AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa ssp. caerulea / MsaG015640

Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsaG015640 MtrunA17_Chr3g0120891 97.445 587 9 1 1 587 1 581 0.0 1177
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsaG015640 AT2G04740.1 72.514 553 141 2 16 564 26 571 0.0 833
MsaG015640 AT2G04740.4 70.823 401 106 2 16 412 26 419 0.0 586
MsaG015640 AT2G04740.3 71.059 387 101 2 16 398 26 405 0.0 567
MsaG015640 AT2G04740.2 71.059 387 101 2 16 398 26 405 0.0 567

Find 129 sgRNAs with CRISPR-Local

Find sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
GATTTCCTTGATCATTATTT+AGG 0.129432 3:-89369356 None:intergenic
ATAATTCATCTTTCCCTTCA+TGG 0.209480 3:-89367576 None:intergenic
TCGATGATTTACGTGATAAA+TGG 0.228719 3:+89369382 MsaT015640.1:CDS
TCGATGCTAGAATAACTTTA+TGG 0.235603 3:-89367510 None:intergenic
CCAATCACCGCTGTAATTTC+AGG 0.266996 3:+89369561 MsaT015640.1:CDS
GACTTAGACCCTTCCGATTT+CGG 0.267048 3:+89364577 MsaT015640.1:CDS
TCCCGTGGATTTCAGTTTCC+TGG 0.293460 3:+89364961 MsaT015640.1:CDS
CTTCAGGTGATGCCATTTCT+AGG 0.304251 3:-89368416 None:intergenic
TATGAGAATGGTCAAGATAA+TGG 0.315888 3:+89367385 MsaT015640.1:CDS
TTGCCGATACAAAAGAATTC+CGG 0.318461 3:+89369256 MsaT015640.1:CDS
ACAACTGTCCCGAGCATGCC+TGG 0.328006 3:+89369327 MsaT015640.1:CDS
AACCAATGGCAAAGCTCTTC+AGG 0.332097 3:-89368432 None:intergenic
GGCGAACAAACTGTAATTTC+AGG 0.337080 3:+89369582 MsaT015640.1:CDS
TGCTCCGAACACACGTTTGA+CGG 0.338738 3:+89364802 MsaT015640.1:CDS
CTTGGAAAACGTCGCCGTTT+GGG 0.353575 3:-89364624 None:intergenic
TTACTCTGCTCTTAATTTGA+AGG 0.354172 3:+89364837 MsaT015640.1:CDS
CTGAATAAAAGAAATGTATA+AGG 0.355396 3:-89367114 None:intergenic
TATGACCCTGTGAGCTTCAA+TGG 0.355838 3:-89366984 None:intergenic
ACATCAGCAAGATCATTTAG+AGG 0.359931 3:-89367454 None:intergenic
ATTTCCTTGATCATTATTTA+GGG 0.362505 3:-89369355 None:intergenic
GCAGGAAGCCTGTCTTCTTC+AGG 0.365112 3:-89367319 None:intergenic
CTGCTCTTAATTTGAAGGTT+AGG 0.367208 3:+89364842 MsaT015640.1:CDS
TGCCGATACAAAAGAATTCC+GGG 0.375788 3:+89369257 MsaT015640.1:CDS
CCTGAAATTACAGCGGTGAT+TGG 0.383019 3:-89369561 None:intergenic
GCTTGGAAAACGTCGCCGTT+TGG 0.392528 3:-89364625 None:intergenic
CAGGTACACCGATCGTTTGC+AGG 0.393496 3:+89368216 MsaT015640.1:intron
ATCATTAACAACTTCTGATT+CGG 0.395631 3:-89369517 None:intergenic
AGAGATTGCTGTGGATGATA+TGG 0.401698 3:+89367144 MsaT015640.1:CDS
TCAAATTCCACTTATGAGAA+TGG 0.404180 3:+89367373 MsaT015640.1:CDS
