AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar XinJiangDaYe / MS.gene72835

Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene72835.t1 MTR_5g026840 94.805 154 8 0 1 154 144 297 1.76e-102 295
MS.gene72835.t1 MTR_7g082980 51.282 117 57 0 1 117 135 251 7.49e-40 136
MS.gene72835.t1 MTR_7g109610 46.377 138 72 1 1 136 164 301 1.46e-37 130
MS.gene72835.t1 MTR_1g086940 51.724 116 56 0 1 116 167 282 1.76e-37 130
MS.gene72835.t1 MTR_4g069800 42.017 119 69 0 1 119 123 241 2.78e-30 110
MS.gene72835.t1 MTR_4g069800 42.017 119 69 0 1 119 155 273 7.46e-30 109
MS.gene72835.t1 MTR_4g075100 43.697 119 67 0 1 119 101 219 1.55e-29 108
MS.gene72835.t1 MTR_4g034690 39.655 116 69 1 1 115 78 193 2.31e-24 93.6
MS.gene72835.t1 MTR_0002s0730 40.164 122 71 2 1 121 78 198 2.11e-21 86.3
MS.gene72835.t1 MTR_7g112640 37.500 120 73 1 1 118 175 294 3.87e-21 87.8
MS.gene72835.t1 MTR_4g102000 33.621 116 77 0 1 116 186 301 3.20e-19 82.4
MS.gene72835.t1 MTR_4g099360 40.336 119 71 0 1 119 168 286 3.51e-19 82.0
MS.gene72835.t1 MTR_1g106550 33.621 116 76 1 2 116 221 336 2.67e-18 80.5
MS.gene72835.t1 MTR_4g069800 41.096 73 43 0 1 73 155 227 9.94e-14 66.6
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene72835.t1 AT5G45390 76.582 158 33 1 1 154 135 292 4.10e-79 236
MS.gene72835.t1 AT1G02560 51.724 116 56 0 1 116 170 285 4.42e-38 131
MS.gene72835.t1 AT1G66670 47.009 117 62 0 1 117 141 257 1.92e-35 125
MS.gene72835.t1 AT1G11750 44.538 119 66 0 1 119 152 270 6.85e-33 117
MS.gene72835.t1 AT1G11750 44.538 119 66 0 1 119 170 288 8.96e-33 117
MS.gene72835.t1 AT5G23140 44.444 117 65 0 1 117 104 220 4.91e-30 109
MS.gene72835.t1 AT4G17040 45.378 119 65 0 1 119 169 287 1.41e-28 107
MS.gene72835.t1 ATCG00670 42.241 116 66 1 1 115 78 193 1.04e-24 94.7
MS.gene72835.t1 AT1G12410 37.931 116 72 0 1 116 145 260 4.28e-23 92.0
MS.gene72835.t1 AT1G09130 39.167 120 71 1 1 118 186 305 1.07e-21 89.4
MS.gene72835.t1 AT1G09130 39.167 120 71 1 1 118 186 305 1.07e-21 89.4
MS.gene72835.t1 AT1G09130 39.167 120 71 1 1 118 186 305 1.65e-21 89.4
MS.gene72835.t1 AT1G49970 36.975 119 74 1 2 119 237 355 1.47e-18 81.3

