AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar zhongmu-4 / Msa1463600


Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
Msa1463600 MtrunA17_Chr4g0035601 84.444 180 20 4 1 176 1 176 3.51e-87 253
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
Msa1463600 AT4G34630.1 54.217 83 34 2 94 174 117 197 2.70e-19 81.3

Find 35 sgRNAs with CRISPR-Local

Find 45 sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
ATGATGATTCTTTCATTTCT+TGG 0.184142 tig0043454:+6488 Msa1463600:CDS
GAGACAGAGGATGAGGAAAT+TGG 0.199364 tig0043454:+6717 Msa1463600:CDS
CGATGGGTTATTCGTTCAAT+TGG 0.268599 tig0043454:-6535 Msa1463600:intergenic
AGACAGAGGATGAGGAAATT+GGG 0.300950 tig0043454:+6718 Msa1463600:CDS
TGGTCAAATTCTTCTATAAT+CGG 0.322860 tig0043454:+6508 Msa1463600:CDS
TGGGATATAGGGAACAAGTT+AGG 0.331295 tig0043454:+6694 Msa1463600:CDS
GAGCTTGTTCCATGGGATAT+AGG 0.337033 tig0043454:+6682 Msa1463600:CDS
AGCTTGTTCCATGGGATATA+GGG 0.363293 tig0043454:+6683 Msa1463600:CDS
ATGCTGATTCTCTTCTTCAA+TGG 0.381531 tig0043454:+6395 Msa1463600:CDS
TCATGAATTGAACTTGTTCA+AGG 0.391947 tig0043454:-6363 Msa1463600:intergenic
TGCTGATTCTCTTCTTCAAT+GGG 0.397374 tig0043454:+6396 Msa1463600:CDS
AGATGATGGTGATGATGATT+TGG 0.404444 tig0043454:+6654 Msa1463600:CDS
TCGATGATGATGATGAAGTT+TGG 0.426925 tig0043454:-6327 Msa1463600:intergenic
GGGATATAGGGAACAAGTTA+GGG 0.447825 tig0043454:+6695 Msa1463600:CDS
GGATGAGGAAATTGGGGAAA+AGG 0.455028 tig0043454:+6725 Msa1463600:CDS
CTTCACTTTCATCATCATCA+TGG 0.456100 tig0043454:-6621 Msa1463600:intergenic
GATGAGGAAATTGGGGAAAA+GGG 0.462244 tig0043454:+6726 Msa1463600:CDS
GATGGGTTATTCGTTCAATT+GGG 0.466090 tig0043454:-6534 Msa1463600:intergenic
GTGAGGCCTGGTTGTGTTCG+TGG 0.487697 tig0043454:+6793 Msa1463600:CDS
TGTTCGTGGCAAACATGGCA+TGG 0.512051 tig0043454:+6807 Msa1463600:CDS
GGATGATGAGCTTGTTCCAT+GGG 0.527521 tig0043454:+6675 Msa1463600:CDS
GACAGAGGATGAGGAAATTG+GGG 0.528458 tig0043454:+6719 Msa1463600:CDS
AGTTAGGGAGACAGAGGATG+AGG 0.528796 tig0043454:+6710 Msa1463600:CDS
CTGGGTCATCGAGATGAATA+CGG 0.538229 tig0043454:-6558 Msa1463600:intergenic
AACTTGTTCCCTATATCCCA+TGG 0.564453 tig0043454:-6691 Msa1463600:intergenic
CATCGAGATGAATACGGCGA+TGG 0.565334 tig0043454:-6552 Msa1463600:intergenic
TGGATGATGAGCTTGTTCCA+TGG 0.581692 tig0043454:+6674 Msa1463600:CDS
GTTCTTCACTGTAGCCAACA+TGG 0.585726 tig0043454:-6591 Msa1463600:intergenic
ATCGAGATGAATACGGCGAT+GGG 0.587715 tig0043454:-6551 Msa1463600:intergenic
GAAGAAGATGATGAAGATGA+TGG 0.597886 tig0043454:+6640 Msa1463600:CDS
TGTTTGCCACGAACACAACC+AGG 0.597931 tig0043454:-6799 Msa1463600:intergenic
GGTTGTGTTCGTGGCAAACA+TGG 0.602974 tig0043454:+6802 Msa1463600:CDS
GGAACAAGTTAGGGAGACAG+AGG 0.614922 tig0043454:+6704 Msa1463600:CDS
CCAGTTGAAAATCACCATGT+TGG 0.626221 tig0043454:+6577 Msa1463600:CDS
GTTCGTGGCAAACATGGCAT+GGG 0.631538 tig0043454:+6808 Msa1463600:CDS

