AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa ssp. caerulea / MsaG024565

Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsaG024565 MtrunA17_Chr8g0391471 87.816 435 11 5 1 396 1 432 0.0 703
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsaG024565 AT2G01650.2 57.955 440 130 7 1 396 1 429 1.83e-166 474
MsaG024565 AT2G01650.1 57.955 440 130 7 1 396 1 429 1.83e-166 474
MsaG024565 AT2G01650.3 56.888 392 114 7 1 348 1 381 5.55e-144 414

Find 90 sgRNAs with CRISPR-Local

Find sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
TCTATTGGTACTTATGTTTC+AGG 0.140987 4:-100948566 MsaT024565.1:CDS
GTAGGTTTGGGTTTGGGATT+AGG 0.175605 4:+100948866 None:intergenic
CGAAAGGGTTGTTTACAAAT+TGG 0.223879 4:+100948710 None:intergenic
CCCACAGCTTCTTTAATCTT+TGG 0.237677 4:+100948443 None:intergenic
TAGGTTTGGGTTTGGGATTA+GGG 0.259606 4:+100948867 None:intergenic
GATACACAAGAACTATTATT+AGG 0.271026 4:-100947131 MsaT024565.1:CDS
TGAGAAGAGAAGCTGAATTA+AGG 0.273073 4:-100947230 MsaT024565.1:CDS
GGTGGAGTAGGTTTGGGTTT+GGG 0.283318 4:+100948860 None:intergenic
GTCTTCTTCCTCTATCGTTT+TGG 0.294303 4:+100946724 None:intergenic
GAAGCTGTGGGCGAGGTTAT+TGG 0.314917 4:-100948431 MsaT024565.1:CDS
ACTGAATTGGAGATTTCTAT+TGG 0.324761 4:-100948581 MsaT024565.1:CDS
TGCTTTAAAAGAATCATGTT+TGG 0.332951 4:-100946819 MsaT024565.1:CDS
CGGTGGAGTAGGTTTGGGTT+TGG 0.338165 4:+100948859 None:intergenic
TTCCTAAACTTAACATTCTC+AGG 0.339946 4:+100948482 None:intergenic
GTTGAATTGCTGAGTTTGTT+AGG 0.350477 4:-100948404 MsaT024565.1:CDS
CGGAGAGACATGGGCATTCA+TGG 0.352162 4:-100948360 MsaT024565.1:CDS
TTCTGAGTCTAATACTGAAT+TGG 0.356720 4:-100948594 MsaT024565.1:CDS
TTCAGCTGAACGTTTGTAGA+AGG 0.363666 4:+100947257 None:intergenic
TCTTCTCAAAGATCTCAAAA+TGG 0.368840 4:-100948758 MsaT024565.1:CDS
AGCGATCGGTGGAGTAGGTT+TGG 0.369595 4:+100948853 None:intergenic
ATGTTAAGTTTAGGAAGATT+AGG 0.375559 4:-100948475 MsaT024565.1:CDS
CAAGAAAGCAATTGTGTTGT+TGG 0.381393 4:-100948306 MsaT024565.1:CDS
GCGATCGGTGGAGTAGGTTT+GGG 0.384107 4:+100948854 None:intergenic
GGGGTAGGAATGGAATTTGC+AGG 0.422062 4:+100948911 None:intergenic