Find 47 sgRNAs with CRISPR-Local

Find 47 sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
CCAATTGAAGCGGTGGAATA+TGG 0.280288 5.1:+17507071 MS.gene72835:CDS
ACGATGCGGTGCAGCTTGTT+AGG 0.301821 5.1:+17506775 MS.gene72835:CDS
GGCTAGTATATCTCATCATC+TGG 0.332567 5.1:-17507209 None:intergenic
AGCAATCATGATTCGCGTAT+TGG 0.378635 5.1:-17506889 None:intergenic
CCATATTCCACCGCTTCAAT+TGG 0.379663 5.1:-17507071 None:intergenic
GCAATCATGATTCGCGTATT+GGG 0.385922 5.1:-17506888 None:intergenic
ATATGTGGGGTTAGGAAATT+CGG 0.399875 5.1:-17507185 None:intergenic
CATAGCTAGCCGCTTACCTT+TGG 0.401596 5.1:-17506865 None:intergenic
ATCTCATCATCTGGGATATG+TGG 0.421816 5.1:-17507200 None:intergenic
CATCTGGGATATGTGGGGTT+AGG 0.459650 5.1:-17507193 None:intergenic
CGATGCGGTGCAGCTTGTTA+GGG 0.488234 5.1:+17506776 MS.gene72835:CDS
TGGAATATGGAATTATTGAC+GGG 0.496102 5.1:+17507084 MS.gene72835:CDS
TCTCCTGCCAGTGCCAGAAA+AGG 0.502016 5.1:+17507133 MS.gene72835:CDS
ATCATGATTGCTCAACCACC+TGG 0.504852 5.1:+17506900 MS.gene72835:CDS
GTGGAATATGGAATTATTGA+CGG 0.506529 5.1:+17507083 MS.gene72835:CDS
TCTCATCATCTGGGATATGT+GGG 0.518650 5.1:-17507199 None:intergenic
TTCAAGTGAGCGGCCGGTGA+AGG 0.524114 5.1:-17507009 None:intergenic
GATGTATCCACAATTGCAAT+GGG 0.528030 5.1:+17506801 MS.gene72835:CDS
GCTTGTCCACTAGCACCTCC+AGG 0.528362 5.1:-17506918 None:intergenic
ATCCTAGGTGGTGGCACCAA+AGG 0.533029 5.1:+17506849 MS.gene72835:CDS
TCAACAGCCTCAATTATCCT+AGG 0.535750 5.1:+17506834 MS.gene72835:CDS
TGCAATGCCCATTGCAATTG+TGG 0.538622 5.1:-17506808 None:intergenic
CAACCACCTGGAGGTGCTAG+TGG 0.544933 5.1:+17506912 MS.gene72835:CDS
GGATGTATCCACAATTGCAA+TGG 0.545256 5.1:+17506800 MS.gene72835:CDS
AACTTGTTCAAGTGAGCGGC+CGG 0.548501 5.1:-17507015 None:intergenic
CCTGCCAGTGCCAGAAAAGG+TGG 0.557724 5.1:+17507136 MS.gene72835:CDS
AAGTTCTGAAAGATATCGAT+AGG 0.559233 5.1:+17507033 MS.gene72835:CDS
AGAATCATATCTTCCTTCAC+CGG 0.560830 5.1:+17506996 MS.gene72835:CDS
GCCTCAATTATCCTAGGTGG+TGG 0.568197 5.1:+17506840 MS.gene72835:CDS
TCAGAACTTGTTCAAGTGAG+CGG 0.571992 5.1:-17507019 None:intergenic
GCTAGTATATCTCATCATCT+GGG 0.591085 5.1:-17507208 None:intergenic
TGCGGTGCAGCTTGTTAGGG+CGG 0.594116 5.1:+17506779 MS.gene72835:CDS
GGTTAGGAAATTCGGATCAT+CGG 0.597525 5.1:-17507177 None:intergenic
TCTGTCTCCAATTGAAGCGG+TGG 0.605778 5.1:+17507064 MS.gene72835:CDS
GCCACCACCTAGGATAATTG+AGG 0.619826 5.1:-17506841 None:intergenic
AGTTCTGAAAGATATCGATA+GGG 0.622080 5.1:+17507034 MS.gene72835:CDS
ATATCTGTCTCCAATTGAAG+CGG 0.641626 5.1:+17507061 MS.gene72835:CDS
CACCGCATCGTAGATAGCCA+TGG 0.659168 5.1:-17506763 None:intergenic
CATGCACAACAAGAATAATG+TGG 0.660731 5.1:+17506971 MS.gene72835:CDS
TACCTTTGGTGCCACCACCT+AGG 0.667716 5.1:-17506851 None:intergenic
CTCATCATCTGGGATATGTG+GGG 0.671388 5.1:-17507198 None:intergenic
ACAGCCTCAATTATCCTAGG+TGG 0.682148 5.1:+17506837 MS.gene72835:CDS
ATGATTGCTCAACCACCTGG+AGG 0.694109 5.1:+17506903 MS.gene72835:CDS
TACCATGGCTATCTACGATG+CGG 0.697296 5.1:+17506761 None:intergenic
GTGGTGGCACCAAAGGTAAG+CGG 0.702250 5.1:+17506856 MS.gene72835:CDS
TGTCCACTAGCACCTCCAGG+TGG 0.704733 5.1:-17506915 None:intergenic
GGAATATGGAATTATTGACG+GGG 0.741752 5.1:+17507085 MS.gene72835:CDS

