:-107403985 MsaT017260.1:intron
GGAGTAGATACACGGTCAAC+AGG 0.460556 3:+107401193 None:intergenic
ATAGTCATCTGGCGGCTGGC+AGG 0.466446 3:+107403274 None:intergenic
TATCAATTTGGTAGAAAAGC+AGG 0.466579 3:-107404165 MsaT017260.1:intron
ACCAGAAACGGTTTCGGAGG+TGG 0.466600 3:+107404739 None:intergenic
GCATTCCCACAAGAGCTTCA+TGG 0.467087 3:-107401256 MsaT017260.1:CDS
TATGCAGGCAGATGTTATAA+TGG 0.469314 3:-107401401 MsaT017260.1:intron
CATTCCCACAAGAGCTTCAT+GGG 0.469855 3:-107401255 MsaT017260.1:CDS
CTCCAGAGATGCCTTTCAAA+TGG 0.470651 3:-107404021 MsaT017260.1:CDS
AAGCTTAGGGATACCATTGC+CGG 0.471593 3:-107403609 MsaT017260.1:CDS
TAAGATTGATGCGAATAAAT+GGG 0.473687 3:-107403724 MsaT017260.1:CDS
ACCGAAATCTACTGCAAAGC+TGG 0.475875 3:-107401335 MsaT017260.1:CDS
GTTTCGGAGGTGGAGGAGAA+AGG 0.476240 3:+107404749 None:intergenic
GACCGTGTATCTACTCCAAC+CGG 0.477444 3:-107401187 MsaT017260.1:intron
AGGGCCACGAGCACCGGCGG+AGG 0.478100 3:+107404769 None:intergenic
ATGGCTTTGGCTGGGTCAAA+TGG 0.478398 3:-107401382 MsaT017260.1:CDS
CTGATACTTCCACCGACGTT+AGG 0.478726 3:-107404817 MsaT017260.1:CDS
CTGGAGGAGAGAGATCTAGA+AGG 0.484867 3:-107403830 MsaT017260.1:CDS
GCCTCCTCCGCCGGTGCTCG+TGG 0.487582 3:-107404773 MsaT017260.1:CDS
GGATCTGCTGCTTGAACCGC+CGG 0.490647 3:+107400644 None:intergenic
TCAGCATCAGCCTCCTCCGC+CGG 0.490900 3:-107404782 MsaT017260.1:CDS
GCTGATGAAGGATCTAGAAC+TGG 0.491143 3:-107403561 MsaT017260.1:CDS
AACTTCCCATGAAGCTCTTG+TGG 0.491396 3:+107401250 None:intergenic
CTCCATAAAAGATAGTCATC+TGG 0.496051 3:+107403263 None:intergenic
ACTAACTTCAAACAAGCTTA+GGG 0.496585 3:-107403622 MsaT017260.1:CDS
TTTCGGAGGTGGAGGAGAAA+GGG 0.497327 3:+107404750 None:intergenic
GAGATAAGTAACAGACTAGT+GGG 0.497646 3:-107404083 MsaT017260.1:CDS
ACTTCCCATGAAGCTCTTGT+GGG 0.498210 3:+107401251 None:intergenic
TTAATAGTGCTTACCAGAAA+CGG 0.500267 3:+107404727 None:intergenic
ATTCGCATCAATCTTAGTGT+TGG 0.504337 3:+107403731 None:intergenic
GCAGGCTGAGAGATAAATGA+AGG 0.506389 3:+107403585 None:intergenic
AATGACGACGAAGTGTTACT+TGG 0.506870 3:-107403804 MsaT017260.1:CDS
AGTAACACTTCGTCGTCATT+AGG 0.511001 3:+107403807 None:intergenic
GAAAGGGCCACGAGCACCGG+CGG 0.511791 3:+107404766 None:intergenic
GGATCTAGAACTGGAATCAA+AGG 0.514477 3:-107403552 MsaT017260.1:CDS
GAGGCTGATGCTGATGCCTC+CGG 0.517085 3:+107404791 None:intergenic
TCTCAGCCTGCCGCTGATGA+AGG 0.519106 3:-107403573 MsaT017260.1:CDS
GCATCAATCTTAGTGTTGGC+GGG 0.522950 3:+107403735 None:intergenic
CTAGATCCTTCATCAGCGGC+AGG 0.525101 3:+107403567 None:intergenic
CGATCTATTCTCATGAATGC+TGG 0.527762 3:-107403699 MsaT017260.1:CDS
GGCAGTTCTAGCCGTGCCGT+TGG 0.541164 3:-107401217 MsaT017260.1:CDS
ATGTTATAATGGCTTTGGCT+GGG 0.543215 3:-107401390 MsaT017260.1:CDS
AATATCTGAGAACTAGAAGA+TGG 0.544323 3:+107403765 None:intergenic
AAAGATAGTCATCTGGCGGC+TGG 0.544851 3:+107403270 None:intergenic
GCATTGAACAGCAGTCAACA+TGG 0.551557 3:-107403304 MsaT017260.1:intron
CTGAGAGATAAATGAAGGGC+CGG 0.554107 3:+107403590 None:intergenic
GATAAATGAAGGGCCGGCAA+TGG 0.555598 3:+107403596 None:intergenic
ATTTCATCTGTGGTGTTGCT+CGG 0.555835 3:-107403486 MsaT017260.1:CDS
GCGGAGGATGCTGCATGGAA+GGG 0.560490 3:+107403676 None:intergenic
AGAACTGGAATCAAAGGCCC+CGG 0.567203 3:-107403546 MsaT017260.1:CDS
AGAAACGGTTTCGGAGGTGG+AGG 0.574883 3:+107404742 None:intergenic
AATGATAGTAACTTGCATAG+TGG 0.579416 3:-107401310 MsaT017260.1:CDS
TCTGGAGGAACCCATAAATG+AGG 0.581916 3:+107404037 None:intergenic
TCCACGCGGAGGATGCTGCA+TGG 0.586678 3:+107403671 None:intergenic
GAGGTCAGACCTTATGTTGG+TGG 0.592305 3:+107403215 None:intergenic
GCTTTGGCTGGGTCAAATGG+TGG 0.593671 3:-107401379 MsaT017260.1:CDS
GGTCAACAGGTCCAACGGCA+CGG 0.599017 3:+107401206 None:intergenic
GGAATCAGGGACCATTTGAA+AGG 0.601761 3:+107404010 None:intergenic
TACACGGTCAACAGGTCCAA+CGG 0.603243 3:+107401201 None:intergenic
CTCCTCCAGACGCATTTCGG+AGG 0.605747 3:+107403844 None:intergenic
CCGGTTGTAGGGGTACATCA+AGG 0.607519 3:-107400695 MsaT017260.1:intron
AACGTCGGTGGAAGTATCAG+TGG 0.609086 3:+107404820 None:intergenic
GTCCTCCGAAATGCGTCTGG+AGG 0.623376 3:-107403846 MsaT017260.1:CDS
TGAGATAAGTAACAGACTAG+TGG 0.631355 3:-107404084 MsaT017260.1:CDS
CTTACCAGAAACGGTTTCGG+AGG 0.633124 3:+107404736 None:intergenic
ATGCAGCATCCTCCGCGTGG+AGG 0.635328 3:-107403669 MsaT017260.1:CDS
TACTGATAAAATTTCATCTG+TGG 0.635799 3:-107403496 MsaT017260.1:CDS
CATTTGAAAGGCATCTCTGG+AGG 0.646720 3:+107404022 None:intergenic
CACCGACGTTAGGTTACCGG+AGG 0.647418 3:-107404807 MsaT017260.1:CDS
CAGGTATCGAATCATCTCGA+GGG 0.650968 3:-107404146 MsaT017260.1:CDS
TACGAGGTCAGACCTTATGT+TGG 0.651133 3:+107403212 None:intergenic
AGTTCTAGATCCTTCATCAG+CGG 0.651396 3:+107403563 None:intergenic
CATTGAACAGCAGTCAACAT+GGG 0.652838 3:-107403303 MsaT017260.1:intron
CTCCGGTAACCTAACGTCGG+TGG 0.654776 3:+107404808 None:intergenic
ACGTCGGTGGAAGTATCAGT+GGG 0.655076 3:+107404821 None:intergenic
GCAGGTATCGAATCATCTCG+AGG 0.661921 3:-107404147 MsaT017260.1:CDS
TTATGGAACTTAAAATTCCG+GGG 0.662736 3:+107403529 None:intergenic
TCAATCTTAGTGTTGGCGGG+AGG 0.664926 3:+107403738 None:intergenic
CATAAAAGATAGTCATCTGG+CGG 0.666315 3:+107403266 None:intergenic
TCCATGCAGCATCCTCCGCG+TGG 0.673722 3:-107403672 MsaT017260.1:CDS
CAGGCTGAGAGATAAATGAA+GGG 0.676282 3:+107403586 None:intergenic
GTCAACTGTCCTCCACGCGG+AGG 0.679890 3:+107403660 None:intergenic
TCATCTGTGGTGTTGCTCGG+TGG 0.681028 3:-107403483 MsaT017260.1:CDS
AACAGGGTTAGTGAGTAATG+TGG 0.689431 3:-107401278 MsaT017260.1:CDS
TACCGGTTGGAGTAGATACA+CGG 0.691538 3:+107401185 None:intergenic
TGCCTCCGGTAACCTAACGT+CGG 0.705158 3:+107404805 None:intergenic
ATAAGATAGATTTACCTTGG+GGG 0.712059 3:+107403417 None:intergenic
TAAAGATACTAGAAATCCGG+CGG 0.716386 3:-107400660 MsaT017260.1:CDS
ATAGTGGAGAAAATGAAACA+GGG 0.722474 3:-107401294 MsaT017260.1:CDS
AGATAAGTAACAGACTAGTG+GGG 0.741446 3:-107404082 MsaT017260.1:CDS
GGAGTCAACTGTCCTCCACG+CGG 0.758189 3:+107403657 None:intergenic

