AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar XinJiangDaYe / MS.gene75804

Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene75804.t1 MTR_5g099250 81.046 153 15 5 1 141 1 151 3.21e-72 213
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene75804.t1 AT4G35320 44.800 125 64 2 13 132 15 139 1.16e-21 85.1

Find 44 sgRNAs with CRISPR-Local

Find 46 sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
AGCAGCATCTCCTTTGGTTT+TGG 0.239187 5.3:+80552050 None:intergenic
TCAAGATCTGTTGCAAAGAT+AGG 0.315447 5.3:+80551856 None:intergenic
CCCTTTCCACTTCTACTTGT+TGG 0.332543 5.3:+80552090 None:intergenic
GTTGGAAACATGTTATTTGC+AGG 0.354673 5.3:-80551786 MS.gene75804:CDS
GGTGGACCTGGAGCTGGGCC+TGG 0.359670 5.3:-80551894 MS.gene75804:CDS
TGAGAATGACGACTTGGATC+TGG 0.361698 5.3:+80551948 None:intergenic
TGGGCGACTCTATCAGAAAT+TGG 0.371725 5.3:-80551915 MS.gene75804:CDS
ATCAGCAGCAGCATCTCCTT+TGG 0.384150 5.3:+80552044 None:intergenic
TTGCTGACTTCCCGTGATAA+GGG 0.402825 5.3:-80551811 MS.gene75804:CDS
GTCATTCTCATTCTCATCCA+TGG 0.415773 5.3:-80551935 MS.gene75804:CDS
GTTGCTGACTTCCCGTGATA+AGG 0.430057 5.3:-80551812 MS.gene75804:CDS
GAAATTGGTGGACCTGGAGC+TGG 0.438969 5.3:-80551900 MS.gene75804:CDS
GGAGATGCTGCTGCTGATGC+AGG 0.439787 5.3:-80552039 MS.gene75804:CDS
GCCGACATGGTTTGAGGAAG+AGG 0.443482 5.3:+80551712 None:intergenic
TGCGTAGTAATAATCAGAAT+TGG 0.448686 5.3:+80551735 None:intergenic
CAGTGAGAGAGGAAGTTGAT+AGG 0.455790 5.3:+80551998 None:intergenic
GAGGATCCAGGCCCAGCTCC+AGG 0.463280 5.3:+80551888 None:intergenic
CTATCAGAAATTGGTGGACC+TGG 0.485539 5.3:-80551906 MS.gene75804:CDS
AGATCTTGAAATGAATGAGC+AGG 0.491670 5.3:-80551842 MS.gene75804:CDS
CCAACAAGTAGAAGTGGAAA+GGG 0.494860 5.3:-80552090 MS.gene75804:CDS
CAAAGATAGGCTTCCTTGAG+AGG 0.500750 5.3:+80551869 None:intergenic
ATCACGGGAAGTCAGCAACT+TGG 0.507000 5.3:+80551816 None:intergenic
GAGAATGACGACTTGGATCT+GGG 0.517935 5.3:+80551949 None:intergenic
CTTCCCGTGATAAGGGGAGT+TGG 0.532963 5.3:-80551804 MS.gene75804:CDS
AACATGTTATTTGCAGGATG+AGG 0.535337 5.3:-80551780 MS.gene75804:CDS
GTTTCCAACTCCCCTTATCA+CGG 0.535374 5.3:+80551800 None:intergenic
TCATTCTCATTCTCATCCAT+GGG 0.545509 5.3:-80551934 MS.gene75804:CDS
AAATTGGTGGACCTGGAGCT+GGG 0.557795 5.3:-80551899 MS.gene75804:CDS
GTGTAAGCCGACATGGTTTG+AGG 0.558720 5.3:+80551706 None:intergenic
AGGCTTCCTTGAGAGGATCC+AGG 0.559333 5.3:+80551876 None:intergenic
ACCAACAAGTAGAAGTGGAA+AGG 0.562172 5.3:-80552091 MS.gene75804:CDS
TTTCCAACTCCCCTTATCAC+GGG 0.565961 5.3:+80551801 None:intergenic
GCTGGGCCTGGATCCTCTCA+AGG 0.566616 5.3:-80551882 MS.gene75804:CDS
TTCTTACCAACAAGTAGAAG+TGG 0.570154 5.3:-80552096 MS.gene75804:CDS
TGTTGTTTCTGCAGTGAGAG+AGG 0.590813 5.3:+80551987 None:intergenic
TGCTGACTTCCCGTGATAAG+GGG 0.596069 5.3:-80551810 MS.gene75804:CDS
TCATTGTGTGTAAGCCGACA+TGG 0.600825 5.3:+80551699 None:intergenic
GATGCTGCTGCTGATGCAGG+AGG 0.614062 5.3:-80552036 MS.gene75804:CDS
GCGACTCTATCAGAAATTGG+TGG 0.617542 5.3:-80551912 MS.gene75804:CDS
TGAGAATGAGAATGACGACT+TGG 0.638362 5.3:+80551942 None:intergenic
ATTTCTGATAGAGTCGCCCA+TGG 0.647698 5.3:+80551918 None:intergenic
CCTGTGTCAACCAAAACCAA+AGG 0.652229 5.3:-80552060 MS.gene75804:CDS
ACCTCTTCCTCAAACCATGT+CGG 0.673431 5.3:-80551713 MS.gene75804:CDS
CAACAAGTAGAAGTGGAAAG+GGG 0.687682 5.3:-80552089 MS.gene75804:CDS

