AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa ssp. caerulea / MsaG016689

Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsaG016689 MtrunA17_Chr3g0132851 88.115 244 4 1 1 219 1 244 1.17e-151 448
MsaG016689 MtrunA17_Chr8g0346141 74.537 216 50 4 8 219 34 248 1.86e-106 310
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsaG016689 AT1G09710.5 45.192 208 106 4 13 219 13 213 1.25e-46 162
MsaG016689 AT1G09710.3 45.192 208 106 4 13 219 13 213 1.25e-46 162
MsaG016689 AT1G09710.1 45.192 208 106 4 13 219 42 242 2.14e-46 162
MsaG016689 AT1G09710.4 45.192 208 106 4 13 219 42 242 2.14e-46 162
MsaG016689 AT1G09710.2 45.192 208 106 4 13 219 42 242 3.29e-46 162
MsaG016689 AT1G58220.2 41.315 213 113 6 8 219 36 237 4.79e-40 146
MsaG016689 AT1G58220.1 41.315 213 113 6 8 219 36 237 6.27e-40 145

Find 57 sgRNAs with CRISPR-Local

Find sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
TGTGTTGCGCTTCTCTTAAT+AGG 0.279479 3:+100801816 None:intergenic
AGAAATGGGGTGAAGGGAAT+TGG 0.300076 3:-100801866 MsaT016689.1:CDS
GTCTGTCTCGGGACAGTAAC+TGG 0.309971 3:+100802014 None:intergenic
GCTTCTTGATCGAGATCTTC+GGG 0.317039 3:+100804394 None:intergenic
ACGGGAAAATTTACAGTCAT+TGG 0.321089 3:+100802107 None:intergenic
AGCTTCTTGATCGAGATCTT+CGG 0.334407 3:+100804393 None:intergenic
TTCGCAGCCCTCTATCTTGA+TGG 0.342268 3:-100802057 MsaT016689.1:CDS
AACCTCAATTGTTGAGCTAC+TGG 0.391789 3:+100802130 None:intergenic
ATGATTCCAGCTCGCAATCT+AGG 0.394178 3:+100802999 None:intergenic
TACGGGATGCTGTTCAGAAA+TGG 0.406647 3:-100801881 MsaT016689.1:CDS
AAAAGCATGGTCAGAGGAAG+AGG 0.416790 3:-100801913 MsaT016689.1:CDS
TTAGAAACCAAGGTAACAAT+TGG 0.423542 3:-100801963 MsaT016689.1:CDS
ACCTCAATTGTTGAGCTACT+GGG 0.427532 3:+100802131 None:intergenic
TCTTTGAACTTCTAGATGAA+TGG 0.440438 3:+100802081 None:intergenic
GAGCTGGAATCATTACCTTC+TGG 0.440450 3:-100802989 MsaT016689.1:CDS
GAAATGGGGTGAAGGGAATT+GGG 0.444920 3:-100801865 MsaT016689.1:CDS
CTTCTAGATGAATGGCAAAC+GGG 0.459236 3:+100802089 None:intergenic
ACGGGATGCTGTTCAGAAAT+GGG 0.471647 3:-100801880 MsaT016689.1:CDS
TACCTTGGTTTCTAAAGCAT+CGG 0.478903 3:+100801971 None:intergenic
GGTACCACCAATTGTTACCT+TGG 0.493291 3:+100801956 None:intergenic
CCATAGCATCTGATATTCTC+TGG 0.495184 3:+100804444 None:intergenic
ACAGTTGGCAGTGTCTGTCT+CGG 0.505188 3:+100802002 None:intergenic
TGACTGATCCATCAAGATAG+AGG 0.511332 3:+100802049 None:intergenic
CAGTTGGCAGTGTCTGTCTC+GGG 0.514798 3:+100802003 None:intergenic
CTATGGCGTCACTTGGCGTA+TGG 0.518446 3:-100804427 MsaT016689.1:CDS
AAGCGCAACACAATTGTCTC+AGG 0.522310 3:-100801805 MsaT016689.1:CDS
CCCCAGTAGCTCAACAATTG+AGG 0.526713 3:-100802132 MsaT016689.1:CDS
ACTTCTAGATGAATGGCAAA+CGG 0.529138 3:+100802088 None:intergenic
GTGGTACCGCAGCTTCCAAA+AGG 0.530566 3:-100801941 MsaT016689.1:CDS
CCAGAGAATATCAGATGCTA+TGG 0.535838 3:-100804444 MsaT016689.1:CDS
GAAACCAAGGTAACAATTGG+TGG 0.536953 3:-100801960 MsaT016689.1:CDS
AATTGGGCAACCATGGCAAA+AGG 0.537782 3:-100801849 MsaT016689.1:CDS
TCAGATGCTATGGCGTCACT+TGG 0.551439 3:-100804434 MsaT016689.1:CDS
GGTAGATTCACTTAGTGTGC+GGG 0.552870 3:+100802154 None:intergenic
TGAAGGGAATTGGGCAACCA+TGG 0.558310 3:-100801856 MsaT016689.1:CDS
CGATCAAGAAGCTCAACCTA+TGG 0.560608 3:-100804383 MsaT016689.1:intron
CTGTTCAGAAATGGGGTGAA+GGG 0.567453 3:-100801872 MsaT016689.1:CDS
GCTGTTCAGAAATGGGGTGA+AGG 0.567552 3:-100801873 MsaT016689.1:CDS
CCTCAATTGTTGAGCTACTG+GGG 0.577311 3:+100802132 None:intergenic
GCATCGGTTGATGATACAGT+TGG 0.580284 3:+100801987 None:intergenic
GGAAGAGGACAATTTGCTAC+GGG 0.583393 3:-100801898 MsaT016689.1:CDS
GAAAAGAAAAGCATGGTCAG+AGG 0.589169 3:-100801919 MsaT016689.1:CDS
AGGAAGAGGACAATTTGCTA+CGG 0.589284 3:-100801899 MsaT016689.1:CDS
ATCATTACCTTCTGGATGTG+CGG 0.593358 3:-100802981 MsaT016689.1:CDS
TTGATCGAGATCTTCGGGGA+AGG 0.594489 3:+100804399 None:intergenic
TTGGTGAAGAAAACAACCAC+TGG 0.597524 3:-100804478 MsaT016689.1:CDS
GACTGATCCATCAAGATAGA+GGG 0.602991 3:+100802050 None:intergenic
AACCGATGCTTTAGAAACCA+AGG 0.629910 3:-100801973 MsaT016689.1:CDS
TAGTGACCTAGATTGCGAGC+TGG 0.630707 3:-100803005 MsaT016689.1:CDS
GTAGATTCCGCACATCCAGA+AGG 0.634450 3:+100802974 None:intergenic
AGAGACTTCAGCATGTGTGA+AGG 0.635460 3:-100802948 MsaT016689.1:intron
CGGGATGCTGTTCAGAAATG+GGG 0.635932 3:-100801879 MsaT016689.1:CDS
GGGTAGATTCACTTAGTGTG+CGG 0.638583 3:+100802153 None:intergenic
CCAAAAGGAAAAGAAAAGCA+TGG 0.641628 3:-100801926 MsaT016689.1:CDS
CTCAATTGTTGAGCTACTGG+GGG 0.652868 3:+100802133 None:intergenic
CTTCTTGATCGAGATCTTCG+GGG 0.680812 3:+100804395 None:intergenic
TCTGGCAGTAGAAATACCAG+TGG 0.714592 3:+100804462 None:intergenic

