AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar XinJiangDaYe / MS.gene81036

Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene81036.t1 MTR_8g023060 98.347 121 2 0 1 121 79 199 1.61e-86 250
MS.gene81036.t1 MTR_0415s0060 35.294 119 67 4 8 121 87 200 3.68e-12 60.5
MS.gene81036.t1 MTR_8g097400 35.294 119 67 4 8 121 92 205 3.85e-12 60.5
MS.gene81036.t1 MTR_8g097410 29.565 115 71 3 8 117 92 201 8.67e-11 57.0
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene81036.t1 AT1G53890 43.411 129 56 6 1 121 98 217 2.39e-18 77.4
MS.gene81036.t1 AT1G53870 43.411 129 56 6 1 121 98 217 2.39e-18 77.4
MS.gene81036.t1 AT1G53870 43.411 129 56 6 1 121 98 217 2.39e-18 77.4
MS.gene81036.t1 AT1G53890 43.411 129 56 6 1 121 98 217 2.39e-18 77.4
MS.gene81036.t1 AT1G53875 40.310 129 60 6 1 121 109 228 1.07e-16 73.2
MS.gene81036.t1 AT3G14260 38.211 123 68 5 1 117 106 226 5.14e-15 68.6

Find 19 sgRNAs with CRISPR-Local

Find 30 sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
TATTGATCTTTCTCTAATTA+TGG 0.126341 8.1:-77598526 MS.gene81036:CDS
CTCGAAAGCATGGTCCTTTC+TGG 0.163823 8.1:+77598876 None:intergenic
AAACATATAGCATCTCTAAA+TGG 0.207239 8.1:-77598847 MS.gene81036:CDS
AATATAAGTTGTCTAGGTTT+TGG 0.215960 8.1:-77598931 MS.gene81036:CDS
ATTAGAGAAAGATCAATATT+TGG 0.259853 8.1:+77598531 None:intergenic
ATTGATCTTTCTCTAATTAT+GGG 0.289911 8.1:-77598525 MS.gene81036:CDS
CAAGCCAGCTTGCAAAATAT+TGG 0.302733 8.1:-77598750 MS.gene81036:CDS
TTGGGAAGGTTACAAGCTTC+CGG 0.354783 8.1:-77598912 MS.gene81036:CDS
AACATATAGCATCTCTAAAT+GGG 0.428061 8.1:-77598846 MS.gene81036:CDS
TCAACTTGTGGAATTGATCT+AGG 0.443197 8.1:-77598582 MS.gene81036:CDS
TTATGAAGTTGAACTTGGAT+TGG 0.444332 8.1:-77598816 MS.gene81036:CDS
TCAAGTTATGAAGTTGAACT+TGG 0.473959 8.1:-77598821 MS.gene81036:CDS
TTCTGGTCGTTCCTTGTCGC+CGG 0.485881 8.1:+77598893 None:intergenic
TGCAGCAATATAAGTTGTCT+AGG 0.546244 8.1:-77598937 None:intergenic
AAAGGACCATGCTTTCGAGT+TGG 0.581337 8.1:-77598872 MS.gene81036:CDS
AGGAGAAAGAAGTCAACTTG+TGG 0.584551 8.1:-77598594 MS.gene81036:CDS
GCGACAAGGAACGACCAGAA+AGG 0.601912 8.1:-77598890 MS.gene81036:CDS
GTTACAAGCTTCCGGCGACA+AGG 0.606422 8.1:-77598904 MS.gene81036:CDS
AAATGGAGTGATAGTTGCAG+AGG 0.607549 8.1:-77598723 MS.gene81036:intron

