AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar XinJiangDaYe / MS.gene05266

Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene05266.t1 MTR_6g077680 90.710 183 16 1 4 186 228 409 3.45e-100 299
MS.gene05266.t1 MTR_6g077680 90.710 183 16 1 4 186 228 409 1.10e-98 299
MS.gene05266.t1 MTR_6g477680 87.500 80 10 0 107 186 248 327 8.40e-41 143
MS.gene05266.t1 MTR_6g078990 89.552 67 7 0 119 185 125 191 5.47e-34 121
MS.gene05266.t1 MTR_6g078920 40.000 120 41 3 77 187 39 136 5.54e-12 62.4
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score

Find 27 sgRNAs with CRISPR-Local

Find 40 sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
GCCATGTGCTTTCACTTTCT+TGG 0.125138 6.2:+78368871 None:intergenic
CACAGAAGGCAGTGATGATT+TGG 0.298529 6.2:-78368526 MS.gene05266:CDS
ATTCTGTTTCCCCACCTAAA+AGG 0.309770 6.2:-78368443 MS.gene05266:CDS
TAGAAAACGACCCAGACTTT+TGG 0.316398 6.2:+78368580 None:intergenic
AAAATGACTGCCCAAAAGTC+TGG 0.353947 6.2:-78368591 MS.gene05266:CDS
CTTGAAAATTGTTTCTTGTA+CGG 0.446562 6.2:-78368688 MS.gene05266:CDS
GCACCTGAGAGATTGTTTCT+CGG 0.446708 6.2:-78368633 MS.gene05266:CDS
CTCTCAGGTGCTGACTGTGC+AGG 0.492736 6.2:+78368645 None:intergenic
TATCTAGCCAGTCAGATTCA+TGG 0.493530 6.2:+78368895 None:intergenic
TAAAACCAAAACTAGATAGC+AGG 0.517299 6.2:+78368411 None:intergenic
ATCTAGCCAGTCAGATTCAT+GGG 0.518207 6.2:+78368896 None:intergenic
GAACCGAGAAACAATCTCTC+AGG 0.519527 6.2:+78368630 None:intergenic
AAATGACTGCCCAAAAGTCT+GGG 0.557494 6.2:-78368590 MS.gene05266:CDS
CGTCATCCCATGAATCTGAC+TGG 0.564527 6.2:-78368902 MS.gene05266:CDS
TGTAGAAAGACGCAAGCAGA+AGG 0.569822 6.2:-78368805 MS.gene05266:CDS
TGCAGCTAACAGAATGTGGA+GGG 0.572957 6.2:+78368724 None:intergenic
CAGTCAGATTCATGGGATGA+CGG 0.610115 6.2:+78368903 None:intergenic
TCCTCAGAACATCCTCTGCT+AGG 0.620776 6.2:+78368480 None:intergenic
CTGTTTCCCCACCTAAAAGG+AGG 0.622287 6.2:-78368440 MS.gene05266:CDS
TCAATGCAGCTAACAGAATG+TGG 0.623802 6.2:+78368720 None:intergenic
GGAGGGGAGATCTTATGTAC+TGG 0.634319 6.2:+78368741 None:intergenic
ATGCAGCTAACAGAATGTGG+AGG 0.647850 6.2:+78368723 None:intergenic
ACCAAGAAAGTGAAAGCACA+TGG 0.656638 6.2:-78368872 MS.gene05266:CDS
TACATGTCTAAACCTAGCAG+AGG 0.662170 6.2:-78368492 MS.gene05266:CDS
GCAGCTAACAGAATGTGGAG+GGG 0.678592 6.2:+78368725 None:intergenic
ACCTAGCAGAGGATGTTCTG+AGG 0.679790 6.2:-78368481 MS.gene05266:CDS
TTACTCACACAATCAGACAA+TGG 0.698286 6.2:+78368834 None:intergenic