TCAGATGGAGTTGTACTTCA+AGG 0.423651 4:-100947099 MsaT024565.1:CDS
AACCTGAGAATGTTAAGTTT+AGG 0.430889 4:-100948484 MsaT024565.1:CDS
AAAGGCCAAGGTCGAGTCTT+GGG 0.431284 4:-100948947 MsaT024565.1:CDS
ATTGTTGAGGAATATTGTTA+AGG 0.431444 4:-100948507 MsaT024565.1:CDS
GAACGTTTGTAGAAGGAATC+TGG 0.447302 4:+100947264 None:intergenic
CTATTGGTACTTATGTTTCA+GGG 0.450380 4:-100948565 MsaT024565.1:CDS
TGTGTTGTTGGAACCACAAT+TGG 0.459857 4:-100948294 MsaT024565.1:intron
ATCCCATGTTTCCCAAAAGC+AGG 0.471596 4:-100946755 MsaT024565.1:CDS
TCTGAGAAGGACGAGGGGTA+GGG 0.472504 4:+100948891 None:intergenic
TCTTCTTCTGGTAAATTCAA+AGG 0.474590 4:-100948965 MsaT024565.1:CDS
CAAAGGCCAAGGTCGAGTCT+TGG 0.475772 4:-100948948 MsaT024565.1:CDS
TTCTGAGAAGGACGAGGGGT+AGG 0.483289 4:+100948890 None:intergenic
CTGAGAAGGACGAGGGGTAG+GGG 0.483771 4:+100948892 None:intergenic
GTTAGGATTTGAACTTAAAG+AGG 0.484850 4:-100948387 MsaT024565.1:CDS
AACCTCGTCCTCGGATCGAA+AGG 0.485306 4:+100948694 None:intergenic
ACCAACTACTGCTCTGTATG+AGG 0.485891 4:-100947058 MsaT024565.1:intron
TTCAAGGTGTATTTGCTCCA+TGG 0.496010 4:-100947083 MsaT024565.1:CDS
TAAGTTTAGGAAGATTAGGA+TGG 0.496165 4:-100948471 MsaT024565.1:CDS
ACCCTTTCGATCCGAGGACG+AGG 0.506482 4:-100948696 MsaT024565.1:CDS
CTACAAACGTTCAGCTGAAG+AGG 0.515065 4:-100947253 MsaT024565.1:CDS
TCAAGGTGTATTTGCTCCAT+GGG 0.515302 4:-100947082 MsaT024565.1:CDS
GAAGTGACGAATGAATCAAA+TGG 0.527530 4:+100948779 None:intergenic
ACCTCGTCCTCGGATCGAAA+GGG 0.530145 4:+100948695 None:intergenic
GTGTTCAGAAACCTCGTCCT+CGG 0.530401 4:+100948685 None:intergenic
ATATTGTTCTTAAATTGTTG+AGG 0.534264 4:-100948520 MsaT024565.1:CDS
AAGAGGAGAACGGAGAGACA+TGG 0.535036 4:-100948370 MsaT024565.1:CDS
AAGCCATCTGCGGGTTTGCG+TGG 0.535106 4:+100948806 None:intergenic
TTGCTTTGATCTGAAGCGAT+CGG 0.538206 4:+100948839 None:intergenic
CTTTGATCTGAAGCGATCGG+TGG 0.538600 4:+100948842 None:intergenic
AGAGCAGTAGTTGGTTCCCA+TGG 0.544179 4:+100947066 None:intergenic
ACACGCCGTTGAACAACTAC+AGG 0.546054 4:+100946779 None:intergenic
TCTGGTAAATTCAAAGGCCA+AGG 0.550240 4:-100948959 MsaT024565.1:CDS
GAAGGACGAGGGGTAGGGGT+AGG 0.552141 4:+100948896 None:intergenic