ACGGTCGAGGTCGCCGGCGC+GGG 0.409392 3:-89364650 None:intergenic
AGATAATGGAATCGATGAAT+TGG 0.411155 3:+89367399 MsaT015640.1:CDS
ATCTTGACCATTCTCATAAG+TGG 0.413032 3:-89367380 None:intergenic
GGTCGCCGGCGCGGGAGGCT+TGG 0.425592 3:-89364642 None:intergenic
CAAGCGCCTAGAGATGCTTA+TGG 0.430680 3:+89369461 MsaT015640.1:CDS
TTGACTTTACCGCCACCATC+TGG 0.432801 3:+89369288 MsaT015640.1:CDS
TCAGCCACCGCACGCTTAAG+AGG 0.432979 3:-89368378 None:intergenic
GCAGGAAATAAATCCAGATC+AGG 0.444091 3:+89368234 MsaT015640.1:CDS
GGGGACTGATGTGCCGAAAT+CGG 0.446957 3:-89364590 None:intergenic
GAATCGATGAATTGGTATCT+AGG 0.448978 3:+89367407 MsaT015640.1:CDS
CTCTACTACGCTTGTCTCGC+CGG 0.450922 3:+89364736 MsaT015640.1:CDS
CGTCAACGCACGTGACCAAT+GGG 0.454729 3:+89364702 MsaT015640.1:CDS
ACGTCAACGCACGTGACCAA+TGG 0.460070 3:+89364701 MsaT015640.1:CDS
AAATCCACGGGAATGCGAAT+TGG 0.461122 3:-89364950 None:intergenic
CTCATAAGTGGAATTTGAAA+GGG 0.462115 3:-89367368 None:intergenic
AGGGAAGACCCAGGCATGCT+CGG 0.478303 3:-89369336 None:intergenic
CTTGGTGCCACACCTAGAAA+TGG 0.481090 3:+89368404 MsaT015640.1:CDS
GTCACCGTCAAACGTGTGTT+CGG 0.482387 3:-89364806 None:intergenic
ACGGAGACGGTCGAGGTCGC+CGG 0.484646 3:-89364656 None:intergenic
CGTTAACGCCGCATTCAAGA+AGG 0.487687 3:-89364681 None:intergenic
AGCAAGACTCTCACGTATGA+AGG 0.487920 3:+89367549 MsaT015640.1:CDS
TCTCATAAGTGGAATTTGAA+AGG 0.493040 3:-89367369 None:intergenic
AACACACGTTTGACGGTGAC+CGG 0.496734 3:+89364809 MsaT015640.1:CDS
GCAGAGCATGAAAAGTCATC+AGG 0.503518 3:+89369489 MsaT015640.1:CDS
GCGTGCGGTGGCTGATGTCT+TGG 0.504420 3:+89368386 MsaT015640.1:CDS
AGGATTCTACGCAAGGCTGC+AGG 0.504870 3:-89367337 None:intergenic
CGATGAATTGGTATCTAGGA+TGG 0.507723 3:+89367411 MsaT015640.1:CDS
TCTTCCCTAAATAATGATCA+AGG 0.508410 3:+89369351 MsaT015640.1:CDS
GCTCGTATGCTTCTCGAAAA+CGG 0.515902 3:+89364772 MsaT015640.1:CDS
CCCGCCAATTCGCATTCCCG+TGG 0.516474 3:+89364946 MsaT015640.1:CDS
GGGAAGACCCAGGCATGCTC+GGG 0.516596 3:-89369335 None:intergenic
CAACTGTCCCGAGCATGCCT+GGG 0.516727 3:+89369328 MsaT015640.1:CDS
CGTATGAAGGATTTCCATGA+AGG 0.522102 3:+89367562 MsaT015640.1:CDS
ATGACCCTGTGAGCTTCAAT+GGG 0.523451 3:-89366983 None:intergenic
GTCGAGGTCGCCGGCGCGGG+AGG 0.526895 3:-89364647 None:intergenic
CTCATCTCTCTCGTCAAGCT+CGG 0.531523 3:-89369421 None:intergenic
TCCACGGGAATGCGAATTGG+CGG 0.538062 3:-89364947 None:intergenic
CTAGAATAACTTTATGGCAG+CGG 0.541146 3:-89367504 None:intergenic
TAATTCAAAATTACAAGCAA+TGG 0.541429 3:-89369232 None:intergenic
