AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar XinJiangDaYe / MS.gene069706


Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene069706.t1 MTR_6g074905 96.405 306 10 1 1 306 576 880 0.0 603
MS.gene069706.t1 MTR_6g074870 95.614 114 4 1 166 279 1 113 1.59e-69 220
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene069706.t1 AT1G73450 49.839 311 136 6 1 306 528 823 5.34e-70 235
MS.gene069706.t1 AT1G73460 47.588 311 155 4 1 306 533 840 6.70e-66 224
MS.gene069706.t1 AT1G73460 47.588 311 155 4 1 306 533 840 6.70e-66 224
MS.gene069706.t1 AT3G17750 38.264 311 152 6 1 306 534 809 6.54e-44 160

Find 72 sgRNAs with CRISPR-Local

Find 79 sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
ATTTAACCATGGCGACTTAC+TGG 0.244009 6.1:+66241830 None:intergenic
TAAAGATAGCCAGATGATTC+AGG 0.272060 6.1:-66241862 MS.gene069706:CDS
ATTACAAGGGAAGATGATTT+AGG 0.302027 6.1:-66241573 MS.gene069706:CDS
ACCTCCAATGACATATTTAC+TGG 0.308472 6.1:+66241950 None:intergenic
CTTCACCCGAGAAAAGTTCT+AGG 0.316441 6.1:-66241716 MS.gene069706:CDS
CGAACTACTGTCAATAATTA+CGG 0.330303 6.1:-66241651 MS.gene069706:CDS
TGATTTCGGAAAGAATTCTA+TGG 0.340361 6.1:-66242015 MS.gene069706:CDS
GTGCACAATCTTTAGATTGA+AGG 0.352847 6.1:+66241470 None:intergenic
CACGGTTCAGTTAGGTCAAT+CGG 0.353249 6.1:-66242173 MS.gene069706:CDS
CGTGATCGTGATAGTGGACT+TGG 0.356374 6.1:-66242059 MS.gene069706:CDS
AAACACTCTCATCATGATTT+CGG 0.364881 6.1:-66242029 MS.gene069706:CDS
ATGCACTTCACTGCCGATAT+CGG 0.378621 6.1:+66242127 None:intergenic
AACAGTGATGCTGCCGATAT+CGG 0.384344 6.1:-66242140 MS.gene069706:CDS
TTCCATCTCCCAACATGATC+AGG 0.405305 6.1:+66242249 None:intergenic
TGATGCACGCGGAACCTGTC+TGG 0.426564 6.1:-66242298 MS.gene069706:CDS
AAGATCACGACTCGAGGAAA+TGG 0.430640 6.1:-66242207 MS.gene069706:CDS
AGAGCAGGTAAGGCAAATAA+AGG 0.436416 6.1:-66241514 MS.gene069706:CDS
GAACTACTGTCAATAATTAC+GGG 0.442671 6.1:-66241650 MS.gene069706:CDS
ACGGTTCAGTTAGGTCAATC+GGG 0.463137 6.1:-66242172 MS.gene069706:CDS
ATGATCAACACGGTTCAGTT+AGG 0.463977 6.1:-66242181 MS.gene069706:CDS
TATTTCCGTGATCGTGATAG+TGG 0.470031 6.1:-66242065 MS.gene069706:CDS
TTTATTGGTGGTAGTAGTGA+AGG 0.470139 6.1:-66242098 MS.gene069706:CDS
CTGCTGTGCAAGAGCAGGTA+AGG 0.471247 6.1:-66241524 MS.gene069706:CDS
GGGACAAAGCTCTGCCAGAC+AGG 0.485890 6.1:+66242284 None:intergenic
GGTAAGGCAAATAAAGGCTC+AGG 0.493775 6.1:-66241508 MS.gene069706:CDS
AACCACCACCCTGAATCATC+TGG 0.494607 6.1:+66241853 None:intergenic
TGGTTAAATAATTGTAATGC+GGG 0.496234 6.1:-66241816 MS.gene069706:CDS
TCAGTTAGGTCAATCGGGGT+GGG 0.498477 6.1:-66242167 MS.gene069706:CDS