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
! ATGATGATTCTTTCATTTCT+TGG + tig0043454:6488-6507 Msa1463600:CDS 25.0%
! TGGTCAAATTCTTCTATAAT+CGG + tig0043454:6508-6527 Msa1463600:CDS 25.0%
! CAAAAATGAATAATTCGAAG+AGG + tig0043454:6755-6774 Msa1463600:CDS 25.0%
! TCATGAATTGAACTTGTTCA+AGG - tig0043454:6366-6385 Msa1194010:intergenic 30.0%
AATCAGAAGAAGAAGAAGAA+AGG + tig0043454:6449-6468 Msa1463600:CDS 30.0%
ATCAGAAGAAGAAGAAGAAA+GGG + tig0043454:6450-6469 Msa1463600:CDS 30.0%
! TCGATGATGATGATGAAGTT+TGG - tig0043454:6330-6349 Msa1194010:intergenic 35.0%
!! ATGCTGATTCTCTTCTTCAA+TGG + tig0043454:6395-6414 Msa1463600:CDS 35.0%
!! TGCTGATTCTCTTCTTCAAT+GGG + tig0043454:6396-6415 Msa1463600:CDS 35.0%
!! GATGGGTTATTCGTTCAATT+GGG - tig0043454:6537-6556 Msa1463600:intergenic 35.0%
! CAACATGGTGATTTTCAACT+GGG - tig0043454:6579-6598 Msa1463600:intergenic 35.0%
CTTCACTTTCATCATCATCA+TGG - tig0043454:6624-6643 Msa1463600:intergenic 35.0%
GAAGAAGATGATGAAGATGA+TGG + tig0043454:6640-6659 Msa1463600:CDS 35.0%
! AGATGATGGTGATGATGATT+TGG + tig0043454:6654-6673 Msa1463600:CDS 35.0%
!! CGATGGGTTATTCGTTCAAT+TGG - tig0043454:6538-6557 Msa1463600:intergenic 40.0%
! CCAACATGGTGATTTTCAAC+TGG - tig0043454:6580-6599 Msa1463600:intergenic 40.0%
CCAGTTGAAAATCACCATGT+TGG + tig0043454:6577-6596 Msa1463600:CDS 40.0%
! AGCTTGTTCCATGGGATATA+GGG + tig0043454:6683-6702 Msa1463600:CDS 40.0%
! AACTTGTTCCCTATATCCCA+TGG - tig0043454:6694-6713 Msa1463600:intergenic 40.0%
TGGGATATAGGGAACAAGTT+AGG + tig0043454:6694-6713 Msa1463600:CDS 40.0%
GGGATATAGGGAACAAGTTA+GGG + tig0043454:6695-6714 Msa1463600:CDS 40.0%
AGACAGAGGATGAGGAAATT+GGG + tig0043454:6718-6737 Msa1463600:CDS 40.0%
GATGAGGAAATTGGGGAAAA+GGG + tig0043454:6726-6745 Msa1463600:CDS 40.0%
AGGCCTCACAAAAAGAATAG+GGG - tig0043454:6782-6801 Msa1463600:intergenic 40.0%
CAGGCCTCACAAAAAGAATA+GGG - tig0043454:6783-6802 Msa1463600:intergenic 40.0%
ATCGAGATGAATACGGCGAT+GGG - tig0043454:6554-6573 Msa1463600:intergenic 45.0%
CTGGGTCATCGAGATGAATA+CGG - tig0043454:6561-6580 Msa1463600:intergenic 45.0%
GTTCTTCACTGTAGCCAACA+TGG - tig0043454:6594-6613 Msa1463600:intergenic 45.0%
! TGGATGATGAGCTTGTTCCA+TGG + tig0043454:6674-6693 Msa1463600:CDS 45.0%
! GGATGATGAGCTTGTTCCAT+GGG + tig0043454:6675-6694 Msa1463600:CDS 45.0%
! GAGCTTGTTCCATGGGATAT+AGG + tig0043454:6682-6701 Msa1463600:CDS 45.0%
GAGACAGAGGATGAGGAAAT+TGG + tig0043454:6717-6736 Msa1463600:CDS 45.0%
GACAGAGGATGAGGAAATTG+GGG + tig0043454:6719-6738 Msa1463600:CDS 45.0%
GGATGAGGAAATTGGGGAAA+AGG + tig0043454:6725-6744 Msa1463600:CDS 45.0%
! GGTCCCCTATTCTTTTTGTG+AGG + tig0043454:6776-6795 Msa1463600:CDS 45.0%
CCAGGCCTCACAAAAAGAAT+AGG - tig0043454:6784-6803 Msa1463600:intergenic 45.0%
! CCTATTCTTTTTGTGAGGCC+TGG + tig0043454:6781-6800 Msa1463600:CDS 45.0%
CATCGAGATGAATACGGCGA+TGG - tig0043454:6555-6574 Msa1463600:intergenic 50.0%
GGAACAAGTTAGGGAGACAG+AGG + tig0043454:6704-6723 Msa1463600:CDS 50.0%
AGTTAGGGAGACAGAGGATG+AGG + tig0043454:6710-6729 Msa1463600:CDS 50.0%
TGTTTGCCACGAACACAACC+AGG - tig0043454:6802-6821 Msa1463600:intergenic 50.0%
GGTTGTGTTCGTGGCAAACA+TGG + tig0043454:6802-6821 Msa1463600:CDS 50.0%
TGTTCGTGGCAAACATGGCA+TGG + tig0043454:6807-6826 Msa1463600:CDS 50.0%
GTTCGTGGCAAACATGGCAT+GGG + tig0043454:6808-6827 Msa1463600:CDS 50.0%
GTGAGGCCTGGTTGTGTTCG+TGG + tig0043454:6793-6812 Msa1463600:CDS 60.0%
Chromosome Type Strat End Strand Name
tig0043454 gene 6319 6849 6319 ID=Msa1463600;Name=Msa1463600
tig0043454 mRNA 6319 6849 6319 ID=Msa1463600-mRNA-1;Parent=Msa1463600;Name=Msa1463600-mRNA-1;_AED=0.00;_eAED=0.03;_QI=0|-1|0|1|-1|1|1|0|176
tig0043454 exon 6319 6849 6319 ID=Msa1463600-mRNA-1:exon:24130;Parent=Msa1463600-mRNA-1
tig0043454 CDS 6319 6849 6319 ID=Msa1463600-mRNA-1:cds;Parent=Msa1463600-mRNA-1
Gene Sequence

