AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar XinJiangDaYe / MS.gene059364


Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene059364.t1 MTR_8g083090 100.000 237 0 0 1 237 1 237 2.72e-175 491
MS.gene059364.t1 MTR_3g084340 91.139 237 21 0 1 237 1 237 1.86e-153 436
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene059364.t1 AT4G13940 89.451 237 25 0 1 237 1 237 9.63e-154 431
MS.gene059364.t1 AT4G13940 89.451 237 25 0 1 237 1 237 1.60e-152 433
MS.gene059364.t1 AT3G23810 87.764 237 29 0 1 237 1 237 8.45e-148 421
MS.gene059364.t1 AT4G13940 70.464 237 25 1 1 237 1 192 6.53e-110 323
MS.gene059364.t1 AT4G13940 86.087 115 16 0 123 237 2 116 5.31e-68 214

Find 82 sgRNAs with CRISPR-Local

Find 83 sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
GTACTGAACGTGCTCTTGAC+TGG 0.316338 4.2:-13238863 MS.gene059364:CDS
TTGAAGAGTCTCACCCTTCC+AGG 0.334073 4.2:+13238899 None:intergenic
TTCATCTTACGATACCTCTT+AGG 0.348879 4.2:+13238657 None:intergenic
GATCTTTCCCAAGCCGATTT+CGG 0.352407 4.2:-13239170 MS.gene059364:CDS
ATCGAAACCCTAACCGCTTT+AGG 0.353133 4.2:-13239011 MS.gene059364:CDS
GGTGATTCTTGCACCTTTGA+AGG 0.359405 4.2:+13239070 None:intergenic
GAGTCCGGGCATCTCGATTT+CGG 0.376850 4.2:+13239127 None:intergenic
TTCTTGCACCTTTGAAGGGT+TGG 0.381461 4.2:+13239075 None:intergenic
CTTCAGCACCTAAAGCGGTT+AGG 0.385562 4.2:+13239003 None:intergenic
TACTGAACGTGCTCTTGACT+GGG 0.392027 4.2:-13238862 MS.gene059364:CDS
TCTTGCACCTTTGAAGGGTT+GGG 0.392418 4.2:+13239076 None:intergenic
CGTGCTCTTGACTGGGGTCC+AGG 0.395326 4.2:-13238855 MS.gene059364:CDS
ACAGCGCCGCCGTCTTCGCC+TGG 0.403265 4.2:-13238917 MS.gene059364:CDS
CTGGCCGTGAGTACAAGGTT+AGG 0.409733 4.2:-13239193 MS.gene059364:CDS
CTTGTACTCACGGCCAGCTT+GGG 0.411653 4.2:+13239199 None:intergenic
GTCACGAGCGATGGCGGCGG+CGG 0.418277 4.2:+13238938 None:intergenic
CGCCGCCGTCTTCGCCTGGA+AGG 0.420226 4.2:-13238913 MS.gene059364:CDS
TTTCGATGAGGACGGCGGTT+TGG 0.421389 4.2:+13239027 None:intergenic
TTCAGCACCTAAAGCGGTTA+GGG 0.426813 4.2:+13239004 None:intergenic
TTGAGTTGAGAAAATGTTGC+AGG 0.426919 4.2:+13238968 None:intergenic
CTTGACTGGGGTCCAGGTGG+TGG 0.427852 4.2:-13238849 MS.gene059364:CDS
GTTGATCCACGAAGGTGTTA+AGG 0.434225 4.2:-13238787 MS.gene059364:CDS
AGTTCGGCAGGACATGAGTC+CGG 0.444561 4.2:+13239112 None:intergenic
ATGTCCTGCCGAACTGAGTT+CGG 0.451578 4.2:-13239104 MS.gene059364:CDS