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
GTGGAATATGGAATTATTGA+CGG + chr5.1:17507083-17507102 MS.gene72835:CDS 30.0%
TGGAATATGGAATTATTGAC+GGG + chr5.1:17507084-17507103 MS.gene72835:CDS 30.0%
!! AAGTTCTGAAAGATATCGAT+AGG + chr5.1:17507033-17507052 MS.gene72835:CDS 30.0%
!! AGTTCTGAAAGATATCGATA+GGG + chr5.1:17507034-17507053 MS.gene72835:CDS 30.0%
AGAATCATATCTTCCTTCAC+CGG + chr5.1:17506996-17507015 MS.gene72835:CDS 35.0%
ATATCTGTCTCCAATTGAAG+CGG + chr5.1:17507061-17507080 MS.gene72835:CDS 35.0%
ATATGTGGGGTTAGGAAATT+CGG - chr5.1:17507188-17507207 None:intergenic 35.0%
CATGCACAACAAGAATAATG+TGG + chr5.1:17506971-17506990 MS.gene72835:CDS 35.0%
GATGTATCCACAATTGCAAT+GGG + chr5.1:17506801-17506820 MS.gene72835:CDS 35.0%
GGAATATGGAATTATTGACG+GGG + chr5.1:17507085-17507104 MS.gene72835:CDS 35.0%
AGCAATCATGATTCGCGTAT+TGG - chr5.1:17506892-17506911 None:intergenic 40.0%
GCAATCATGATTCGCGTATT+GGG - chr5.1:17506891-17506910 None:intergenic 40.0%
GGATGTATCCACAATTGCAA+TGG + chr5.1:17506800-17506819 MS.gene72835:CDS 40.0%
GGTTAGGAAATTCGGATCAT+CGG - chr5.1:17507180-17507199 None:intergenic 40.0%
TCAACAGCCTCAATTATCCT+AGG + chr5.1:17506834-17506853 MS.gene72835:CDS 40.0%
! ATCTCATCATCTGGGATATG+TGG - chr5.1:17507203-17507222 None:intergenic 40.0%
! TCAGAACTTGTTCAAGTGAG+CGG - chr5.1:17507022-17507041 None:intergenic 40.0%
! TCTCATCATCTGGGATATGT+GGG - chr5.1:17507202-17507221 None:intergenic 40.0%
ACAGCCTCAATTATCCTAGG+TGG + chr5.1:17506837-17506856 MS.gene72835:CDS 45.0%
ATCATGATTGCTCAACCACC+TGG + chr5.1:17506900-17506919 MS.gene72835:CDS 45.0%
CCAATTGAAGCGGTGGAATA+TGG + chr5.1:17507071-17507090 MS.gene72835:CDS 45.0%
CCATATTCCACCGCTTCAAT+TGG - chr5.1:17507074-17507093 None:intergenic 45.0%
TGCAATGCCCATTGCAATTG+TGG - chr5.1:17506811-17506830 None:intergenic 45.0%
! CTCATCATCTGGGATATGTG+GGG - chr5.1:17507201-17507220 None:intergenic 45.0%
! GTTGCTTCTTCCACCTTTTC+TGG - chr5.1:17507149-17507168 None:intergenic 45.0%
ATGATTGCTCAACCACCTGG+AGG + chr5.1:17506903-17506922 MS.gene72835:CDS 50.0%
CATAGCTAGCCGCTTACCTT+TGG - chr5.1:17506868-17506887 None:intergenic 50.0%
GCCACCACCTAGGATAATTG+AGG - chr5.1:17506844-17506863 None:intergenic 50.0%
GCCTCAATTATCCTAGGTGG+TGG + chr5.1:17506840-17506859 MS.gene72835:CDS 50.0%
TCTGTCTCCAATTGAAGCGG+TGG + chr5.1:17507064-17507083 MS.gene72835:CDS 50.0%
! AACTTGTTCAAGTGAGCGGC+CGG - chr5.1:17507018-17507037 None:intergenic 50.0%
! CATCTGGGATATGTGGGGTT+AGG - chr5.1:17507196-17507215 None:intergenic 50.0%
!! TCTTCCACCTTTTCTGGCAC+TGG - chr5.1:17507143-17507162 None:intergenic 50.0%
GTGGTGGCACCAAAGGTAAG+CGG + chr5.1:17506856-17506875 MS.gene72835:CDS 55.0%
TCTCCTGCCAGTGCCAGAAA+AGG + chr5.1:17507133-17507152 MS.gene72835:CDS 55.0%
! ACGATGCGGTGCAGCTTGTT+AGG + chr5.1:17506775-17506794 MS.gene72835:CDS 55.0%
! ATCCTAGGTGGTGGCACCAA+AGG + chr5.1:17506849-17506868 MS.gene72835:CDS 55.0%
!! CGATGCGGTGCAGCTTGTTA+GGG + chr5.1:17506776-17506795 MS.gene72835:CDS 55.0%
!! TACCTTTGGTGCCACCACCT+AGG - chr5.1:17506854-17506873 None:intergenic 55.0%
!!! TTTTCTGGCACTGGCAGGAG+AGG - chr5.1:17507134-17507153 None:intergenic 55.0%
CCTGCCAGTGCCAGAAAAGG+TGG + chr5.1:17507136-17507155 MS.gene72835:CDS 60.0%
GCTTGTCCACTAGCACCTCC+AGG - chr5.1:17506921-17506940 None:intergenic 60.0%
TGTCCACTAGCACCTCCAGG+TGG - chr5.1:17506918-17506937 None:intergenic 60.0%
TTCAAGTGAGCGGCCGGTGA+AGG - chr5.1:17507012-17507031 None:intergenic 60.0%
!! CAACCACCTGGAGGTGCTAG+TGG + chr5.1:17506912-17506931 MS.gene72835:CDS 60.0%
!! TGCGGTGCAGCTTGTTAGGG+CGG + chr5.1:17506779-17506798 MS.gene72835:CDS 60.0%
!!! CCACCTTTTCTGGCACTGGC+AGG - chr5.1:17507139-17507158 None:intergenic 60.0%