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
Chromosome Type Strat End Strand Name
Chr3 gene 107400616 107404849 107400616 ID=MsaG017260
Chr3 mRNA 107400616 107404849 107400616 ID=MsaT017260.1;Parent=MsaG017260
Chr3 exon 107400616 107400707 107400616 ID=MsaT017260.1.exon6;Parent=MsaT017260.1
Chr3 CDS 107400616 107400707 107400616 ID=cds.MsaT017260.1;Parent=MsaT017260.1
Chr3 exon 107401188 107401416 107401188 ID=MsaT017260.1.exon5;Parent=MsaT017260.1
Chr3 CDS 107401188 107401416 107401188 ID=cds.MsaT017260.1;Parent=MsaT017260.1
Chr3 exon 107403225 107403315 107403225 ID=MsaT017260.1.exon4;Parent=MsaT017260.1
Chr3 CDS 107403225 107403315 107403225 ID=cds.MsaT017260.1;Parent=MsaT017260.1
Chr3 exon 107403432 107403868 107403432 ID=MsaT017260.1.exon3;Parent=MsaT017260.1
Chr3 CDS 107403432 107403868 107403432 ID=cds.MsaT017260.1;Parent=MsaT017260.1
Chr3 exon 107403986 107404173 107403986 ID=MsaT017260.1.exon2;Parent=MsaT017260.1
Chr3 CDS 107403986 107404173 107403986 ID=cds.MsaT017260.1;Parent=MsaT017260.1
Chr3 exon 107404741 107404849 107404741 ID=MsaT017260.1.exon1;Parent=MsaT017260.1
Chr3 CDS 107404741 107404849 107404741 ID=cds.MsaT017260.1;Parent=MsaT017260.1
Gene Sequence