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
!!! CTTTCTATTTTATAATTATA+TGG + chr8.1:77598638-77598657 None:intergenic 10.0%
!!! CTATTTTATAATTATATGGT+TGG + chr8.1:77598634-77598653 None:intergenic 15.0%
!! ATTAGAGAAAGATCAATATT+TGG + chr8.1:77598889-77598908 None:intergenic 20.0%
!! ATTGATCTTTCTCTAATTAT+GGG - chr8.1:77598892-77598911 MS.gene81036:CDS 20.0%
!! TATTGATCTTTCTCTAATTA+TGG - chr8.1:77598891-77598910 MS.gene81036:CDS 20.0%
!!! ACATTTTTTTCAGAAAAGTT+TGG - chr8.1:77598732-77598751 MS.gene81036:CDS 20.0%
! AAACATATAGCATCTCTAAA+TGG - chr8.1:77598570-77598589 MS.gene81036:CDS 25.0%
! AACATATAGCATCTCTAAAT+GGG - chr8.1:77598571-77598590 MS.gene81036:CDS 25.0%
! TGCAAAATATTGGACAAAAA+TGG - chr8.1:77598677-77598696 MS.gene81036:intron 25.0%
!! AATATAAGTTGTCTAGGTTT+TGG - chr8.1:77598486-77598505 MS.gene81036:CDS 25.0%
!! ATATAAGTTGTCTAGGTTTT+GGG - chr8.1:77598487-77598506 MS.gene81036:CDS 25.0%
TCAAGTTATGAAGTTGAACT+TGG - chr8.1:77598596-77598615 MS.gene81036:CDS 30.0%
TTATGAAGTTGAACTTGGAT+TGG - chr8.1:77598601-77598620 MS.gene81036:intron 30.0%
TCAACTTGTGGAATTGATCT+AGG - chr8.1:77598835-77598854 MS.gene81036:CDS 35.0%
! AGATGATGTTTTCACAATGG+TGG - chr8.1:77598858-77598877 MS.gene81036:CDS 35.0%
! AGGAGATGATGTTTTCACAA+TGG - chr8.1:77598855-77598874 MS.gene81036:CDS 35.0%
! TTGTCCAATATTTTGCAAGC+TGG + chr8.1:77598674-77598693 None:intergenic 35.0%
!!! GTTTTTTCTATGAGCAGCTA+AGG - chr8.1:77598803-77598822 MS.gene81036:CDS 35.0%
AAATGGAGTGATAGTTGCAG+AGG - chr8.1:77598694-77598713 MS.gene81036:intron 40.0%
AGGAGAAAGAAGTCAACTTG+TGG - chr8.1:77598823-77598842 MS.gene81036:CDS 40.0%
CAAGCCAGCTTGCAAAATAT+TGG - chr8.1:77598667-77598686 MS.gene81036:intron 40.0%
! GTTTTACCAACTCGAAAGCA+TGG + chr8.1:77598554-77598573 None:intergenic 40.0%
! TGATGTTTTCACAATGGTGG+TGG - chr8.1:77598861-77598880 MS.gene81036:CDS 40.0%
!!! AAGTTGTCTAGGTTTTGGGA+AGG - chr8.1:77598491-77598510 MS.gene81036:CDS 40.0%
TTGGGAAGGTTACAAGCTTC+CGG - chr8.1:77598505-77598524 MS.gene81036:CDS 45.0%
! AAAGGACCATGCTTTCGAGT+TGG - chr8.1:77598545-77598564 MS.gene81036:CDS 45.0%
! CTCGAAAGCATGGTCCTTTC+TGG + chr8.1:77598544-77598563 None:intergenic 50.0%
GCGACAAGGAACGACCAGAA+AGG - chr8.1:77598527-77598546 MS.gene81036:CDS 55.0%
GTTACAAGCTTCCGGCGACA+AGG - chr8.1:77598513-77598532 MS.gene81036:CDS 55.0%
TTCTGGTCGTTCCTTGTCGC+CGG + chr8.1:77598527-77598546 None:intergenic 55.0%


Chromosome Type Strat End Strand Name
chr8.1 gene 77598485 77598954 77598485 ID=MS.gene81036
chr8.1 mRNA 77598485 77598954 77598485 ID=MS.gene81036.t1;Parent=MS.gene81036
chr8.1 exon 77598724 77598954 77598724 ID=MS.gene81036.t1.exon1;Parent=MS.gene81036.t1
chr8.1 CDS 77598724 77598954 77598724 ID=cds.MS.gene81036.t1;Parent=MS.gene81036.t1
chr8.1 exon 77598485 77598619 77598485 ID=MS.gene81036.t1.exon2;Parent=MS.gene81036.t1
chr8.1 CDS 77598485 77598619 77598485 ID=cds.MS.gene81036.t1;Parent=MS.gene81036.t1
Gene Sequence

>MS.gene81036

CAATATAAGTTGTCTAGGTTTTGGGAAGGTTACAAGCTTCCGGCGACAAGGAACGACCAGAAAGGACCATGCTTTCGAGTTGGTAAAACATATAGCATCTCTAAATGGGATTCAAGTTATGAAGTTGAACTTGGATTGGATAAAAACCAACCATATAATTATAAAATAGAAAGCAGCACTTGCAAGCCAGCTTGCAAAATATTGGACAAAAATGGAGTGATAGTTGCAGAGGTAATAAAGATTTCTAACATTTTTTTCAGAAAAGTTTGGTAAATAACATAAACATATATAAATGCTTAAGTACATGTATTAATTTATGTTTTTTCTATGAGCAGCTAAGGAGAAAGAAGTCAACTTGTGGAATTGATCTAGGAGATGATGTTTTCACAATGGTGGTGGAGCCAAATATTGATCTTTCTCTAATTATGGGAGTTGTTGTAGCTTATAGCCTTATTAAAAGTAAAATGTAA
Protein sequence

>MS.gene81036.t1

QYKLSRFWEGYKLPATRNDQKGPCFRVGKTYSISKWDSSYEVELGLDKNQPYNYKIESSTCKPACKILDKNGVIVAELRRKKSTCGIDLGDDVFTMVVEPNIDLSLIMGVVVAYSLIKSKM