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
TGCGTAGTAATAATCAGAAT+TGG + chr5.3:80552069-80552088 None:intergenic 30.0%
AGATCTTGAAATGAATGAGC+AGG - chr5.3:80551959-80551978 MS.gene75804:CDS 35.0%
TCAAGATCTGTTGCAAAGAT+AGG + chr5.3:80551948-80551967 None:intergenic 35.0%
TCATTCTCATTCTCATCCAT+GGG - chr5.3:80551867-80551886 MS.gene75804:CDS 35.0%
TTCTTACCAACAAGTAGAAG+TGG - chr5.3:80551705-80551724 MS.gene75804:CDS 35.0%
! AACATGTTATTTGCAGGATG+AGG - chr5.3:80552021-80552040 MS.gene75804:CDS 35.0%
! GTTGGAAACATGTTATTTGC+AGG - chr5.3:80552015-80552034 MS.gene75804:CDS 35.0%
ACCAACAAGTAGAAGTGGAA+AGG - chr5.3:80551710-80551729 MS.gene75804:CDS 40.0%
CAACAAGTAGAAGTGGAAAG+GGG - chr5.3:80551712-80551731 MS.gene75804:CDS 40.0%
CCAACAAGTAGAAGTGGAAA+GGG - chr5.3:80551711-80551730 MS.gene75804:CDS 40.0%
GTCATTCTCATTCTCATCCA+TGG - chr5.3:80551866-80551885 MS.gene75804:CDS 40.0%
TGAGAATGAGAATGACGACT+TGG + chr5.3:80551862-80551881 None:intergenic 40.0%
!!! CTTTGGTTTTGGTTGACACA+GGG + chr5.3:80551743-80551762 None:intergenic 40.0%
ACCTCTTCCTCAAACCATGT+CGG - chr5.3:80552088-80552107 MS.gene75804:CDS 45.0%
ATTTCTGATAGAGTCGCCCA+TGG + chr5.3:80551886-80551905 None:intergenic 45.0%
CAAAGATAGGCTTCCTTGAG+AGG + chr5.3:80551935-80551954 None:intergenic 45.0%
CCCTTTCCACTTCTACTTGT+TGG + chr5.3:80551714-80551733 None:intergenic 45.0%
CCTGTGTCAACCAAAACCAA+AGG - chr5.3:80551741-80551760 MS.gene75804:CDS 45.0%
GCGACTCTATCAGAAATTGG+TGG - chr5.3:80551889-80551908 MS.gene75804:CDS 45.0%
GTTTCCAACTCCCCTTATCA+CGG + chr5.3:80552004-80552023 None:intergenic 45.0%
TCATTGTGTGTAAGCCGACA+TGG + chr5.3:80552105-80552124 None:intergenic 45.0%
TGGGCGACTCTATCAGAAAT+TGG - chr5.3:80551886-80551905 MS.gene75804:CDS 45.0%
TTTCCAACTCCCCTTATCAC+GGG + chr5.3:80552003-80552022 None:intergenic 45.0%
! CAGTGAGAGAGGAAGTTGAT+AGG + chr5.3:80551806-80551825 None:intergenic 45.0%
! CTATCAGAAATTGGTGGACC+TGG - chr5.3:80551895-80551914 MS.gene75804:CDS 45.0%
! GAGAATGACGACTTGGATCT+GGG + chr5.3:80551855-80551874 None:intergenic 45.0%
! TGAGAATGACGACTTGGATC+TGG + chr5.3:80551856-80551875 None:intergenic 45.0%
!! AGCAGCATCTCCTTTGGTTT+TGG + chr5.3:80551754-80551773 None:intergenic 45.0%
!! TGTTGTTTCTGCAGTGAGAG+AGG + chr5.3:80551817-80551836 None:intergenic 45.0%
!! TTGCTGACTTCCCGTGATAA+GGG - chr5.3:80551990-80552009 MS.gene75804:CDS 45.0%
!!! CCTTTGGTTTTGGTTGACAC+AGG + chr5.3:80551744-80551763 None:intergenic 45.0%
ATCACGGGAAGTCAGCAACT+TGG + chr5.3:80551988-80552007 None:intergenic 50.0%
ATCAGCAGCAGCATCTCCTT+TGG + chr5.3:80551760-80551779 None:intergenic 50.0%
GTGTAAGCCGACATGGTTTG+AGG + chr5.3:80552098-80552117 None:intergenic 50.0%
! AAATTGGTGGACCTGGAGCT+GGG - chr5.3:80551902-80551921 MS.gene75804:CDS 50.0%
!! GTTGCTGACTTCCCGTGATA+AGG - chr5.3:80551989-80552008 MS.gene75804:CDS 50.0%
!! TGCTGACTTCCCGTGATAAG+GGG - chr5.3:80551991-80552010 MS.gene75804:CDS 50.0%
AGGCTTCCTTGAGAGGATCC+AGG + chr5.3:80551928-80551947 None:intergenic 55.0%
CTTCCCGTGATAAGGGGAGT+TGG - chr5.3:80551997-80552016 MS.gene75804:CDS 55.0%
GCCGACATGGTTTGAGGAAG+AGG + chr5.3:80552092-80552111 None:intergenic 55.0%
! GAAATTGGTGGACCTGGAGC+TGG - chr5.3:80551901-80551920 MS.gene75804:CDS 55.0%
GATGCTGCTGCTGATGCAGG+AGG - chr5.3:80551765-80551784 MS.gene75804:CDS 60.0%
GGAGATGCTGCTGCTGATGC+AGG - chr5.3:80551762-80551781 MS.gene75804:CDS 60.0%
GCTGGGCCTGGATCCTCTCA+AGG - chr5.3:80551919-80551938 MS.gene75804:CDS 65.0%
GAGGATCCAGGCCCAGCTCC+AGG + chr5.3:80551916-80551935 None:intergenic 70.0%
GGTGGACCTGGAGCTGGGCC+TGG - chr5.3:80551907-80551926 MS.gene75804:CDS 75.0%