CTTCAGCCTTAACACCTTCG+TGG 0.456708 4.2:+13238781 None:intergenic
CCTTGTACTCACGGCCAGCT+TGG 0.467412 4.2:+13239198 None:intergenic
GAGCGATGGCGGCGGCGGCG+TGG 0.480226 4.2:+13238943 None:intergenic
CCAAGCTGGCCGTGAGTACA+AGG 0.485905 4.2:-13239198 MS.gene059364:CDS
GTGCTTACTATCATTAGAGA+TGG 0.486117 4.2:-13238693 MS.gene059364:CDS
GAGTCGGCCGAAATCGGCTT+GGG 0.486792 4.2:+13239163 None:intergenic
GATGAGGACGGCGGTTTGGA+TGG 0.488837 4.2:+13239031 None:intergenic
AAGATGAAGGATAGACTTGT+TGG 0.490166 4.2:-13238642 MS.gene059364:CDS
TGCTTACTATCATTAGAGAT+GGG 0.504002 4.2:-13238692 MS.gene059364:CDS
TGGTCCGAACTCAGTTCGGC+AGG 0.506633 4.2:+13239100 None:intergenic
GCACCTTTGAAGGGTTGGGA+TGG 0.510136 4.2:+13239080 None:intergenic
GTGATTCTTGCACCTTTGAA+GGG 0.510838 4.2:+13239071 None:intergenic
AGACTACTACTGGTGTTAAG+AGG 0.510864 4.2:-13238608 MS.gene059364:CDS
CGAGTCGGCCGAAATCGGCT+TGG 0.511178 4.2:+13239162 None:intergenic
GGGATGGTCCGAACTCAGTT+CGG 0.513848 4.2:+13239096 None:intergenic
GGCGCTGTCACGAGCGATGG+CGG 0.513966 4.2:+13238932 None:intergenic
TGGCCGTGAGTACAAGGTTA+GGG 0.514832 4.2:-13239192 MS.gene059364:CDS
GATCTCGAGTCGGCCGAAAT+CGG 0.518878 4.2:+13239157 None:intergenic
GTTCGGCAGGACATGAGTCC+GGG 0.520546 4.2:+13239113 None:intergenic
GTGAGACTCTTCAAGAGTAT+TGG 0.531338 4.2:-13238890 MS.gene059364:CDS
GAGTCGTTGACATTAATAGC+AGG 0.532386 4.2:+13238549 None:intergenic
GCTGTCACGAGCGATGGCGG+CGG 0.534560 4.2:+13238935 None:intergenic
TTCAAAGGTGCAAGAATCAC+CGG 0.538038 4.2:-13239068 MS.gene059364:CDS
CTTTAGGTGCTGAAGTCCGT+TGG 0.543805 4.2:-13238995 MS.gene059364:CDS
TTATCAGTAGAACTTGGATC+AGG 0.545116 4.2:+13238732 None:intergenic
GAAGAACTTTATGAGAAGAC+TGG 0.546774 4.2:-13238762 MS.gene059364:CDS
CCATCGTCAACAATCAAGTC+AGG 0.547026 4.2:+13238825 None:intergenic
AGACTCTTCAAGAGTATTGG+TGG 0.548092 4.2:-13238887 MS.gene059364:CDS
TCAGCGTTATCAGTAGAACT+TGG 0.550511 4.2:+13238726 None:intergenic
ATCAAGTCAGGACCACCACC+TGG 0.553340 4.2:+13238837 None:intergenic
CTTTATCAGATGCAAGCTAG+TGG 0.573265 4.2:-13238585 MS.gene059364:CDS
GATGGTCATGTGAAGAGATC+CGG 0.575220 4.2:+13239049 None:intergenic
GGTTGAAGACTGATCCTAAG+AGG 0.575943 4.2:-13238671 MS.gene059364:CDS
GGCGGCGCTGTCACGAGCGA+TGG 0.576329 4.2:+13238929 None:intergenic
TAAGAGGTATCGTAAGATGA+AGG 0.581482 4.2:-13238655 MS.gene059364:CDS