ACAAATGACCTGATCATGTT+GGG 0.499839 6.1:-66242257 MS.gene069706:CDS
ATGAAGAAGTTGACATTACA+AGG 0.499940 6.1:-66241587 MS.gene069706:CDS
GCAAATAAAGGCTCAGGAGG+AGG 0.504551 6.1:-66241502 MS.gene069706:CDS
TTATTGGTGGTAGTAGTGAA+GGG 0.510089 6.1:-66242097 MS.gene069706:CDS
TTCAGTTAGGTCAATCGGGG+TGG 0.510316 6.1:-66242168 MS.gene069706:CDS
CTGATGAAATGCTTTCTTCG+TGG 0.513180 6.1:-66241758 MS.gene069706:CDS
GATTGCTGCTGTGCAAGAGC+AGG 0.514712 6.1:-66241529 MS.gene069706:CDS
AGAGCATGTCAAGCTAGAAA+AGG 0.514729 6.1:-66241616 MS.gene069706:CDS
AAAGATAGCCAGATGATTCA+GGG 0.519030 6.1:-66241861 MS.gene069706:CDS
AAAAGCATTCATACAGTCAT+CGG 0.521280 6.1:+66241788 None:intergenic
TCAATACGATGGAGAATTGA+TGG 0.526615 6.1:-66242339 MS.gene069706:CDS
GTGATCGTGATAGTGGACTT+GGG 0.535123 6.1:-66242058 MS.gene069706:CDS
GACAAATGACCTGATCATGT+TGG 0.535846 6.1:-66242258 MS.gene069706:CDS
TGATCGTGATAGTGGACTTG+GGG 0.546159 6.1:-66242057 MS.gene069706:CDS
GACCTGATCATGTTGGGAGA+TGG 0.546961 6.1:-66242251 MS.gene069706:CDS
TATTGGTGGTAGTAGTGAAG+GGG 0.553085 6.1:-66242096 MS.gene069706:CDS
GGAAAAGTTCTGAATCATAG+TGG 0.553356 6.1:-66242230 MS.gene069706:CDS
TTCACCCGAGAAAAGTTCTA+GGG 0.553463 6.1:-66241715 MS.gene069706:CDS
GAGTCCAGTAAATATGTCAT+TGG 0.556213 6.1:-66241954 MS.gene069706:CDS
AGCCAGATGATTCAGGGTGG+TGG 0.560576 6.1:-66241855 MS.gene069706:CDS
TGATTTAGGTGTTTCACAAG+AGG 0.562368 6.1:-66241559 MS.gene069706:CDS
TCCAGTAAATATGTCATTGG+AGG 0.572803 6.1:-66241951 MS.gene069706:CDS
GATTTAATGGCTCAATACGA+TGG 0.586468 6.1:-66242350 None:intergenic
GCATTACAATTATTTAACCA+TGG 0.591945 6.1:+66241819 None:intergenic
TGATCAGGTCATTTGTCTGA+GGG 0.593673 6.1:+66242264 None:intergenic
TGGAGAATTGATGGATGTAG+AGG 0.593762 6.1:-66242330 MS.gene069706:CDS
TCAATCTAAAGATTGTGCAC+AGG 0.604639 6.1:-66241467 MS.gene069706:CDS
ATGATCAGGTCATTTGTCTG+AGG 0.607645 6.1:+66242263 None:intergenic
AAGGCAAATAAAGGCTCAGG+AGG 0.617382 6.1:-66241505 MS.gene069706:CDS
GTGGTTCCAGTAAGTCGCCA+TGG 0.618707 6.1:-66241836 MS.gene069706:CDS
TCTTCGTGGAGGCAGAAGAG+TGG 0.628719 6.1:-66241744 MS.gene069706:CDS
ATGAAATGCTTTCTTCGTGG+AGG 0.631843 6.1:-66241755 MS.gene069706:CDS
TAGTGGAAGATCACGACTCG+AGG 0.632611 6.1:-66242213 MS.gene069706:CDS
TGGCTATCTTTAAGAGACTG+AGG 0.636805 6.1:+66241873 None:intergenic
GGATGAGAATAATGCTCATG+CGG 0.644136 6.1:-66241694 MS.gene069706:CDS
ATGGTTAAATAATTGTAATG+CGG 0.644972 6.1:-66241817 MS.gene069706:CDS
GATCGTGATAGTGGACTTGG+GGG 0.648769 6.1:-66242056 MS.gene069706:CDS
CAAGTCCACTATCACGATCA+CGG 0.649638 6.1:+66242060 None:intergenic
GATATCGGCAGTGAAGTGCA+TGG 0.658952 6.1:-66242125 MS.gene069706:CDS
