AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar XinJiangDaYe / MS.gene053009


Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene053009.t1 MTR_6g006060 97.790 181 4 0 1 181 1 181 7.02e-124 347
MS.gene053009.t1 MTR_8g076780 34.815 135 70 2 64 180 60 194 1.05e-16 74.3
MS.gene053009.t1 MTR_7g053520 35.878 131 74 2 60 180 86 216 2.68e-14 68.6
MS.gene053009.t1 MTR_2g031960 32.168 143 87 3 48 180 12 154 4.86e-14 66.6
MS.gene053009.t1 MTR_2g031760 49.254 67 34 0 110 176 119 185 1.53e-13 65.9
MS.gene053009.t1 MTR_2g064300 32.576 132 77 2 60 180 85 215 1.99e-12 63.5
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene053009.t1 AT3G27850 61.170 188 58 5 7 181 2 187 1.41e-53 169
MS.gene053009.t1 AT3G27830 64.596 161 50 3 28 181 31 191 3.44e-52 165
MS.gene053009.t1 AT3G27830 64.596 161 50 3 28 181 31 191 3.44e-52 165
MS.gene053009.t1 AT3G27840 50.898 167 65 3 31 180 26 192 7.62e-44 144
MS.gene053009.t1 AT4G36420 36.301 146 79 3 49 180 33 178 1.19e-18 79.3
MS.gene053009.t1 AT3G06040 35.200 125 78 1 55 176 57 181 8.18e-14 66.6
MS.gene053009.t1 AT3G06040 35.200 125 78 1 55 176 57 181 8.18e-14 66.6
MS.gene053009.t1 AT3G06040 35.200 125 78 1 55 176 57 181 8.18e-14 66.6
MS.gene053009.t1 AT4G37660 32.903 155 92 3 38 180 12 166 1.22e-13 65.9
MS.gene053009.t1 AT1G70190 36.029 136 71 3 60 180 73 207 4.99e-13 65.1
MS.gene053009.t1 AT1G70190 36.029 136 71 3 60 180 73 207 4.99e-13 65.1