CTCACCCTTCCAGGCGAAGA+CGG 0.582229 4.2:+13238908 None:intergenic
TTGGCCGAAATCGAGATGCC+CGG 0.583401 4.2:-13239131 MS.gene059364:CDS
GCCGCCGTCTTCGCCTGGAA+GGG 0.586397 4.2:-13238912 MS.gene059364:CDS
GGACCATCCCAACCCTTCAA+AGG 0.588552 4.2:-13239083 MS.gene059364:CDS
ACAGTAGAGAAAACCCAAGC+TGG 0.601142 4.2:-13239212 MS.gene059364:CDS
GATCCCTAACCTTGTACTCA+CGG 0.602852 4.2:+13239189 None:intergenic
GTTTCTGAAGAGACTACTAC+TGG 0.608136 4.2:-13238618 MS.gene059364:CDS
CGACTCTGTTACCAAGAGCA+AGG 0.612040 4.2:-13238532 MS.gene059364:CDS
CGGCCGACTCGAGATCGAGT+TGG 0.613698 4.2:-13239150 MS.gene059364:CDS
ACCCTTCCAGGCGAAGACGG+CGG 0.621848 4.2:+13238911 None:intergenic
GGTTAGGGTTTCGATGAGGA+CGG 0.624245 4.2:+13239019 None:intergenic
AAATGTTGCAGGAACACCAA+CGG 0.640245 4.2:+13238979 None:intergenic
ACGGACTTCAGCACCTAAAG+CGG 0.651771 4.2:+13238998 None:intergenic
AGTCGTTGACATTAATAGCA+GGG 0.657078 4.2:+13238550 None:intergenic
GCTCTTGACTGGGGTCCAGG+TGG 0.660501 4.2:-13238852 MS.gene059364:CDS
CGGCCAACTCGATCTCGAGT+CGG 0.664458 4.2:+13239147 None:intergenic
ACTTTATGAGAAGACTGGTG+AGG 0.668763 4.2:-13238757 MS.gene059364:CDS
GACTTGATTGTTGACGATGG+TGG 0.670668 4.2:-13238822 MS.gene059364:CDS
CCTGACTTGATTGTTGACGA+TGG 0.671777 4.2:-13238825 MS.gene059364:CDS
TAGGGTTTCGATGAGGACGG+CGG 0.676084 4.2:+13239022 None:intergenic
ACTGAACGTGCTCTTGACTG+GGG 0.690263 4.2:-13238861 MS.gene059364:CDS
AAGCGGTTAGGGTTTCGATG+AGG 0.719864 4.2:+13239015 None:intergenic
GCTACTTTGTTGATCCACGA+AGG 0.723062 4.2:-13238795 MS.gene059364:CDS

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
AAAAAAACAAACCTTGCTCT+TGG + chr4.2:13239209-13239228 None:intergenic 30.0%
TGCTTACTATCATTAGAGAT+GGG - chr4.2:13239035-13239054 MS.gene059364:CDS 30.0%
AAGATGAAGGATAGACTTGT+TGG - chr4.2:13239085-13239104 MS.gene059364:CDS 35.0%
AGTCGTTGACATTAATAGCA+GGG + chr4.2:13239180-13239199 None:intergenic 35.0%
GAAGAACTTTATGAGAAGAC+TGG - chr4.2:13238965-13238984 MS.gene059364:CDS 35.0%
GTGCTTACTATCATTAGAGA+TGG - chr4.2:13239034-13239053 MS.gene059364:CDS 35.0%
TTATCAGTAGAACTTGGATC+AGG + chr4.2:13238998-13239017 None:intergenic 35.0%
TTCATCTTACGATACCTCTT+AGG + chr4.2:13239073-13239092 None:intergenic 35.0%
!! TAAGAGGTATCGTAAGATGA+AGG - chr4.2:13239072-13239091 MS.gene059364:CDS 35.0%
!! TTGAGTTGAGAAAATGTTGC+AGG + chr4.2:13238762-13238781 None:intergenic 35.0%