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
!! AACATTTTGTTGAATACACA+TGG + chr6.2:78368719-78368738 None:intergenic 25.0%
!! CTTGAAAATTGTTTCTTGTA+CGG - chr6.2:78368801-78368820 MS.gene05266:CDS 25.0%
!!! AAGAAACAATTTTCAAGTCA+GGG + chr6.2:78368798-78368817 None:intergenic 25.0%
!!! GAAAAGTGTCTTTTAAAAGA+TGG + chr6.2:78368505-78368524 None:intergenic 25.0%
!!! CAAGAAACAATTTTCAAGTC+AGG + chr6.2:78368799-78368818 None:intergenic 30.0%
AGTTCCGTTGACAAATTTAC+AGG + chr6.2:78368430-78368449 None:intergenic 35.0%
CAGTGACAGTTCAATTTCAT+TGG + chr6.2:78368464-78368483 None:intergenic 35.0%
TGGACCTGTAAATTTGTCAA+CGG - chr6.2:78368423-78368442 MS.gene05266:CDS 35.0%
TTACTCACACAATCAGACAA+TGG + chr6.2:78368658-78368677 None:intergenic 35.0%
AAAATGACTGCCCAAAAGTC+TGG - chr6.2:78368898-78368917 MS.gene05266:CDS 40.0%
AAATGACTGCCCAAAAGTCT+GGG - chr6.2:78368899-78368918 MS.gene05266:CDS 40.0%
ATCTAGCCAGTCAGATTCAT+GGG + chr6.2:78368596-78368615 None:intergenic 40.0%
ATTCTGTTTCCCCACCTAAA+AGG - chr6.2:78369046-78369065 MS.gene05266:intron 40.0%
TACATGTCTAAACCTAGCAG+AGG - chr6.2:78368997-78369016 MS.gene05266:intron 40.0%
TATCTAGCCAGTCAGATTCA+TGG + chr6.2:78368597-78368616 None:intergenic 40.0%
TCAATGCAGCTAACAGAATG+TGG + chr6.2:78368772-78368791 None:intergenic 40.0%
! AAATCGAGCACTCTTTTTGC+AGG + chr6.2:78368937-78368956 None:intergenic 40.0%
! ACCAAGAAAGTGAAAGCACA+TGG - chr6.2:78368617-78368636 MS.gene05266:CDS 40.0%
! AGAAAACGACCCAGACTTTT+GGG + chr6.2:78368911-78368930 None:intergenic 40.0%
! CTCGATTTTACTCTCACAGA+AGG - chr6.2:78368949-78368968 MS.gene05266:CDS 40.0%
! TAGAAAACGACCCAGACTTT+TGG + chr6.2:78368912-78368931 None:intergenic 40.0%
ATGCAGCTAACAGAATGTGG+AGG + chr6.2:78368769-78368788 None:intergenic 45.0%
CACAGAAGGCAGTGATGATT+TGG - chr6.2:78368963-78368982 MS.gene05266:CDS 45.0%
CAGTCAGATTCATGGGATGA+CGG + chr6.2:78368589-78368608 None:intergenic 45.0%
GAACCGAGAAACAATCTCTC+AGG + chr6.2:78368862-78368881 None:intergenic 45.0%
GCCATGTGCTTTCACTTTCT+TGG + chr6.2:78368621-78368640 None:intergenic 45.0%
TGCAGCTAACAGAATGTGGA+GGG + chr6.2:78368768-78368787 None:intergenic 45.0%
TGTAGAAAGACGCAAGCAGA+AGG - chr6.2:78368684-78368703 MS.gene05266:CDS 45.0%
! GCACCTGAGAGATTGTTTCT+CGG - chr6.2:78368856-78368875 MS.gene05266:CDS 45.0%
ACCTAGCAGAGGATGTTCTG+AGG - chr6.2:78369008-78369027 MS.gene05266:intron 50.0%
CGTCATCCCATGAATCTGAC+TGG - chr6.2:78368587-78368606 MS.gene05266:CDS 50.0%
CTGTTTCCCCACCTAAAAGG+AGG - chr6.2:78369049-78369068 MS.gene05266:intron 50.0%
GCAGCTAACAGAATGTGGAG+GGG + chr6.2:78368767-78368786 None:intergenic 50.0%
GGAGGGGAGATCTTATGTAC+TGG + chr6.2:78368751-78368770 None:intergenic 50.0%
TCCTCAGAACATCCTCTGCT+AGG + chr6.2:78369012-78369031 None:intergenic 50.0%
!! CGCATACCTCCTTTTAGGTG+GGG + chr6.2:78369058-78369077 None:intergenic 50.0%
!! GCGCATACCTCCTTTTAGGT+GGG + chr6.2:78369059-78369078 None:intergenic 50.0%
! GCAGGCGCATACCTCCTTTT+AGG + chr6.2:78369063-78369082 None:intergenic 55.0%
! GGCGCATACCTCCTTTTAGG+TGG + chr6.2:78369060-78369079 None:intergenic 55.0%
!! CTCTCAGGTGCTGACTGTGC+AGG + chr6.2:78368847-78368866 None:intergenic 60.0%