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
Chromosome Type Strat End Strand Name
Chr3 gene 100801788 100804738 100801788 ID=MsaG016689
Chr3 mRNA 100801788 100804738 100801788 ID=MsaT016689.1;Parent=MsaG016689
Chr3 exon 100801788 100802189 100801788 ID=MsaT016689.1.exon4;Parent=MsaT016689.1
Chr3 CDS 100801788 100802189 100801788 ID=cds.MsaT016689.1;Parent=MsaT016689.1
Chr3 exon 100802949 100803035 100802949 ID=MsaT016689.1.exon3;Parent=MsaT016689.1
Chr3 CDS 100802949 100803035 100802949 ID=cds.MsaT016689.1;Parent=MsaT016689.1
Chr3 exon 100804384 100804545 100804384 ID=MsaT016689.1.exon2;Parent=MsaT016689.1
Chr3 CDS 100804384 100804545 100804384 ID=cds.MsaT016689.1;Parent=MsaT016689.1
Chr3 exon 100804715 100804738 100804715 ID=MsaT016689.1.exon1;Parent=MsaT016689.1
Chr3 CDS 100804715 100804738 100804715 ID=cds.MsaT016689.1;Parent=MsaT016689.1
Gene Sequence

>MsaT016689.1

ATGCCAGAAAAGAAGTCTAAGAAAGAATTATCACATTACGCTGCTGACGAGAATTTTAATTGGAATGAATTGGTGAAGAAAACAACCACTGGTATTTCTACTGCCAGAGAATATCAGATGCTATGGCGTCACTTGGCGTATGGTTATTCCTTCCCCGAAGATCTCGATCAAGAAGCTCAACCTATGGATGATGATAGTGACCTAGATTGCGAGCTGGAATCATTACCTTCTGGATGTGCGGAATCTACATCAGAGACTTCAGCATGTGTGAAGGTGATAATTGCTTCCCGCACACTAAGTGAATCTACCCCCAGTAGCTCAACAATTGAGGTTCCAATGACTGTAAATTTTCCCGTTTGCCATTCATCTAGAAGTTCAAAGATTTCGCAGCCCTCTATCTTGATGGATCAGTCAAGCATTATGTTTCCAGTTACTGTCCCGAGACAGACACTGCCAACTGTATCATCAACCGATGCTTTAGAAACCAAGGTAACAATTGGTGGTACCGCAGCTTCCAAAAGGAAAAGAAAAGCATGGTCAGAGGAAGAGGACAATTTGCTACGGGATGCTGTTCAGAAATGGGGTGAAGGGAATTGGGCAACCATGGCAAAAGGAGACAGCTTTCCTATTAAGAGAAGCGCAACACAATTGTCTCAGGTGTTTTTTCAATCCTAA
Protein sequence

>MsaT016689.1

MPEKKSKKELSHYAADENFNWNELVKKTTTGISTAREYQMLWRHLAYGYSFPEDLDQEAQPMDDDSDLDCELESLPSGCAESTSETSACVKVIIASRTLSESTPSSSTIEVPMTVNFPVCHSSRSSKISQPSILMDQSSIMFPVTVPRQTLPTVSSTDALETKVTIGGTAASKRKRKAWSEEEDNLLRDAVQKWGEGNWATMAKGDSFPIKRSATQLSQVFFQS*