AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar XinJiangDaYe / MS.gene033030

Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene033030.t1 MTR_7g029400 35.714 126 66 3 79 200 55 169 1.13e-16 75.5
MS.gene033030.t1 MTR_8g015250 36.364 121 62 3 84 200 50 159 1.59e-16 74.7
MS.gene033030.t1 MTR_7g017880 42.342 111 60 1 73 179 52 162 1.29e-15 72.4
MS.gene033030.t1 MTR_6g016375 41.441 111 60 1 76 181 57 167 1.48e-15 72.4
MS.gene033030.t1 MTR_5g015090 36.232 138 71 6 73 202 27 155 1.46e-12 63.5
MS.gene033030.t1 MTR_4g070860 35.000 120 65 3 93 199 16 135 2.91e-12 62.8
MS.gene033030.t1 MTR_1g087040 31.624 117 73 1 84 193 7 123 1.27e-11 60.8
MS.gene033030.t1 MTR_3g117120 36.275 102 55 2 93 184 16 117 1.63e-11 60.5
MS.gene033030.t1 MTR_4g097440 29.870 154 86 5 25 172 6 143 4.80e-11 59.7
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene033030.t1 AT5G60830 54.118 85 39 0 102 186 69 153 1.45e-21 88.6
MS.gene033030.t1 AT5G38800 41.667 96 54 1 86 179 52 147 6.71e-18 77.8
MS.gene033030.t1 AT3G30530 43.000 100 57 0 82 181 59 158 7.44e-18 78.2
MS.gene033030.t1 AT1G13600 42.105 95 50 1 90 179 67 161 3.39e-16 74.3
MS.gene033030.t1 AT5G15830 36.937 111 64 1 92 196 56 166 1.56e-14 69.3
MS.gene033030.t1 AT2G04038 40.426 94 50 1 92 179 56 149 1.73e-13 66.2
MS.gene033030.t1 AT2G18160 33.043 115 70 1 90 197 17 131 7.14e-12 62.0
MS.gene033030.t1 AT1G75390 40.566 106 55 2 82 179 11 116 1.54e-11 61.2