Find 53 sgRNAs with CRISPR-Local

Find 65 sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
AGCAGCGGCGACTGCGGCGG+CGG 0.273756 6.2:+1611898 None:intergenic
GGTTAGAGCTTTGACGAGTT+TGG 0.278300 6.2:-1611780 MS.gene053009:CDS
GTGGGAGATGGAGAGGGGTT+TGG 0.285418 6.2:+1612075 None:intergenic
GAGGTAGTCGACGAGGTCTT+TGG 0.313141 6.2:+1611958 None:intergenic
GTTAGAGCTTTGACGAGTTT+GGG 0.342133 6.2:-1611779 MS.gene053009:CDS
GCAGCGGCGACTGCGGCGGC+GGG 0.353361 6.2:+1611899 None:intergenic
TTCAATCACAACATCGAATT+CGG 0.356099 6.2:+1611841 None:intergenic
GCGGTGGTGGTGGTGGGAGA+TGG 0.358819 6.2:+1612063 None:intergenic
GGAGATGGAGAGGGGTTTGG+AGG 0.359975 6.2:+1612078 None:intergenic
CTCTTCGACTACTGCAACTT+CGG 0.361949 6.2:+1611868 None:intergenic
GGTGGTGGTGGGAGATGGAG+AGG 0.376909 6.2:+1612068 None:intergenic
TGGTGGTGGGAGATGGAGAG+GGG 0.379049 6.2:+1612070 None:intergenic
GACGAGTGCGGTGGTGGTGG+TGG 0.381640 6.2:+1612056 None:intergenic
ACACCTTCTTTAAATTTCTT+CGG 0.390394 6.2:+1611722 None:intergenic
GGGAAATTGAGAGTGGAGAT+TGG 0.393088 6.2:+1612100 None:intergenic
GTGGTGGTGGGAGATGGAGA+GGG 0.406108 6.2:+1612069 None:intergenic
GCCGCAATTCTCGCGTTACT+AGG 0.408930 6.2:+1611812 None:intergenic
GTCGACGAGGTCTTTGGCTT+GGG 0.415248 6.2:+1611964 None:intergenic
TTCAGTGGCCACGGCGGAGA+TGG 0.416551 6.2:+1612027 None:intergenic
AGATGGAGAGGGGTTTGGAG+GGG 0.419977 6.2:+1612080 None:intergenic
AACTTCGGCGGCGGGAGCAG+CGG 0.438188 6.2:+1611883 None:intergenic
GGCGGCGGGAGCGAAGGACG+CGG 0.440816 6.2:+1611913 None:intergenic
GGAGACGAGTGCGGTGGTGG+TGG 0.449627 6.2:+1612053 None:intergenic
AGTCGACGAGGTCTTTGGCT+TGG 0.457705 6.2:+1611963 None:intergenic
GAAGCTAAGGAATTGATTGA+AGG 0.459127 6.2:-1611749 MS.gene053009:CDS
GGCGGGAGCAGCGGCGACTG+CGG 0.461271 6.2:+1611892 None:intergenic
GACTGCGGCGGCGGGAGCGA+AGG 0.463629 6.2:+1611907 None:intergenic
ACGAGTGCGGTGGTGGTGGT+GGG 0.464166 6.2:+1612057 None:intergenic
GGGAGCAGCGGCGACTGCGG+CGG 0.465326 6.2:+1611895 None:intergenic
GACTACTGCAACTTCGGCGG+CGG 0.472198 6.2:+1611874 None:intergenic
GACGGAGACGAGTGCGGTGG+TGG 0.484373 6.2:+1612050 None:intergenic
TTGCCGAAGAAATTTAAAGA+AGG 0.505106 6.2:-1611725 MS.gene053009:CDS
ACTACTGCAACTTCGGCGGC+GGG 0.506435 6.2:+1611875 None:intergenic
GAGATGGAGAGGGGTTTGGA+GGG 0.520932 6.2:+1612079 None:intergenic
TCCTAGTAACGCGAGAATTG+CGG 0.528323 6.2:-1611813 MS.gene053009:CDS
TTTGGGATTGAAAGAAGCTA+AGG 0.536265 6.2:-1611762 MS.gene053009:CDS
TCAGTGGCCACGGCGGAGAT+GGG 0.542642 6.2:+1612028 None:intergenic
GTGGTGAGAAAGTGTGAGGG+TGG 0.553869 6.2:+1612141 None:intergenic
GGCTTGGGAGAGAGTGAGGT+CGG 0.562669 6.2:+1611979 None:intergenic
AAGAAACAACTTGAAGCTGC+AGG 0.564071 6.2:-1611674 MS.gene053009:CDS
TGGCCACGGCGGAGATGGGA+CGG 0.564429 6.2:+1612032 None:intergenic
TTTGGAGGGGAAATTGAGAG+TGG 0.570125 6.2:+1612093 None:intergenic
CTTTGGCTTGGGAGAGAGTG+AGG 0.572512 6.2:+1611975 None:intergenic
GGTGTGGTGAGAAAGTGTGA+GGG 0.597396 6.2:+1612138 None:intergenic
GGGTGTGGTGAGAAAGTGTG+AGG 0.603340 6.2:+1612137 None:intergenic
GAGAATTGCGGCGATTAAAG+CGG 0.638455 6.2:-1611801 MS.gene053009:CDS
TTCTATTTCAGTGGCCACGG+CGG 0.638885 6.2:+1612021 None:intergenic
TTCGACTACTGCAACTTCGG+CGG 0.640516 6.2:+1611871 None:intergenic
GGTGGAGATAGTTGTGAAAG+CGG 0.640687 6.2:+1612159 None:intergenic
TCTCCGTCCCATCTCCGCCG+TGG 0.646628 6.2:-1612035 MS.gene053009:CDS
AGATGGGACGGAGACGAGTG+CGG 0.648615 6.2:+1612044 None:intergenic
TTTCTTGGAGGTAGTCGACG+AGG 0.676894 6.2:+1611951 None:intergenic
TGGGACGGAGACGAGTGCGG+TGG 0.682439 6.2:+1612047 None:intergenic