CAACAACCATAAGCATCTCT+AGG 0.542190 3:-89369467 None:intergenic
GGTGATGCCATTTCTAGGTG+TGG 0.543342 3:-89368411 None:intergenic
GAACTCTGCAACGGATTCAA+AGG 0.544374 3:-89364898 None:intergenic
ATTTATTTCCTGCAAACGAT+CGG 0.548048 3:-89368224 None:intergenic
CACCTGAAGAGCTTTGCCAT+TGG 0.550101 3:+89368430 MsaT015640.1:CDS
CCACGGGAATGCGAATTGGC+GGG 0.551808 3:-89364946 None:intergenic
GAAGGTAACGGAGACGGTCG+AGG 0.554738 3:-89364663 None:intergenic
TGTATAAGGCTACAAAGTGC+AGG 0.556046 3:-89367100 None:intergenic
GAAGACCCATTGAAGCTCAC+AGG 0.556477 3:+89366978 MsaT015640.1:CDS
ATAGGTATTTCATCCACTCA+AGG 0.558796 3:+89366908 MsaT015640.1:intron
AGAGAGCGGTGGAGTCCCAT+TGG 0.560808 3:-89364717 None:intergenic
TATCCCTTCCTGAAGAAGAC+AGG 0.561398 3:+89367311 MsaT015640.1:CDS
ACTGATGTGCCGAAATCGGA+AGG 0.562037 3:-89364586 None:intergenic
ACGAGCGGCATCGAGGTGAC+CGG 0.567999 3:-89364755 None:intergenic
CGGTGAAGTAAGATTTGCAC+GGG 0.578959 3:+89367063 MsaT015640.1:CDS
GACGGTCGAGGTCGCCGGCG+CGG 0.580861 3:-89364651 None:intergenic
GTAAAGTCAACAGCATTGCC+CGG 0.581664 3:-89369275 None:intergenic
TAGGATGGATGCCATGCAGA+TGG 0.591367 3:+89367426 MsaT015640.1:CDS
TAGGTATTTCATCCACTCAA+GGG 0.593239 3:+89366909 MsaT015640.1:intron
AATTTGAAAGGGCAGTCAGA+AGG 0.595225 3:-89367357 None:intergenic
ACCAGGAAACTGAAATCCAC+GGG 0.595513 3:-89364962 None:intergenic
AAGCCTGTCTTCTTCAGGAA+GGG 0.600256 3:-89367314 None:intergenic
ATATAGACAATTCTCAGAAG+CGG 0.601417 3:+89367272 MsaT015640.1:CDS
TACCAGGAAACTGAAATCCA+CGG 0.604072 3:-89364963 None:intergenic
AGTCAGAAGGATTCTACGCA+AGG 0.604259 3:-89367344 None:intergenic
ACAGGGTCATATTAAGTGCA+AGG 0.612478 3:+89366996 MsaT015640.1:CDS
AAGACCCATTGAAGCTCACA+GGG 0.615492 3:+89366979 MsaT015640.1:CDS
GAAGCCTGTCTTCTTCAGGA+AGG 0.615749 3:-89367315 None:intergenic
CTCCGTTACCTTCTTGAATG+CGG 0.621540 3:+89364673 MsaT015640.1:CDS
CGAAGAGATGAGTCTCCAGA+TGG 0.622590 3:-89369303 None:intergenic
TAGAGGTTTAGCCATCTGCA+TGG 0.622841 3:-89367437 None:intergenic
CGTGTTCTTCAAGACAAGGA+AGG 0.623560 3:-89367609 None:intergenic
ATTCAAGAAGGTAACGGAGA+CGG 0.624043 3:-89364669 None:intergenic
GATGTTTCCTCTTAAGCGTG+CGG 0.625855 3:+89368371 MsaT015640.1:CDS
GTTTCCTCTTAAGCGTGCGG+TGG 0.625968 3:+89368374 MsaT015640.1:CDS
TGCAACGGATTCAAAGGAGG+AGG 0.631815 3:-89364892 None:intergenic
CTCTGCAACGGATTCAAAGG+AGG 0.633098 3:-89364895 None:intergenic
AGAGATGAGTCTCCAGATGG+TGG 0.634349 3:-89369300 None:intergenic
ACAAGCGTAGTAGAGAGCGG+TGG 0.635729 3:-89364728 None:intergenic