>Msa1463600

ATGGAAAACCAAACTTCATCATCATCATCGATGCAGTTTCTCATCCTTGAACAAGTTCAATTCATGAAAGTGAATGATGCTGATTCTCTTCTTCAATGGGAACTTGTTGATGTTGTTGACGCTGAAGAACAATCAGAAGAAGAAGAAGAAAGGGTTGATGTTGATGATGATGATGATTCTTTCATTTCTTGGTCAAATTCTTCTATAATCGGTGACCCAATTGAACGAATAACCCATCGCCGTATTCATCTCGATGACCCAGTTGAAAATCACCATGTTGGCTACAGTGAAGAACAAGTTAGCCATGATGATGATGAAAGTGAAGAAGATGATGAAGATGATGGTGATGATGATTTGGATGATGAGCTTGTTCCATGGGATATAGGGAACAAGTTAGGGAGACAGAGGATGAGGAAATTGGGGAAAAGGGTTTCTTCAAAAATGAATAATTCGAAGAGGTCCCCTATTCTTTTTGTGAGGCCTGGTTGTGTTCGTGGCAAACATGGCATGGGTCTTAAACACTGTTTTTAG

Protein sequence

>Msa1463600

MENQTSSSSSMQFLILEQVQFMKVNDADSLLQWELVDVVDAEEQSEEEEERVDVDDDDDSFISWSNSSIIGDPIERITHRRIHLDDPVENHHVGYSEEQVSHDDDESEEDDEDDGDDDLDDELVPWDIGNKLGRQRMRKLGKRVSSKMNNSKRSPILFVRPGCVRGKHGMGLKHCF*