>MsaT017260.1

ATGAAGCCCACTGATACTTCCACCGACGTTAGGTTACCGGAGGCATCAGCATCAGCCTCCTCCGCCGGTGCTCGTGGCCCTTTCTCCTCCACCTCCGAAACCGTTTCTGAAAAGCAGGTATCGAATCATCTCGAGGGAGTTCCATTCTATGGCCCAAGAAGTGATTTTTCTGGCACTGAGATAAGTAACAGACTAGTGGGGAATAAGAGAAGTAATTCTGATTCCTCATTTATGGGTTCCTCCAGAGATGCCTTTCAAATGGTCCCTGATTCCTTTCAAAACTCACATTTGATGAAGGTCCTCCGAAATGCGTCTGGAGGAGAGAGATCTAGAAGGCCTAATGACGACGAAGTGTTACTTGGTATGCAGTCAATGAAGCCATCTTCTAGTTCTCAGATATTTCATCCTCCCGCCAACACTAAGATTGATGCGAATAAATGGGAACGATCTATTCTCATGAATGCTGGCCCTTCCATGCAGCATCCTCCGCGTGGAGGACAGTTGACTCCTTTTGCACACCAACTAACTTCAAACAAGCTTAGGGATACCATTGCCGGCCCTTCATTTATCTCTCAGCCTGCCGCTGATGAAGGATCTAGAACTGGAATCAAAGGCCCCGGAATTTTAAGTTCCATAAACACCGCTGCTACTGATAAAATTTCATCTGTGGTGTTGCTCGGTGGAAGCAGACCAAAACCTCTAACTAATATAATAGAATCATCCACGCCCCCAAGCAGTCAACATGGGCCAACACCTGCCAGCCGCCAGATGACTATCTTTTATGGAGGTCAAGCTCATGTTTTTGATGATGTCCACCAACATAAGGCAGATGTTATAATGGCTTTGGCTGGGTCAAATGGTGGATCTTGGTCGACAGCATTCTCACCGAAATCTACTGCAAAGCTGGTCAATGATAGTAACTTGCATAGTGGAGAAAATGAAACAGGGTTAGTGAGTAATGTGGCATTCCCACAAGAGCTTCATGGGAAGTTGTCTGCTACTGGCAGTTCTAGCCGTGCCGTTGGACCTGTTGACCGTGTATCTACTCCAACCGGGGTACATCAAGGAAGCATTTTTGCTAAAGATACTAGAAATCCGGCGGTTCAAGCAGCAGATCCCAGTTCCGAAGACAAAAGAGCGCAGTGA
Protein sequence

>MsaT017260.1

MKPTDTSTDVRLPEASASASSAGARGPFSSTSETVSEKQVSNHLEGVPFYGPRSDFSGTEISNRLVGNKRSNSDSSFMGSSRDAFQMVPDSFQNSHLMKVLRNASGGERSRRPNDDEVLLGMQSMKPSSSSQIFHPPANTKIDANKWERSILMNAGPSMQHPPRGGQLTPFAHQLTSNKLRDTIAGPSFISQPAADEGSRTGIKGPGILSSINTAATDKISSVVLLGGSRPKPLTNIIESSTPPSSQHGPTPASRQMTIFYGGQAHVFDDVHQHKADVIMALAGSNGGSWSTAFSPKSTAKLVNDSNLHSGENETGLVSNVAFPQELHGKLSATGSSSRAVGPVDRVSTPTGVHQGSIFAKDTRNPAVQAADPSSEDKRAQ*