GTATGAAGGATTTCCATGAA+GGG 0.635765 3:+89367563 MsaT015640.1:CDS
TGAAGAACACGACATGAGTG+TGG 0.636750 3:+89367621 MsaT015640.1:CDS
GATGAGTCTCCAGATGGTGG+CGG 0.638331 3:-89369297 None:intergenic
GTGATTGGAGAGAAAGTCAA+GGG 0.639852 3:-89369546 None:intergenic
TCATTATTTAGGGAAGACCC+AGG 0.639945 3:-89369345 None:intergenic
CGCCGCATTCAAGAAGGTAA+CGG 0.641866 3:-89364675 None:intergenic
GTTGGAACTGAACCCTTGAG+TGG 0.645789 3:-89366921 None:intergenic
GAGACTGATTGGAAAGAGCG+CGG 0.646559 3:+89367043 MsaT015640.1:CDS
AGACAGATTAGAGATTGCTG+TGG 0.649010 3:+89367135 MsaT015640.1:CDS
GGTGATTGGAGAGAAAGTCA+AGG 0.656518 3:-89369547 None:intergenic
ATGTCGTGTTCTTCAAGACA+AGG 0.664235 3:-89367613 None:intergenic
ATCTCTCTCGTCAAGCTCGG+CGG 0.669308 3:-89369418 None:intergenic
CTGATGTGCCGAAATCGGAA+GGG 0.674283 3:-89364585 None:intergenic
TCACGAAGAGAACTCTGCAA+CGG 0.676952 3:-89364907 None:intergenic
TGTCTGCTAGCATTAACCAA+TGG 0.682080 3:-89368446 None:intergenic
ATGAGTTTCATCGACGACGG+CGG 0.684567 3:+89364550 MsaT015640.1:CDS
AGGATGAGTTTCATCGACGA+CGG 0.689914 3:+89364547 None:intergenic
GCGGTGAAGTAAGATTTGCA+CGG 0.696641 3:+89367062 MsaT015640.1:CDS
GAGACAAGCGTAGTAGAGAG+CGG 0.707889 3:-89364731 None:intergenic
TTGTTCGCCTGAAATTACAG+CGG 0.710853 3:-89369568 None:intergenic
TAAGAGCAGAGTAATGACAC+CGG 0.716123 3:-89364828 None:intergenic
GAAGCATACGAGCGGCATCG+AGG 0.723315 3:-89364762 None:intergenic

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
Chromosome Type Strat End Strand Name
Chr3 gene 89364550 89369623 89364550 ID=MsaG015640
Chr3 mRNA 89364550 89369623 89364550 ID=MsaT015640.1;Parent=MsaG015640
Chr3 exon 89364550 89364982 89364550 ID=MsaT015640.1.exon1;Parent=MsaT015640.1
Chr3 CDS 89364550 89364982 89364550 ID=cds.MsaT015640.1;Parent=MsaT015640.1
Chr3 exon 89366912 89367671 89366912 ID=MsaT015640.1.exon2;Parent=MsaT015640.1
Chr3 CDS 89366912 89367671 89366912 ID=cds.MsaT015640.1;Parent=MsaT015640.1
Chr3 exon 89368219 89368255 89368219 ID=MsaT015640.1.exon3;Parent=MsaT015640.1
Chr3 CDS 89368219 89368255 89368219 ID=cds.MsaT015640.1;Parent=MsaT015640.1
Chr3 exon 89368336 89368469 89368336 ID=MsaT015640.1.exon4;Parent=MsaT015640.1
Chr3 CDS 89368336 89368469 89368336 ID=cds.MsaT015640.1;Parent=MsaT015640.1
Chr3 exon 89369194 89369623 89369194 ID=MsaT015640.1.exon5;Parent=MsaT015640.1
Chr3 CDS 89369194 89369623 89369194 ID=cds.MsaT015640.1;Parent=MsaT015640.1
Gene Sequence

>MsaT015640.1