Find 59 sgRNAs with CRISPR-Local

Find 65 sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
TTGAGTTCATGATGGGTTTC+TGG 0.068192 8.2:+15944063 None:intergenic
CAACAAAATGCTCAACTTAA+AGG 0.201570 8.2:-15943663 MS.gene033030:CDS
CCAACAAGTAAATGATCTTT+TGG 0.211603 8.2:+15943706 None:intergenic
ATGAGTTGGGAGAAGATTTA+TGG 0.268120 8.2:+15943904 None:intergenic
AGCCTGCAAAACCTGGAAAA+TGG 0.302202 8.2:-15944041 MS.gene033030:CDS
CCAAAAGATCATTTACTTGT+TGG 0.311300 8.2:-15943706 MS.gene033030:CDS
GTGAGGTATACCAACATTTC+CGG 0.334411 8.2:+15943593 None:intergenic
TGAGTTCATGATGGGTTTCT+GGG 0.383025 8.2:+15944064 None:intergenic
TTTATGGTCTGGAATTTGAA+TGG 0.416953 8.2:+15943920 None:intergenic
GAACTCAAGCCTGCAAAACC+TGG 0.431180 8.2:-15944048 MS.gene033030:CDS
CGGAAGCATAGGGTACTTCA+TGG 0.433114 8.2:+15944117 None:intergenic
TTGGGAGAAGATTTATGGTC+TGG 0.437689 8.2:+15943909 None:intergenic
TTGCAGGCTTGAGTTCATGA+TGG 0.445548 8.2:+15944055 None:intergenic
TGAAGCTGGGAGTAGTGAAA+TGG 0.452683 8.2:+15943966 None:intergenic
TTATGGTCTGGAATTTGAAT+GGG 0.454968 8.2:+15943921 None:intergenic
TTCATGATGGGTTTCTGGGT+TGG 0.465026 8.2:+15944068 None:intergenic
TTGCTGTTTGATGATGAGTT+GGG 0.465194 8.2:+15943891 None:intergenic
AGCGGTACTATCTACTTTGT+TGG 0.466162 8.2:-15943622 MS.gene033030:CDS
GTTGCTGTTTGATGATGAGT+TGG 0.468729 8.2:+15943890 None:intergenic
TGCAGGCTTGAGTTCATGAT+GGG 0.472548 8.2:+15944056 None:intergenic
TTGATGATCGAAAGAAGAAA+AGG 0.480340 8.2:-15943839 MS.gene033030:CDS
AGACGAGTTGAAAGGTTGGC+TGG 0.483172 8.2:+15943552 None:intergenic
TGTCGTTAGAGAGGTGAAGC+TGG 0.483487 8.2:+15943952 None:intergenic
ACCCATCTGTATCCATCTCA+AGG 0.506932 8.2:-15944002 MS.gene033030:CDS
CTACTCAAAATCGCTATGCT+CGG 0.512535 8.2:+15943509 None:intergenic
TCTACTTTGTTGGTTACGAC+CGG 0.517483 8.2:-15943612 MS.gene033030:CDS
GTACTGTATCACGGAAGCAT+AGG 0.517499 8.2:+15944106 None:intergenic
TACTCAAAATCGCTATGCTC+GGG 0.518651 8.2:+15943510 None:intergenic
ATTGATGGTTCAGCGCCTGC+AGG 0.527456 8.2:+15943733 None:intergenic
AGGTTGGCTGGGAAGCCACT+AGG 0.529008 8.2:+15943564 None:intergenic
ATGGGTTTCTGGGTTGGAGA+AGG 0.532216 8.2:+15944074 None:intergenic
GATACAGATGGGTCAAAGAA+TGG 0.534656 8.2:+15944012 None:intergenic
CTGGGAAGCCACTAGGGATG+TGG 0.538645 8.2:+15943571 None:intergenic
TTTCTGGGTTGGAGAAGGAT+AGG 0.544788 8.2:+15944079 None:intergenic
GTATCAAGTGAATCACCTGC+AGG 0.567327 8.2:-15943748 MS.gene033030:CDS
ATATCATGTAAACCTTGAGA+TGG 0.573761 8.2:+15943990 None:intergenic
TCAAACAGCAACAACAACTC+TGG 0.574952 8.2:-15943879 MS.gene033030:CDS
GTCGTTAGAGAGGTGAAGCT+GGG 0.575441 8.2:+15943953 None:intergenic
GACGAGTTGAAAGGTTGGCT+GGG 0.575767 8.2:+15943553 None:intergenic
AACCTTGAGATGGATACAGA+TGG 0.576394 8.2:+15944000 None:intergenic
TACTGTATCACGGAAGCATA+GGG 0.579135 8.2:+15944107 None:intergenic
GGTTGGCTGGGAAGCCACTA+GGG 0.587937 8.2:+15943565 None:intergenic
TTGTAACTAGACGAGTTGAA+AGG 0.591340 8.2:+15943544 None:intergenic
TTGGTTACGACCGGAAATGT+TGG 0.596096 8.2:-15943603 MS.gene033030:CDS
AGATAGTACCGCTTGAAGAG+AGG 0.597446 8.2:+15943632 None:intergenic
GACTGTCGCTGTCGTTAGAG+AGG 0.603830 8.2:+15943943 None:intergenic
CAAAACCTGGAAAATGGAGA+AGG 0.605645 8.2:-15944035 MS.gene033030:CDS
CAAAGTTTCCTCTCTTCAAG+CGG 0.609354 8.2:-15943640 MS.gene033030:CDS
GGTGATTCACTTGATACCAC+AGG 0.615500 8.2:+15943754 None:intergenic
AACTAGACGAGTTGAAAGGT+TGG 0.615858 8.2:+15943548 None:intergenic
ACCTTGAGATGGATACAGAT+GGG 0.616103 8.2:+15944001 None:intergenic
ATAGGAAAGGTACTGTATCA+CGG 0.627119 8.2:+15944097 None:intergenic
CAACAACTCTGGTAAAGCAA+AGG 0.630742 8.2:-15943868 MS.gene033030:CDS
AGACATGGTACGCAATGACG+AGG 0.666727 8.2:-15944144 None:intergenic
CTAACAGAGAATCTGCTCGT+CGG 0.675721 8.2:-15943809 MS.gene033030:CDS
ATACCTCACCACATCCCTAG+TGG 0.679014 8.2:-15943579 MS.gene033030:CDS
AGCAGCGAATTGAAGTCCTG+TGG 0.703639 8.2:-15943770 MS.gene033030:CDS
AAGCCACTAGGGATGTGGTG+AGG 0.721984 8.2:+15943576 None:intergenic
GGGTTGGAGAAGGATAGGAA+AGG 0.730828 8.2:+15944084 None:intergenic