TTGATTAGGCAGAAGGCACC+AGG 0.553360 4:+100946702 None:intergenic
TCCAAAGATTAAAGAAGCTG+TGG 0.555466 4:-100948444 MsaT024565.1:CDS
GATTAAAGAAGCTGTGGGCG+AGG 0.555589 4:-100948438 MsaT024565.1:CDS
CTTGAACTTGATTAGGCAGA+AGG 0.556576 4:+100946695 None:intergenic
ACGAGGGGTAGGGGTAGGAA+TGG 0.557142 4:+100948901 None:intergenic
AAATTAACTTTCTCCTCGGT+AGG 0.559081 4:+100948332 None:intergenic
TTGGGATTAGGGTTCTGAGA+AGG 0.565323 4:+100948878 None:intergenic
AAGTTTAGGAAGATTAGGAT+GGG 0.568581 4:-100948470 MsaT024565.1:CDS
TGAGTATCTTGAACCAATTG+TGG 0.569841 4:+100948281 None:intergenic
AATGGATCAAAGCCATCTGC+GGG 0.571592 4:+100948797 None:intergenic
TCTGAAGCGATCGGTGGAGT+AGG 0.577813 4:+100948848 None:intergenic
GATCAAATTAACTTTCTCCT+CGG 0.582104 4:+100948328 None:intergenic
TAAACAACCCTTTCGATCCG+AGG 0.585535 4:-100948702 MsaT024565.1:CDS
GATGTAAAAGACAAGATGAA+AGG 0.585648 4:-100949031 MsaT024565.1:CDS
GTTTCAGGGAATCCGTCTGA+AGG 0.588125 4:-100948551 MsaT024565.1:CDS
AAGAACCCAAGACTCGACCT+TGG 0.590087 4:+100948942 None:intergenic
ACCTCATACAGAGCAGTAGT+TGG 0.594344 4:+100947057 None:intergenic
TTTGAACTTAAAGAGGAGAA+CGG 0.595229 4:-100948380 MsaT024565.1:CDS
TGCATCCTGTAGTTGTTCAA+CGG 0.598631 4:-100946784 MsaT024565.1:CDS
AGAGGAGAACGGAGAGACAT+GGG 0.598709 4:-100948369 MsaT024565.1:CDS
TTAGGGTTCTGAGAAGGACG+AGG 0.599978 4:+100948884 None:intergenic
AACGATAGAGGAAGAAGACC+TGG 0.600898 4:-100946720 MsaT024565.1:CDS
AAATGGATCAAAGCCATCTG+CGG 0.612029 4:+100948796 None:intergenic
AAACCACGCAAACCCGCAGA+TGG 0.614242 4:-100948809 MsaT024565.1:CDS
TCCCATGTTTCCCAAAAGCA+GGG 0.615985 4:-100946754 MsaT024565.1:CDS
CCAAAGATTAAAGAAGCTGT+GGG 0.630530 4:-100948443 MsaT024565.1:CDS
TAGGGTTCTGAGAAGGACGA+GGG 0.637909 4:+100948885 None:intergenic
GCTGTGGGCGAGGTTATTGG+TGG 0.660528 4:-100948428 MsaT024565.1:CDS
ATATCAACAGAACCTTCAGA+CGG 0.678273 4:+100948539 None:intergenic
ATTCATGGAGGTTCCTACCG+AGG 0.688667 4:-100948345 MsaT024565.1:CDS
GGACGAGGTTTCTGAACACG+TGG 0.689204 4:-100948681 MsaT024565.1:CDS
AGAGACATGGGCATTCATGG+AGG 0.712922 4:-100948357 MsaT024565.1:CDS
AGGGTTCTGAGAAGGACGAG+GGG 0.727880 4:+100948886 None:intergenic