AAATGTTGCAGGAACACCAA+CGG + chr4.2:13238751-13238770 None:intergenic 40.0%
ACTTTATGAGAAGACTGGTG+AGG - chr4.2:13238970-13238989 MS.gene059364:CDS 40.0%
CTTTATCAGATGCAAGCTAG+TGG - chr4.2:13239142-13239161 MS.gene059364:CDS 40.0%
GAGTCGTTGACATTAATAGC+AGG + chr4.2:13239181-13239200 None:intergenic 40.0%
GTGATTCTTGCACCTTTGAA+GGG + chr4.2:13238659-13238678 None:intergenic 40.0%
TCAGCGTTATCAGTAGAACT+TGG + chr4.2:13239004-13239023 None:intergenic 40.0%
! AGACTACTACTGGTGTTAAG+AGG - chr4.2:13239119-13239138 MS.gene059364:CDS 40.0%
! GTGAGACTCTTCAAGAGTAT+TGG - chr4.2:13238837-13238856 MS.gene059364:CDS 40.0%
! GTTTCTGAAGAGACTACTAC+TGG - chr4.2:13239109-13239128 MS.gene059364:CDS 40.0%
! TTCAAAGGTGCAAGAATCAC+CGG - chr4.2:13238659-13238678 MS.gene059364:CDS 40.0%
!! AGACTCTTCAAGAGTATTGG+TGG - chr4.2:13238840-13238859 MS.gene059364:CDS 40.0%
ACAGTAGAGAAAACCCAAGC+TGG - chr4.2:13238515-13238534 MS.gene059364:CDS 45.0%
ATCGAAACCCTAACCGCTTT+AGG - chr4.2:13238716-13238735 MS.gene059364:CDS 45.0%
CCATCGTCAACAATCAAGTC+AGG + chr4.2:13238905-13238924 None:intergenic 45.0%
GACTTGATTGTTGACGATGG+TGG - chr4.2:13238905-13238924 MS.gene059364:CDS 45.0%
GATCCCTAACCTTGTACTCA+CGG + chr4.2:13238541-13238560 None:intergenic 45.0%
GATGGTCATGTGAAGAGATC+CGG + chr4.2:13238681-13238700 None:intergenic 45.0%
GGTGATTCTTGCACCTTTGA+AGG + chr4.2:13238660-13238679 None:intergenic 45.0%
GGTTGAAGACTGATCCTAAG+AGG - chr4.2:13239056-13239075 MS.gene059364:CDS 45.0%
TACTGAACGTGCTCTTGACT+GGG - chr4.2:13238865-13238884 MS.gene059364:CDS 45.0%
TTCAGCACCTAAAGCGGTTA+GGG + chr4.2:13238726-13238745 None:intergenic 45.0%
! CCTGACTTGATTGTTGACGA+TGG - chr4.2:13238902-13238921 MS.gene059364:CDS 45.0%
! GATCTTTCCCAAGCCGATTT+CGG - chr4.2:13238557-13238576 MS.gene059364:CDS 45.0%
! GCTACTTTGTTGATCCACGA+AGG - chr4.2:13238932-13238951 MS.gene059364:CDS 45.0%
! TCTTGCACCTTTGAAGGGTT+GGG + chr4.2:13238654-13238673 None:intergenic 45.0%
! TTCTTGCACCTTTGAAGGGT+TGG + chr4.2:13238655-13238674 None:intergenic 45.0%
!! GTTGATCCACGAAGGTGTTA+AGG - chr4.2:13238940-13238959 MS.gene059364:CDS 45.0%
AAGCGGTTAGGGTTTCGATG+AGG + chr4.2:13238715-13238734 None:intergenic 50.0%
ACGGACTTCAGCACCTAAAG+CGG + chr4.2:13238732-13238751 None:intergenic 50.0%
ACTGAACGTGCTCTTGACTG+GGG - chr4.2:13238866-13238885 MS.gene059364:CDS 50.0%