Chromosome Type Strat End Strand Name
chr5.3 gene 80551699 80552124 80551699 ID=MS.gene75804
chr5.3 mRNA 80551699 80552124 80551699 ID=MS.gene75804.t1;Parent=MS.gene75804
chr5.3 exon 80551699 80552124 80551699 ID=MS.gene75804.t1.exon1;Parent=MS.gene75804.t1
chr5.3 CDS 80551699 80552124 80551699 ID=cds.MS.gene75804.t1;Parent=MS.gene75804.t1
Gene Sequence

>MS.gene75804

ATGAGCTTCTTACCAACAAGTAGAAGTGGAAAGGGGTCTCTCCCTGTGTCAACCAAAACCAAAGGAGATGCTGCTGCTGATGCAGGAGGCTTTATTCGCAGACGCCTATCAACTTCCTCTCTCACTGCAGAAACAACAGCAGCATCATTTATTCCCAGATCCAAGTCGTCATTCTCATTCTCATCCATGGGCGACTCTATCAGAAATTGGTGGACCTGGAGCTGGGCCTGGATCCTCTCAAGGAAGCCTATCTTTGCAACAGATCTTGAAATGAATGAGCAGGAAACCAAGTTGCTGACTTCCCGTGATAAGGGGAGTTGGAAACATGTTATTTGCAGGATGAGGTCTGAGATCAGAAGAAGAATCACCAATTCTGATTATTACTACGCACCTCTTCCTCAAACCATGTCGGCTTACACACAATGA
Protein sequence

>MS.gene75804.t1

MSFLPTSRSGKGSLPVSTKTKGDAAADAGGFIRRRLSTSSLTAETTAASFIPRSKSSFSFSSMGDSIRNWWTWSWAWILSRKPIFATDLEMNEQETKLLTSRDKGSWKHVICRMRSEIRRRITNSDYYYAPLPQTMSAYTQ