Chromosome Type Strat End Strand Name
chr5.1 gene 17506765 17507229 17506765 ID=MS.gene72835
chr5.1 mRNA 17506765 17507229 17506765 ID=MS.gene72835.t1;Parent=MS.gene72835
chr5.1 exon 17506765 17507229 17506765 ID=MS.gene72835.t1.exon1;Parent=MS.gene72835.t1
chr5.1 CDS 17506765 17507229 17506765 ID=cds.MS.gene72835.t1;Parent=MS.gene72835.t1
Gene Sequence

>MS.gene72835

ATGGCTATCTACGATGCGGTGCAGCTTGTTAGGGCGGATGTATCCACAATTGCAATGGGCATTGCAGCATCAACAGCCTCAATTATCCTAGGTGGTGGCACCAAAGGTAAGCGGCTAGCTATGCCCAATACGCGAATCATGATTGCTCAACCACCTGGAGGTGCTAGTGGACAAGCTATAGATGTAGAAATTCAAGCTAAAGAACTCATGCACAACAAGAATAATGTGGTCAGAATCATATCTTCCTTCACCGGCCGCTCACTTGAACAAGTTCTGAAAGATATCGATAGGGATAGATATCTGTCTCCAATTGAAGCGGTGGAATATGGAATTATTGACGGGGTAATCGATAGAGAAATGATTATTCCTCTCCTGCCAGTGCCAGAAAAGGTGGAAGAAGCAACACTAAACACCGATGATCCGAATTTCCTAACCCCACATATCCCAGATGATGAGATATACTAG
Protein sequence

>MS.gene72835.t1

MAIYDAVQLVRADVSTIAMGIAASTASIILGGGTKGKRLAMPNTRIMIAQPPGGASGQAIDVEIQAKELMHNKNNVVRIISSFTGRSLEQVLKDIDRDRYLSPIEAVEYGIIDGVIDREMIIPLLPVPEKVEEATLNTDDPNFLTPHIPDDEIY