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
!! CAACAAGTAAATGATCTTTT+GGG + chr8.2:15943945-15943964 None:intergenic 25.0%
ATATCATGTAAACCTTGAGA+TGG + chr8.2:15943662-15943681 None:intergenic 30.0%
CAACAAAATGCTCAACTTAA+AGG - chr8.2:15943986-15944005 MS.gene033030:CDS 30.0%
CCAAAAGATCATTTACTTGT+TGG - chr8.2:15943943-15943962 MS.gene033030:CDS 30.0%
! CCAACAAGTAAATGATCTTT+TGG + chr8.2:15943946-15943965 None:intergenic 30.0%
! TTATGGTCTGGAATTTGAAT+GGG + chr8.2:15943731-15943750 None:intergenic 30.0%
! TTGATGATCGAAAGAAGAAA+AGG - chr8.2:15943810-15943829 MS.gene033030:CDS 30.0%
! TTTATGGTCTGGAATTTGAA+TGG + chr8.2:15943732-15943751 None:intergenic 30.0%
! TTTTCTTCTTTCGATCATCA+AGG + chr8.2:15943811-15943830 None:intergenic 30.0%
!! CATTTTGTTGGTTGATTAGT+TGG + chr8.2:15943976-15943995 None:intergenic 30.0%
!!! CTTTAAGTTGAGCATTTTGT+TGG + chr8.2:15943988-15944007 None:intergenic 30.0%
! ATGAGTTGGGAGAAGATTTA+TGG + chr8.2:15943748-15943767 None:intergenic 35.0%
! TTGTAACTAGACGAGTTGAA+AGG + chr8.2:15944108-15944127 None:intergenic 35.0%
!! ATAGGAAAGGTACTGTATCA+CGG + chr8.2:15943555-15943574 None:intergenic 35.0%
!! TTGCTGTTTGATGATGAGTT+GGG + chr8.2:15943761-15943780 None:intergenic 35.0%
!!! TGATCTTTTGGGACAATTGA+TGG + chr8.2:15943934-15943953 None:intergenic 35.0%
AACCTTGAGATGGATACAGA+TGG + chr8.2:15943652-15943671 None:intergenic 40.0%
ACCTTGAGATGGATACAGAT+GGG + chr8.2:15943651-15943670 None:intergenic 40.0%
AGCGGTACTATCTACTTTGT+TGG - chr8.2:15944027-15944046 MS.gene033030:CDS 40.0%
CAAAACCTGGAAAATGGAGA+AGG - chr8.2:15943614-15943633 MS.gene033030:CDS 40.0%
CAAAGTTTCCTCTCTTCAAG+CGG - chr8.2:15944009-15944028 MS.gene033030:CDS 40.0%
CAACAACTCTGGTAAAGCAA+AGG - chr8.2:15943781-15943800 MS.gene033030:CDS 40.0%
CTACTCAAAATCGCTATGCT+CGG + chr8.2:15944143-15944162 None:intergenic 40.0%
GATACAGATGGGTCAAAGAA+TGG + chr8.2:15943640-15943659 None:intergenic 40.0%
GTGAGGTATACCAACATTTC+CGG + chr8.2:15944059-15944078 None:intergenic 40.0%
TACTCAAAATCGCTATGCTC+GGG + chr8.2:15944142-15944161 None:intergenic 40.0%
TCAAACAGCAACAACAACTC+TGG - chr8.2:15943770-15943789 MS.gene033030:CDS 40.0%
TTGGGAGAAGATTTATGGTC+TGG + chr8.2:15943743-15943762 None:intergenic 40.0%
! AACTAGACGAGTTGAAAGGT+TGG + chr8.2:15944104-15944123 None:intergenic 40.0%
! TACTGTATCACGGAAGCATA+GGG + chr8.2:15943545-15943564 None:intergenic 40.0%
! TCTACTTTGTTGGTTACGAC+CGG - chr8.2:15944037-15944056 MS.gene033030:CDS 40.0%
!! GTTGCTGTTTGATGATGAGT+TGG + chr8.2:15943762-15943781 None:intergenic 40.0%