ATGTCCTGCCGAACTGAGTT+CGG - chr4.2:13238623-13238642 MS.gene059364:CDS 50.0%
CGACTCTGTTACCAAGAGCA+AGG - chr4.2:13239195-13239214 MS.gene059364:CDS 50.0%
CTTCAGCACCTAAAGCGGTT+AGG + chr4.2:13238727-13238746 None:intergenic 50.0%
CTTCAGCCTTAACACCTTCG+TGG + chr4.2:13238949-13238968 None:intergenic 50.0%
GGTTAGGGTTTCGATGAGGA+CGG + chr4.2:13238711-13238730 None:intergenic 50.0%
GTACTGAACGTGCTCTTGAC+TGG - chr4.2:13238864-13238883 MS.gene059364:CDS 50.0%
TGGCCGTGAGTACAAGGTTA+GGG - chr4.2:13238535-13238554 MS.gene059364:CDS 50.0%
TTGAAGAGTCTCACCCTTCC+AGG + chr4.2:13238831-13238850 None:intergenic 50.0%
!! CTTTAGGTGCTGAAGTCCGT+TGG - chr4.2:13238732-13238751 MS.gene059364:CDS 50.0%
AGTTCGGCAGGACATGAGTC+CGG + chr4.2:13238618-13238637 None:intergenic 55.0%
ATCAAGTCAGGACCACCACC+TGG + chr4.2:13238893-13238912 None:intergenic 55.0%
CTGGCCGTGAGTACAAGGTT+AGG - chr4.2:13238534-13238553 MS.gene059364:CDS 55.0%
CTTGTACTCACGGCCAGCTT+GGG + chr4.2:13238531-13238550 None:intergenic 55.0%
GAGTCCGGGCATCTCGATTT+CGG + chr4.2:13238603-13238622 None:intergenic 55.0%
GATCTCGAGTCGGCCGAAAT+CGG + chr4.2:13238573-13238592 None:intergenic 55.0%
GGACCATCCCAACCCTTCAA+AGG - chr4.2:13238644-13238663 MS.gene059364:CDS 55.0%
GGGATGGTCCGAACTCAGTT+CGG + chr4.2:13238634-13238653 None:intergenic 55.0%
TAGGGTTTCGATGAGGACGG+CGG + chr4.2:13238708-13238727 None:intergenic 55.0%
TTGGCCGAAATCGAGATGCC+CGG - chr4.2:13238596-13238615 MS.gene059364:CDS 55.0%
TTTCGATGAGGACGGCGGTT+TGG + chr4.2:13238703-13238722 None:intergenic 55.0%
! GCACCTTTGAAGGGTTGGGA+TGG + chr4.2:13238650-13238669 None:intergenic 55.0%
CCAAGCTGGCCGTGAGTACA+AGG - chr4.2:13238529-13238548 MS.gene059364:CDS 60.0%
CCTTGTACTCACGGCCAGCT+TGG + chr4.2:13238532-13238551 None:intergenic 60.0%
CGGCCAACTCGATCTCGAGT+CGG + chr4.2:13238583-13238602 None:intergenic 60.0%
CTCACCCTTCCAGGCGAAGA+CGG + chr4.2:13238822-13238841 None:intergenic 60.0%
GTTCGGCAGGACATGAGTCC+GGG + chr4.2:13238617-13238636 None:intergenic 60.0%
TGGTCCGAACTCAGTTCGGC+AGG + chr4.2:13238630-13238649 None:intergenic 60.0%
! GAGTCGGCCGAAATCGGCTT+GGG + chr4.2:13238567-13238586 None:intergenic 60.0%
! GATGAGGACGGCGGTTTGGA+TGG + chr4.2:13238699-13238718 None:intergenic 60.0%
ACCCTTCCAGGCGAAGACGG+CGG + chr4.2:13238819-13238838 None:intergenic 65.0%
CGAGTCGGCCGAAATCGGCT+TGG + chr4.2:13238568-13238587 None:intergenic 65.0%