ATGAGTTTCATCGACGACGGCGGCATCGACTTAGACCCTTCCGATTTCGGCACATCAGTCCCCTTAAAAAAAGTCCCAAACGGCGACGTTTTCCAAGCCTCCCGCGCCGGCGACCTCGACCGTCTCCGTTACCTTCTTGAATGCGGCGTTAACGTCAACGCACGTGACCAATGGGACTCCACCGCTCTCTACTACGCTTGTCTCGCCGGTCACCTCGATGCCGCTCGTATGCTTCTCGAAAACGGCGCTATTTGCTCCGAACACACGTTTGACGGTGACCGGTGTCATTACTCTGCTCTTAATTTGAAGGTTAGGAAGCTTCTTAAAGCTTTTGAAGCTCGTCCTCCTCCTTTGAATCCGTTGCAGAGTTCTCTTCGTGATACTTTCTTTGCTTGTCCCGCCAATTCGCATTCCCGTGGATTTCAGTTTCCTGGTATTTCATCCACTCAAGGGTTCAGTTCCAACTACTTTCCCCCAGATGTGGTTTTTACTGTACAAGGAAGACCCATTGAAGCTCACAGGGTCATATTAAGTGCAAGGTCGCCATTTTTCAAGAAAAAGTTTGAGACTGATTGGAAAGAGCGCGGTGAAGTAAGATTTGCACGGGAAAAGCTGTCATATCCTGCACTTTGTAGCCTTATACATTTCTTTTATTCAGACAGATTAGAGATTGCTGTGGATGATATGGAGAATCTTGTGAGAATTTGCAAAGTATGCAAATGTGAATCTCTGCAGAAAATTCTTGAGAAAGAACTAATTCATCAAAAATATGCAGACTATAAAGCTTTGACAGATATAGACAATTCTCAGAAGCGGTTTATTTTACAGGGCATATCCCTTCCTGAAGAAGACAGGCTTCCTGCAGCCTTGCGTAGAATCCTTCTGACTGCCCTTTCAAATTCCACTTATGAGAATGGTCAAGATAATGGAATCGATGAATTGGTATCTAGGATGGATGCCATGCAGATGGCTAAACCTCTAAATGATCTTGCTGATGTTTGCGTTAGAGTTGATAAAAAGAGTTTCCGCTGCCATAAAGTTATTCTAGCATCGAGATCAGAATATTTCAAAGCAAGACTCTCACGTATGAAGGATTTCCATGAAGGGAAAGATGAATTATATATTGACTTCCTTCCTTGTCTTGAAGAACACGACATGAGTGTGGAAGCATTTGAGAAAATGATTGAATATATGTACACCGATCGTTTGCAGGAAATAAATCCAGATCAGGCTGAGGAAATGTTTGATATTGCTTCTAGATACTTGATGTTTCCTCTTAAGCGTGCGGTGGCTGATGTCTTGGTGCCACACCTAGAAATGGCATCACCTGAAGAGCTTTGCCATTGGTTAATGCTAGCAGACATGTATGGTGTTTTGAAGATTCGGGAATTCTGTCTAGATACCATTGCTTGTAATTTTGAATTATTTGCCGATACAAAAGAATTCCGGGCAATGCTGTTGACTTTACCGCCACCATCTGGAGACTCATCTCTTCGTACAACTGTCCCGAGCATGCCTGGGTCTTCCCTAAATAATGATCAAGGAAATCTTCTCGATGATTTACGTGATAAATGGCTTGAAATTGAAGCCGCCGAGCTTGACGAGAGAGATGAGAGTGCTTTACAATTTGACAAGCGCCTAGAGATGCTTATGGTTGTTGCAGAGCATGAAAAGTCATCAGGTGATGCCGAATCAGAAGTTGTTAATGATGTCACACCCTTGACTTTCTCTCCAATCACCGCTGTAATTTCAGGCGAACAAACTGTAATTTCAGGCGAACAAAAAGAACCGTAG
Protein sequence

>MsaT015640.1

MSFIDDGGIDLDPSDFGTSVPLKKVPNGDVFQASRAGDLDRLRYLLECGVNVNARDQWDSTALYYACLAGHLDAARMLLENGAICSEHTFDGDRCHYSALNLKVRKLLKAFEARPPPLNPLQSSLRDTFFACPANSHSRGFQFPGISSTQGFSSNYFPPDVVFTVQGRPIEAHRVILSARSPFFKKKFETDWKERGEVRFAREKLSYPALCSLIHFFYSDRLEIAVDDMENLVRICKVCKCESLQKILEKELIHQKYADYKALTDIDNSQKRFILQGISLPEEDRLPAALRRILLTALSNSTYENGQDNGIDELVSRMDAMQMAKPLNDLADVCVRVDKKSFRCHKVILASRSEYFKARLSRMKDFHEGKDELYIDFLPCLEEHDMSVEAFEKMIEYMYTDRLQEINPDQAEEMFDIASRYLMFPLKRAVADVLVPHLEMASPEELCHWLMLADMYGVLKIREFCLDTIACNFELFADTKEFRAMLLTLPPPSGDSSLRTTVPSMPGSSLNNDQGNLLDDLRDKWLEIEAAELDERDESALQFDKRLEMLMVVAEHEKSSGDAESEVVNDVTPLTFSPITAVISGEQTVISGEQKEP*