!! TGAGTTCATGATGGGTTTCT+GGG + chr8.2:15943588-15943607 None:intergenic 40.0%
!! TTGAGTTCATGATGGGTTTC+TGG + chr8.2:15943589-15943608 None:intergenic 40.0%
ACCCATCTGTATCCATCTCA+AGG - chr8.2:15943647-15943666 MS.gene033030:CDS 45.0%
AGATAGTACCGCTTGAAGAG+AGG + chr8.2:15944020-15944039 None:intergenic 45.0%
AGCCTGCAAAACCTGGAAAA+TGG - chr8.2:15943608-15943627 MS.gene033030:CDS 45.0%
CTAACAGAGAATCTGCTCGT+CGG - chr8.2:15943840-15943859 MS.gene033030:CDS 45.0%
GGTGATTCACTTGATACCAC+AGG + chr8.2:15943898-15943917 None:intergenic 45.0%
GTATCAAGTGAATCACCTGC+AGG - chr8.2:15943901-15943920 MS.gene033030:CDS 45.0%
TGAAGCTGGGAGTAGTGAAA+TGG + chr8.2:15943686-15943705 None:intergenic 45.0%
TGCAGGCTTGAGTTCATGAT+GGG + chr8.2:15943596-15943615 None:intergenic 45.0%
TTGCAGGCTTGAGTTCATGA+TGG + chr8.2:15943597-15943616 None:intergenic 45.0%
TTGGTTACGACCGGAAATGT+TGG - chr8.2:15944046-15944065 MS.gene033030:CDS 45.0%
! AATGGCCTTCTCCATTTTCC+AGG + chr8.2:15943622-15943641 None:intergenic 45.0%
! CTCCATTTTCCAGGTTTTGC+AGG + chr8.2:15943613-15943632 None:intergenic 45.0%
! GTACTGTATCACGGAAGCAT+AGG + chr8.2:15943546-15943565 None:intergenic 45.0%
! TTTCTGGGTTGGAGAAGGAT+AGG + chr8.2:15943573-15943592 None:intergenic 45.0%
!! TTCATGATGGGTTTCTGGGT+TGG + chr8.2:15943584-15943603 None:intergenic 45.0%
AGCAGCGAATTGAAGTCCTG+TGG - chr8.2:15943879-15943898 MS.gene033030:CDS 50.0%
ATACCTCACCACATCCCTAG+TGG - chr8.2:15944070-15944089 MS.gene033030:CDS 50.0%
GAACTCAAGCCTGCAAAACC+TGG - chr8.2:15943601-15943620 MS.gene033030:CDS 50.0%
GGGTTGGAGAAGGATAGGAA+AGG + chr8.2:15943568-15943587 None:intergenic 50.0%
GTCGTTAGAGAGGTGAAGCT+GGG + chr8.2:15943699-15943718 None:intergenic 50.0%
TGTCGTTAGAGAGGTGAAGC+TGG + chr8.2:15943700-15943719 None:intergenic 50.0%
! AGACGAGTTGAAAGGTTGGC+TGG + chr8.2:15944100-15944119 None:intergenic 50.0%
! ATGGGTTTCTGGGTTGGAGA+AGG + chr8.2:15943578-15943597 None:intergenic 50.0%
! CGGAAGCATAGGGTACTTCA+TGG + chr8.2:15943535-15943554 None:intergenic 50.0%
! GACGAGTTGAAAGGTTGGCT+GGG + chr8.2:15944099-15944118 None:intergenic 50.0%
AAGCCACTAGGGATGTGGTG+AGG + chr8.2:15944076-15944095 None:intergenic 55.0%
GACTGTCGCTGTCGTTAGAG+AGG + chr8.2:15943709-15943728 None:intergenic 55.0%
! ATTGATGGTTCAGCGCCTGC+AGG + chr8.2:15943919-15943938 None:intergenic 55.0%
CTGGGAAGCCACTAGGGATG+TGG + chr8.2:15944081-15944100 None:intergenic 60.0%
! AGGTTGGCTGGGAAGCCACT+AGG + chr8.2:15944088-15944107 None:intergenic 60.0%
! GGTTGGCTGGGAAGCCACTA+GGG + chr8.2:15944087-15944106 None:intergenic 60.0%