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
! ACACCTTCTTTAAATTTCTT+CGG + chr6.2:1612108-1612127 None:intergenic 25.0%
TTCAATCACAACATCGAATT+CGG + chr6.2:1611989-1612008 None:intergenic 30.0%
TTGCCGAAGAAATTTAAAGA+AGG - chr6.2:1612102-1612121 MS.gene053009:CDS 30.0%
GAAGCTAAGGAATTGATTGA+AGG - chr6.2:1612078-1612097 MS.gene053009:CDS 35.0%
GCCACTGAAATAGAAAAACT+CGG - chr6.2:1611814-1611833 MS.gene053009:CDS 35.0%
! TTTGGGATTGAAAGAAGCTA+AGG - chr6.2:1612065-1612084 MS.gene053009:CDS 35.0%
! TTTTTCTATTTCAGTGGCCA+CGG + chr6.2:1611812-1611831 None:intergenic 35.0%
!!! AGATTGGTTTTTTTGAGAGG+GGG + chr6.2:1611714-1611733 None:intergenic 35.0%
!!! GAGATTGGTTTTTTTGAGAG+GGG + chr6.2:1611715-1611734 None:intergenic 35.0%
!!! GGAGATTGGTTTTTTTGAGA+GGG + chr6.2:1611716-1611735 None:intergenic 35.0%
!!! TGGAGATTGGTTTTTTTGAG+AGG + chr6.2:1611717-1611736 None:intergenic 35.0%
AAGAAACAACTTGAAGCTGC+AGG - chr6.2:1612153-1612172 MS.gene053009:CDS 40.0%
GACTACCTCCAAGAAAAACT+CGG - chr6.2:1611883-1611902 MS.gene053009:CDS 40.0%
! GCCGAGTTTTTCTATTTCAG+TGG + chr6.2:1611818-1611837 None:intergenic 40.0%
! GTTAGAGCTTTGACGAGTTT+GGG - chr6.2:1612048-1612067 MS.gene053009:CDS 40.0%
!!! GATTGGTTTTTTTGAGAGGG+GGG + chr6.2:1611713-1611732 None:intergenic 40.0%
CTCTTCGACTACTGCAACTT+CGG + chr6.2:1611962-1611981 None:intergenic 45.0%
GAGAATTGCGGCGATTAAAG+CGG - chr6.2:1612026-1612045 MS.gene053009:CDS 45.0%
GGGAAATTGAGAGTGGAGAT+TGG + chr6.2:1611730-1611749 None:intergenic 45.0%
GGTGGAGATAGTTGTGAAAG+CGG + chr6.2:1611671-1611690 None:intergenic 45.0%
TCCTAGTAACGCGAGAATTG+CGG - chr6.2:1612014-1612033 MS.gene053009:CDS 45.0%
TTTGGAGGGGAAATTGAGAG+TGG + chr6.2:1611737-1611756 None:intergenic 45.0%
! GGTTAGAGCTTTGACGAGTT+TGG - chr6.2:1612047-1612066 MS.gene053009:CDS 45.0%
TTCGACTACTGCAACTTCGG+CGG + chr6.2:1611959-1611978 None:intergenic 50.0%
TTCTATTTCAGTGGCCACGG+CGG + chr6.2:1611809-1611828 None:intergenic 50.0%
TTTCTTGGAGGTAGTCGACG+AGG + chr6.2:1611879-1611898 None:intergenic 50.0%
! CAGTGACGCCGAGTTTTTCT+TGG + chr6.2:1611894-1611913 None:intergenic 50.0%
! GGTGTGGTGAGAAAGTGTGA+GGG + chr6.2:1611692-1611711 None:intergenic 50.0%
! TGACGCCGAGTTTTTCTTGG+AGG + chr6.2:1611891-1611910 None:intergenic 50.0%
!!! GTTTTTTTGAGAGGGGGGTG+TGG + chr6.2:1611708-1611727 None:intergenic 50.0%
AGATGGAGAGGGGTTTGGAG+GGG + chr6.2:1611750-1611769 None:intergenic 55.0%
AGTCGACGAGGTCTTTGGCT+TGG + chr6.2:1611867-1611886 None:intergenic 55.0%
GAGATGGAGAGGGGTTTGGA+GGG + chr6.2:1611751-1611770 None:intergenic 55.0%
GAGGTAGTCGACGAGGTCTT+TGG + chr6.2:1611872-1611891 None:intergenic 55.0%
GCCGCAATTCTCGCGTTACT+AGG + chr6.2:1612018-1612037 None:intergenic 55.0%
! GGGTGTGGTGAGAAAGTGTG+AGG + chr6.2:1611693-1611712 None:intergenic 55.0%
! GTCGACGAGGTCTTTGGCTT+GGG + chr6.2:1611866-1611885 None:intergenic 55.0%
! GTGGTGAGAAAGTGTGAGGG+TGG + chr6.2:1611689-1611708 None:intergenic 55.0%
!! CTTTGGCTTGGGAGAGAGTG+AGG + chr6.2:1611855-1611874 None:intergenic 55.0%
ACTACTGCAACTTCGGCGGC+GGG + chr6.2:1611955-1611974 None:intergenic 60.0%
AGATGGGACGGAGACGAGTG+CGG + chr6.2:1611786-1611805 None:intergenic 60.0%
GACTACTGCAACTTCGGCGG+CGG + chr6.2:1611956-1611975 None:intergenic 60.0%
GGAGATGGAGAGGGGTTTGG+AGG + chr6.2:1611752-1611771 None:intergenic 60.0%
GGCTTGGGAGAGAGTGAGGT+CGG + chr6.2:1611851-1611870 None:intergenic 60.0%
GTGGGAGATGGAGAGGGGTT+TGG + chr6.2:1611755-1611774 None:intergenic 60.0%
!! GTGGTGGTGGGAGATGGAGA+GGG + chr6.2:1611761-1611780 None:intergenic 60.0%
!! TGGTGGTGGGAGATGGAGAG+GGG + chr6.2:1611760-1611779 None:intergenic 60.0%
TCAGTGGCCACGGCGGAGAT+GGG + chr6.2:1611802-1611821 None:intergenic 65.0%
TTCAGTGGCCACGGCGGAGA+TGG + chr6.2:1611803-1611822 None:intergenic 65.0%
!! ACGAGTGCGGTGGTGGTGGT+GGG + chr6.2:1611773-1611792 None:intergenic 65.0%
!! GGTGGTGGTGGGAGATGGAG+AGG + chr6.2:1611762-1611781 None:intergenic 65.0%
AACTTCGGCGGCGGGAGCAG+CGG + chr6.2:1611947-1611966 None:intergenic 70.0%
GACGGAGACGAGTGCGGTGG+TGG + chr6.2:1611780-1611799 None:intergenic 70.0%
TCTCCGTCCCATCTCCGCCG+TGG - chr6.2:1611792-1611811 MS.gene053009:CDS 70.0%
TGGCCACGGCGGAGATGGGA+CGG + chr6.2:1611798-1611817 None:intergenic 70.0%
TGGGACGGAGACGAGTGCGG+TGG + chr6.2:1611783-1611802 None:intergenic 70.0%
! GGAGACGAGTGCGGTGGTGG+TGG + chr6.2:1611777-1611796 None:intergenic 70.0%
!! GACGAGTGCGGTGGTGGTGG+TGG + chr6.2:1611774-1611793 None:intergenic 70.0%
!! GCGGTGGTGGTGGTGGGAGA+TGG + chr6.2:1611767-1611786 None:intergenic 70.0%
! AGCAGCGGCGACTGCGGCGG+CGG + chr6.2:1611932-1611951 None:intergenic 80.0%
! GACTGCGGCGGCGGGAGCGA+AGG + chr6.2:1611923-1611942 None:intergenic 80.0%
! GGCGGCGGGAGCGAAGGACG+CGG + chr6.2:1611917-1611936 None:intergenic 80.0%
! GGCGGGAGCAGCGGCGACTG+CGG + chr6.2:1611938-1611957 None:intergenic 80.0%
! GGGAGCAGCGGCGACTGCGG+CGG + chr6.2:1611935-1611954 None:intergenic 80.0%
! GCAGCGGCGACTGCGGCGGC+GGG + chr6.2:1611931-1611950 None:intergenic 85.0%