CGGTTCAGTTAGGTCAATCG+GGG 0.686082 6.1:-66242171 MS.gene069706:CDS
GGAATTGAATCTGATGCACG+CGG 0.692119 6.1:-66242309 MS.gene069706:CDS
TGAAGAAGTTGACATTACAA+GGG 0.707878 6.1:-66241586 MS.gene069706:CDS
GATAGCCAGATGATTCAGGG+TGG 0.778676 6.1:-66241858 MS.gene069706:CDS
GAAATGGAAGATGATCAACA+CGG 0.810249 6.1:-66242191 MS.gene069706:CDS

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
!! ATGGTTAAATAATTGTAATG+CGG - chr6.1:66241967-66241986 MS.gene069706:CDS 20.0%
! CAAATAAAAACACATACTGA+AGG - chr6.1:66241875-66241894 MS.gene069706:CDS 25.0%
! GCATTACAATTATTTAACCA+TGG + chr6.1:66241968-66241987 None:intergenic 25.0%
! TGGTTAAATAATTGTAATGC+GGG - chr6.1:66241968-66241987 MS.gene069706:CDS 25.0%
AAACACTCTCATCATGATTT+CGG - chr6.1:66241755-66241774 MS.gene069706:CDS 30.0%
ATGAAGAAGTTGACATTACA+AGG - chr6.1:66242197-66242216 MS.gene069706:CDS 30.0%
ATTACAAGGGAAGATGATTT+AGG - chr6.1:66242211-66242230 MS.gene069706:CDS 30.0%
CGAACTACTGTCAATAATTA+CGG - chr6.1:66242133-66242152 MS.gene069706:CDS 30.0%
GAACTACTGTCAATAATTAC+GGG - chr6.1:66242134-66242153 MS.gene069706:CDS 30.0%
TGAAGAAGTTGACATTACAA+GGG - chr6.1:66242198-66242217 MS.gene069706:CDS 30.0%
TGATTTCGGAAAGAATTCTA+TGG - chr6.1:66241769-66241788 MS.gene069706:CDS 30.0%
!! AAAAGCATTCATACAGTCAT+CGG + chr6.1:66241999-66242018 None:intergenic 30.0%
AAAGATAGCCAGATGATTCA+GGG - chr6.1:66241923-66241942 MS.gene069706:CDS 35.0%
ACAAATGACCTGATCATGTT+GGG - chr6.1:66241527-66241546 MS.gene069706:CDS 35.0%
ACCTCCAATGACATATTTAC+TGG + chr6.1:66241837-66241856 None:intergenic 35.0%
GAAATGGAAGATGATCAACA+CGG - chr6.1:66241593-66241612 MS.gene069706:CDS 35.0%
GAGTCCAGTAAATATGTCAT+TGG - chr6.1:66241830-66241849 MS.gene069706:CDS 35.0%
GTGCACAATCTTTAGATTGA+AGG + chr6.1:66242317-66242336 None:intergenic 35.0%
TAAAGATAGCCAGATGATTC+AGG - chr6.1:66241922-66241941 MS.gene069706:CDS 35.0%
TCAATACGATGGAGAATTGA+TGG - chr6.1:66241445-66241464 MS.gene069706:CDS 35.0%
TCAATCTAAAGATTGTGCAC+AGG - chr6.1:66242317-66242336 MS.gene069706:CDS 35.0%
TCCAGTAAATATGTCATTGG+AGG - chr6.1:66241833-66241852 MS.gene069706:CDS 35.0%
TGATTTAGGTGTTTCACAAG+AGG - chr6.1:66242225-66242244 MS.gene069706:CDS 35.0%
! GACTGTATGAATGCTTTTGA+GGG - chr6.1:66242001-66242020 MS.gene069706:CDS 35.0%
! TGACTGTATGAATGCTTTTG+AGG - chr6.1:66242000-66242019 MS.gene069706:CDS 35.0%
! TTATTGGTGGTAGTAGTGAA+GGG - chr6.1:66241687-66241706 MS.gene069706:CDS 35.0%
! TTTATTGGTGGTAGTAGTGA+AGG - chr6.1:66241686-66241705 MS.gene069706:CDS 35.0%
!! GAAGTGCATGGAAGTTTTAT+TGG - chr6.1:66241671-66241690 MS.gene069706:CDS 35.0%
!! GGAAAAGTTCTGAATCATAG+TGG - chr6.1:66241554-66241573 MS.gene069706:CDS 35.0%