Chromosome Type Strat End Strand Name
chr8.2 gene 15943509 15944162 15943509 ID=MS.gene033030
chr8.2 mRNA 15943509 15944162 15943509 ID=MS.gene033030.t1;Parent=MS.gene033030
chr8.2 exon 15943509 15944162 15943509 ID=MS.gene033030.t1.exon1;Parent=MS.gene033030.t1
chr8.2 CDS 15943509 15944162 15943509 ID=cds.MS.gene033030.t1;Parent=MS.gene033030.t1
Gene Sequence

>MS.gene033030

ATGGTACGCAATGACGAGGAACTCCATGAAGTACCCTATGCTTCCGTGATACAGTACCTTTCCTATCCTTCTCCAACCCAGAAACCCATCATGAACTCAAGCCTGCAAAACCTGGAAAATGGAGAAGGCCATTCTTTGACCCATCTGTATCCATCTCAAGGTTTACATGATATTCCATTTCACTACTCCCAGCTTCACCTCTCTAACGACAGCGACAGTCCCATTCAAATTCCAGACCATAAATCTTCTCCCAACTCATCATCAAACAGCAACAACAACTCTGGTAAAGCAAAGGATCTCCTTGATGATCGAAAGAAGAAAAGGATGTTCTCTAACAGAGAATCTGCTCGTCGGTCGCGAATGAGAAAGAAGCAGCGAATTGAAGTCCTGTGGTATCAAGTGAATCACCTGCAGGCGCTGAACCATCAATTGTCCCAAAAGATCATTTACTTGTTGGAATGTAACCAACTAATCAACCAACAAAATGCTCAACTTAAAGGCAAAGTTTCCTCTCTTCAAGCGGTACTATCTACTTTGTTGGTTACGACCGGAAATGTTGGTATACCTCACCACATCCCTAGTGGCTTCCCAGCCAACCTTTCAACTCGTCTAGTTACAAACTTACAATTTCCCGAGCATAGCGATTTTGAGTAG
Protein sequence

>MS.gene033030.t1

MVRNDEELHEVPYASVIQYLSYPSPTQKPIMNSSLQNLENGEGHSLTHLYPSQGLHDIPFHYSQLHLSNDSDSPIQIPDHKSSPNSSSNSNNNSGKAKDLLDDRKKKRMFSNRESARRSRMRKKQRIEVLWYQVNHLQALNHQLSQKIIYLLECNQLINQQNAQLKGKVSSLQAVLSTLLVTTGNVGIPHHIPSGFPANLSTRLVTNLQFPEHSDFE