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
Chromosome Type Strat End Strand Name
Chr4 gene 100946706 100949059 100946706 ID=MsaG024565
Chr4 mRNA 100946706 100949059 100946706 ID=MsaT024565.1;Parent=MsaG024565
Chr4 exon 100946706 100946852 100946706 ID=MsaT024565.1.exon3;Parent=MsaT024565.1
Chr4 CDS 100946706 100946852 100946706 ID=cds.MsaT024565.1;Parent=MsaT024565.1
Chr4 exon 100947059 100947337 100947059 ID=MsaT024565.1.exon2;Parent=MsaT024565.1
Chr4 CDS 100947059 100947337 100947059 ID=cds.MsaT024565.1;Parent=MsaT024565.1
Chr4 exon 100948295 100949059 100948295 ID=MsaT024565.1.exon1;Parent=MsaT024565.1
Chr4 CDS 100948295 100949059 100948295 ID=cds.MsaT024565.1;Parent=MsaT024565.1
Gene Sequence

>MsaT024565.1

ATGGACGATGTAAAAGACAAGATGAAAGGATTCATCAAGAAAGTTAACAACCCTTTCACTTCTTCTTCTTCTTCTTCTTCTGGTAAATTCAAAGGCCAAGGTCGAGTCTTGGGTTCTTCTTCTACACCTGCAAATTCCATTCCTACCCCTACCCCTCGTCCTTCTCAGAACCCTAATCCCAAACCCAAACCTACTCCACCGATCGCTTCAGATCAAAGCAAAATCGATAAACCACGCAAACCCGCAGATGGCTTTGATCCATTTGATTCATTCGTCACTTCTTCTCAAAGATCTCAAAATGGCTATTCACTCAACGTATATGAATGTCCAATTTGTAAACAACCCTTTCGATCCGAGGACGAGGTTTCTGAACACGTGGAATCTTGTTTGAGTAACCCAATTGAAAACGATGATGATGTGTCAAAATTGAAAGAGAGTCAAGTTTCTGAGTCTAATACTGAATTGGAGATTTCTATTGGTACTTATGTTTCAGGGAATCCGTCTGAAGGTTCTGTTGATATTGTTCTTAAATTGTTGAGGAATATTGTTAAGGAACCTGAGAATGTTAAGTTTAGGAAGATTAGGATGGGTAATCCAAAGATTAAAGAAGCTGTGGGCGAGGTTATTGGTGGTGTTGAATTGCTGAGTTTGTTAGGATTTGAACTTAAAGAGGAGAACGGAGAGACATGGGCATTCATGGAGGTTCCTACCGAGGAGAAAGTTAATTTGATCAAGAAAGCAATTGTGTTGTTGGAACCACAATTGGTGAAGGTCTTCTTTGCTGTCTCTGAAAGTGTTGCAGCTAGAATTGAGCTACCAGATTCCTTCTACAAACGTTCAGCTGAAGAGGTGAGAAGAGAAGCTGAATTAAGGAGAAAAAAGATTGAAGAGTCTCAGCTTTTAATCCCAAAGTCACTTAAAGAAAAGCAAGCTAAAGCTGCGAAGAAGAGATACACAAGAACTATTATTAGGATTCAGTTTTCAGATGGAGTTGTACTTCAAGGTGTATTTGCTCCATGGGAACCAACTACTGCTCTGTATGAGTTTGTGAGCTCTGCTTTAAAAGAATCATGTTTGGAATTTGAGCTAATGCATCCTGTAGTTGTTCAACGGCGTGTAATCCCATGTTTCCCAAAAGCAGGGCAAAAAGCCAAAACGATAGAGGAAGAAGACCTGGTGCCTTCTGCCTAA
Protein sequence

>MsaT024565.1

MDDVKDKMKGFIKKVNNPFTSSSSSSSGKFKGQGRVLGSSSTPANSIPTPTPRPSQNPNPKPKPTPPIASDQSKIDKPRKPADGFDPFDSFVTSSQRSQNGYSLNVYECPICKQPFRSEDEVSEHVESCLSNPIENDDDVSKLKESQVSESNTELEISIGTYVSGNPSEGSVDIVLKLLRNIVKEPENVKFRKIRMGNPKIKEAVGEVIGGVELLSLLGFELKEENGETWAFMEVPTEEKVNLIKKAIVLLEPQLVKVFFAVSESVAARIELPDSFYKRSAEEVRREAELRRKKIEESQLLIPKSLKEKQAKAAKKRYTRTIIRIQFSDGVVLQGVFAPWEPTTALYEFVSSALKESCLEFELMHPVVVQRRVIPCFPKAGQKAKTIEEEDLVPSA*