AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar XinJiangDaYe / MS.gene049756


Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene049756.t1 MTR_4g057190 98.551 69 1 0 1 69 1 69 7.48e-46 145
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene049756.t1 AT5G22875 79.710 69 14 0 1 69 1 69 8.26e-37 117
MS.gene049756.t1 AT5G22875 79.710 69 14 0 1 69 1 69 8.26e-37 117
MS.gene049756.t1 AT5G22875 79.710 69 14 0 1 69 1 69 8.26e-37 117

Find 12 sgRNAs with CRISPR-Local

Find 18 sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
CGAGGACCTTATATTAATAC+TGG 0.230807 4.2:-46580921 MS.gene049756:CDS
TTCTTATAAGTTTCATAATC+AGG 0.280504 4.2:+46580882 None:intergenic
GGCTTTGTTGGATCAATTAC+CGG 0.331164 4.2:+46580966 None:intergenic
TGTGGTGAAAGTGGCTTTGT+TGG 0.403611 4.2:+46580954 None:intergenic
AATACTGGGTCACGTGATAT+TGG 0.406093 4.2:-46580906 MS.gene049756:CDS
CGTGACCCAGTATTAATATA+AGG 0.410120 4.2:+46580915 None:intergenic
TCACCACAAGCTACATTTCG+AGG 0.438997 4.2:-46580939 MS.gene049756:CDS
CGAAATTTAGTAGTTGCTGC+TGG 0.448263 4.2:-46581144 MS.gene049756:CDS
TTAACTTACGCCATGTAGAA+AGG 0.474118 4.2:+46581087 None:intergenic
GAGGACCTTATATTAATACT+GGG 0.603505 4.2:-46580920 MS.gene049756:CDS
AATGTAGCTTGTGGTGAAAG+TGG 0.617393 4.2:+46580945 None:intergenic
GGTCCTCGAAATGTAGCTTG+TGG 0.650550 4.2:+46580936 None:intergenic

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
!!! AATTGATAATTTGCAAATTT+TGG - chr4.2:46581020-46581039 MS.gene049756:intron 15.0%
!!! ATTGATAATTTGCAAATTTT+GGG - chr4.2:46581021-46581040 MS.gene049756:intron 15.0%
!! TTCTTATAAGTTTCATAATC+AGG + chr4.2:46581152-46581171 None:intergenic 20.0%
GAGGACCTTATATTAATACT+GGG - chr4.2:46581111-46581130 MS.gene049756:CDS 30.0%
CGAGGACCTTATATTAATAC+TGG - chr4.2:46581110-46581129 MS.gene049756:CDS 35.0%
CGTGACCCAGTATTAATATA+AGG + chr4.2:46581119-46581138 None:intergenic 35.0%
TTAACTTACGCCATGTAGAA+AGG + chr4.2:46580947-46580966 None:intergenic 35.0%
! AATGGCTTTTCCTTTCTACA+TGG - chr4.2:46580934-46580953 MS.gene049756:CDS 35.0%
!!! TTTTAGTTCGTCGAAGAAAC+CGG - chr4.2:46581046-46581065 MS.gene049756:intron 35.0%
AATACTGGGTCACGTGATAT+TGG - chr4.2:46581125-46581144 MS.gene049756:CDS 40.0%
CGAAATTTAGTAGTTGCTGC+TGG - chr4.2:46580887-46580906 MS.gene049756:CDS 40.0%
! AATGTAGCTTGTGGTGAAAG+TGG + chr4.2:46581089-46581108 None:intergenic 40.0%
!! GGCTTTGTTGGATCAATTAC+CGG + chr4.2:46581068-46581087 None:intergenic 40.0%
!! TTACTTGCTTTTGCTTCAGC+AGG - chr4.2:46580911-46580930 MS.gene049756:CDS 40.0%
TCACCACAAGCTACATTTCG+AGG - chr4.2:46581092-46581111 MS.gene049756:intron 45.0%
! TGCTTTTGCTTCAGCAGGAA+TGG - chr4.2:46580916-46580935 MS.gene049756:CDS 45.0%
!! TGTGGTGAAAGTGGCTTTGT+TGG + chr4.2:46581080-46581099 None:intergenic 45.0%
GGTCCTCGAAATGTAGCTTG+TGG + chr4.2:46581098-46581117 None:intergenic 50.0%


Chromosome Type Strat End Strand Name
chr4.2 gene 46580875 46581178 46580875 ID=MS.gene049756
chr4.2 mRNA 46580875 46581178 46580875 ID=MS.gene049756.t1;Parent=MS.gene049756
chr4.2 exon 46581096 46581178 46581096 ID=MS.gene049756.t1.exon1;Parent=MS.gene049756.t1
chr4.2 CDS 46581096 46581178 46581096 ID=cds.MS.gene049756.t1;Parent=MS.gene049756.t1
chr4.2 exon 46580875 46581001 46580875 ID=MS.gene049756.t1.exon2;Parent=MS.gene049756.t1
chr4.2 CDS 46580875 46581001 46580875 ID=cds.MS.gene049756.t1;Parent=MS.gene049756.t1
Gene Sequence

>MS.gene049756

ATGTCACGAAGACGAAATTTAGTAGTTGCTGCTGGATTACTTGCTTTTGCTTCAGCAGGAATGGCTTTTCCTTTCTACATGGCGTAAGTTAAATTCAATTTCATTCGCAATTTTGATTATGCAAATGTTTATGAATTTGATTTTGAATTGATAATTTGCAAATTTTGGGATTTTTAGTTCGTCGAAGAAACCGGTAATTGATCCAACAAAGCCACTTTCACCACAAGCTACATTTCGAGGACCTTATATTAATACTGGGTCACGTGATATTGGTCCTGATTATGAAACTTATAAGAAGAAGTGA

Protein sequence

>MS.gene049756.t1

MSRRRNLVVAAGLLAFASAGMAFPFYMASSKKPVIDPTKPLSPQATFRGPYINTGSRDIGPDYETYKKK