Chromosome Type Strat End Strand Name
chr6.2 gene 1611652 1612197 1611652 ID=MS.gene053009
chr6.2 mRNA 1611652 1612197 1611652 ID=MS.gene053009.t1;Parent=MS.gene053009
chr6.2 exon 1611652 1612197 1611652 ID=MS.gene053009.t1.exon1;Parent=MS.gene053009.t1
chr6.2 CDS 1611652 1612197 1611652 ID=cds.MS.gene053009.t1;Parent=MS.gene053009.t1
Gene Sequence

>MS.gene053009

ATGGCATTATCAACAACCGCTTTCACAACTATCTCCACCCTCACACTTTCTCACCACACCCCCCTCTCAAAAAAACCAATCTCCACTCTCAATTTCCCCTCCAAACCCCTCTCCATCTCCCACCACCACCACCGCACTCGTCTCCGTCCCATCTCCGCCGTGGCCACTGAAATAGAAAAACTCGGCAACGACATCTCCGACCTCACTCTCTCCCAAGCCAAAGACCTCGTCGACTACCTCCAAGAAAAACTCGGCGTCACTGCCGCGTCCTTCGCTCCCGCCGCCGCAGTCGCCGCTGCTCCCGCCGCCGAAGTTGCAGTAGTCGAAGAGAAAACCGAATTCGATGTTGTGATTGAAGAAGTTCCTAGTAACGCGAGAATTGCGGCGATTAAAGCGGTTAGAGCTTTGACGAGTTTGGGATTGAAAGAAGCTAAGGAATTGATTGAAGGTTTGCCGAAGAAATTTAAAGAAGGTGTGAGTAAAGATGAAGCTGATGATGCTAAGAAACAACTTGAAGCTGCAGGTGCTAAAGTTACTATTGCTTAA

Protein sequence

>MS.gene053009.t1

MALSTTAFTTISTLTLSHHTPLSKKPISTLNFPSKPLSISHHHHRTRLRPISAVATEIEKLGNDISDLTLSQAKDLVDYLQEKLGVTAASFAPAAAVAAAPAAEVAVVEEKTEFDVVIEEVPSNARIAAIKAVRALTSLGLKEAKELIEGLPKKFKEGVSKDEADDAKKQLEAAGAKVTIA