CGTGCTCTTGACTGGGGTCC+AGG - chr4.2:13238872-13238891 MS.gene059364:CDS 65.0%
CTTGACTGGGGTCCAGGTGG+TGG - chr4.2:13238878-13238897 MS.gene059364:CDS 65.0%
GCTCTTGACTGGGGTCCAGG+TGG - chr4.2:13238875-13238894 MS.gene059364:CDS 65.0%
!! CGGCCGACTCGAGATCGAGT+TGG - chr4.2:13238577-13238596 MS.gene059364:CDS 65.0%
GCCGCCGTCTTCGCCTGGAA+GGG - chr4.2:13238815-13238834 MS.gene059364:CDS 70.0%
GGCGCTGTCACGAGCGATGG+CGG + chr4.2:13238798-13238817 None:intergenic 70.0%
! GCTGTCACGAGCGATGGCGG+CGG + chr4.2:13238795-13238814 None:intergenic 70.0%
ACAGCGCCGCCGTCTTCGCC+TGG - chr4.2:13238810-13238829 MS.gene059364:CDS 75.0%
CGCCGCCGTCTTCGCCTGGA+AGG - chr4.2:13238814-13238833 MS.gene059364:CDS 75.0%
GGCGGCGCTGTCACGAGCGA+TGG + chr4.2:13238801-13238820 None:intergenic 75.0%
! GTCACGAGCGATGGCGGCGG+CGG + chr4.2:13238792-13238811 None:intergenic 75.0%
!! GAGCGATGGCGGCGGCGGCG+TGG + chr4.2:13238787-13238806 None:intergenic 85.0%


Chromosome Type Strat End Strand Name
chr4.2 gene 13238506 13239243 13238506 ID=MS.gene059364
chr4.2 mRNA 13238506 13239243 13238506 ID=MS.gene059364.t1;Parent=MS.gene059364
chr4.2 exon 13238506 13239243 13238506 ID=MS.gene059364.t1.exon1;Parent=MS.gene059364.t1
chr4.2 CDS 13238506 13239243 13238506 ID=cds.MS.gene059364.t1;Parent=MS.gene059364.t1
Gene Sequence

>MS.gene059364

ATGTCTCTTACAGTAGAGAAAACCCAAGCTGGCCGTGAGTACAAGGTTAGGGATCTTTCCCAAGCCGATTTCGGCCGACTCGAGATCGAGTTGGCCGAAATCGAGATGCCCGGACTCATGTCCTGCCGAACTGAGTTCGGACCATCCCAACCCTTCAAAGGTGCAAGAATCACCGGATCTCTTCACATGACCATCCAAACCGCCGTCCTCATCGAAACCCTAACCGCTTTAGGTGCTGAAGTCCGTTGGTGTTCCTGCAACATTTTCTCAACTCAAGACCACGCCGCCGCCGCCATCGCTCGTGACAGCGCCGCCGTCTTCGCCTGGAAGGGTGAGACTCTTCAAGAGTATTGGTGGTGTACTGAACGTGCTCTTGACTGGGGTCCAGGTGGTGGTCCTGACTTGATTGTTGACGATGGTGGTGATGCTACTTTGTTGATCCACGAAGGTGTTAAGGCTGAAGAACTTTATGAGAAGACTGGTGAGGTTCCTGATCCAAGTTCTACTGATAACGCTGAGTTTCAGCTTGTGCTTACTATCATTAGAGATGGGTTGAAGACTGATCCTAAGAGGTATCGTAAGATGAAGGATAGACTTGTTGGTGTTTCTGAAGAGACTACTACTGGTGTTAAGAGGCTTTATCAGATGCAAGCTAGTGGAACTCTTTTGTTCCCTGCTATTAATGTCAACGACTCTGTTACCAAGAGCAAGGTTTGTTTTTTTTTTTTTTTTTTGTAA

Protein sequence

>MS.gene059364.t1

MSLTVEKTQAGREYKVRDLSQADFGRLEIELAEIEMPGLMSCRTEFGPSQPFKGARITGSLHMTIQTAVLIETLTALGAEVRWCSCNIFSTQDHAAAAIARDSAAVFAWKGETLQEYWWCTERALDWGPGGGPDLIVDDGGDATLLIHEGVKAEELYEKTGEVPDPSSTDNAEFQLVLTIIRDGLKTDPKRYRKMKDRLVGVSEETTTGVKRLYQMQASGTLLFPAINVNDSVTKSKVCFFFFFL