Chromosome Type Strat End Strand Name
chr6.2 gene 78368422 78369089 78368422 ID=MS.gene05266
chr6.2 mRNA 78368422 78369089 78368422 ID=MS.gene05266.t1;Parent=MS.gene05266
chr6.2 exon 78369082 78369089 78369082 ID=MS.gene05266.t1.exon1;Parent=MS.gene05266.t1
chr6.2 CDS 78369082 78369089 78369082 ID=cds.MS.gene05266.t1;Parent=MS.gene05266.t1
chr6.2 exon 78368422 78368995 78368422 ID=MS.gene05266.t1.exon2;Parent=MS.gene05266.t1
chr6.2 CDS 78368422 78368995 78368422 ID=cds.MS.gene05266.t1;Parent=MS.gene05266.t1
Gene Sequence

>MS.gene05266

ATGGACCTGTAAATTTGTCAACGGAACTTTCATCAACTTCCAATGAAATTGAACTGTCACTGAACAATTTACATCTGAGTCCATCTTTTAAAAGACACTTTTCTCAGAAGAATGTTGCTAACGAGACTGAGCAAGTTCTGAGCTTTTCATCATCTGAAAACTCTCCGTCATCCCATGAATCTGACTGGCTAGATAACCAAGAAAGTGAAAGCACATGGCAGAAAGAATGTACACCATTGTCTGATTGTGTGAGTAATAATAATGTAGAAAGACGCAAGCAGAAGGAATCACAGTCCATGTGTATTCAACAAAATGTTATTAATACACCAGTACATAAGATCTCCCCTCCACATTCTGTTAGCTGCATTGAAAGCCCTGACTTGAAAATTGTTTCTTGTACGGATAGTTTGTTGACACACACTCCTGCACAGTCAGCACCTGAGAGATTGTTTCTCGGTTCTGATGTTAAGCTTCAGAAAATGACTGCCCAAAAGTCTGGGTCGTTTTCTAAGCCTGCAAAAAGAGTGCTCGATTTTACTCTCACAGAAGGCAGTGATGATTTGGATAATAGAGTATACATGTCTAAACCTAGCAGAGGATGTTCTGAGGAGTTCAAATCTTTTGATTCTGTTTCCCCACCTAAAAGGAGGTATGCGCCTGCTATCTAG
Protein sequence

>MS.gene05266.t1

MDLHFSQKNVANETEQVLSFSSSENSPSSHESDWLDNQESESTWQKECTPLSDCVSNNNVERRKQKESQSMCIQQNVINTPVHKISPPHSVSCIESPDLKIVSCTDSLLTHTPAQSAPERLFLGSDVKLQKMTAQKSGSFSKPAKRVLDFTLTEGSDDLDNRVYMSKPSRGCSEEFKSFDSVSPPKRRYAPAI