AGAGCAGGTAAGGCAAATAA+AGG - chr6.1:66242270-66242289 MS.gene069706:CDS 40.0%
AGAGCATGTCAAGCTAGAAA+AGG - chr6.1:66242168-66242187 MS.gene069706:CDS 40.0%
AGATTGTGCACAGGAAAAAC+AGG - chr6.1:66242326-66242345 MS.gene069706:CDS 40.0%
ATGAAATGCTTTCTTCGTGG+AGG - chr6.1:66242029-66242048 MS.gene069706:CDS 40.0%
ATGATCAACACGGTTCAGTT+AGG - chr6.1:66241603-66241622 MS.gene069706:CDS 40.0%
ATGATCAGGTCATTTGTCTG+AGG + chr6.1:66241524-66241543 None:intergenic 40.0%
ATTTAACCATGGCGACTTAC+TGG + chr6.1:66241957-66241976 None:intergenic 40.0%
CTGATGAAATGCTTTCTTCG+TGG - chr6.1:66242026-66242045 MS.gene069706:CDS 40.0%
GACAAATGACCTGATCATGT+TGG - chr6.1:66241526-66241545 MS.gene069706:CDS 40.0%
GGATGAGAATAATGCTCATG+CGG - chr6.1:66242090-66242109 MS.gene069706:CDS 40.0%
TATTTCCGTGATCGTGATAG+TGG - chr6.1:66241719-66241738 MS.gene069706:CDS 40.0%
TGATCAGGTCATTTGTCTGA+GGG + chr6.1:66241523-66241542 None:intergenic 40.0%
TTCACCCGAGAAAAGTTCTA+GGG - chr6.1:66242069-66242088 MS.gene069706:CDS 40.0%
! CTCATCCCTAGAACTTTTCT+CGG + chr6.1:66242077-66242096 None:intergenic 40.0%
! TATTGGTGGTAGTAGTGAAG+GGG - chr6.1:66241688-66241707 MS.gene069706:CDS 40.0%
! TCATCCCTAGAACTTTTCTC+GGG + chr6.1:66242076-66242095 None:intergenic 40.0%
! TGGAGAATTGATGGATGTAG+AGG - chr6.1:66241454-66241473 MS.gene069706:CDS 40.0%
! TGGCTATCTTTAAGAGACTG+AGG + chr6.1:66241914-66241933 None:intergenic 40.0%
!!! GTGCATGGAAGTTTTATTGG+TGG - chr6.1:66241674-66241693 MS.gene069706:CDS 40.0%
AACAGTGATGCTGCCGATAT+CGG - chr6.1:66241644-66241663 MS.gene069706:CDS 45.0%
AAGATCACGACTCGAGGAAA+TGG - chr6.1:66241577-66241596 MS.gene069706:CDS 45.0%
AAGGCAAATAAAGGCTCAGG+AGG - chr6.1:66242279-66242298 MS.gene069706:CDS 45.0%
ACGGTTCAGTTAGGTCAATC+GGG - chr6.1:66241612-66241631 MS.gene069706:CDS 45.0%
ATGCACTTCACTGCCGATAT+CGG + chr6.1:66241660-66241679 None:intergenic 45.0%
CAAGTCCACTATCACGATCA+CGG + chr6.1:66241727-66241746 None:intergenic 45.0%
CACGGTTCAGTTAGGTCAAT+CGG - chr6.1:66241611-66241630 MS.gene069706:CDS 45.0%
CTTCACCCGAGAAAAGTTCT+AGG - chr6.1:66242068-66242087 MS.gene069706:CDS 45.0%
GGAATTGAATCTGATGCACG+CGG - chr6.1:66241475-66241494 MS.gene069706:CDS 45.0%
GGTAAGGCAAATAAAGGCTC+AGG - chr6.1:66242276-66242295 MS.gene069706:CDS 45.0%
TTCCATCTCCCAACATGATC+AGG + chr6.1:66241538-66241557 None:intergenic 45.0%
!! GTGATCGTGATAGTGGACTT+GGG - chr6.1:66241726-66241745 MS.gene069706:CDS 45.0%
!! TGATCGTGATAGTGGACTTG+GGG - chr6.1:66241727-66241746 MS.gene069706:CDS 45.0%
AACCACCACCCTGAATCATC+TGG + chr6.1:66241934-66241953 None:intergenic 50.0%
CGGTTCAGTTAGGTCAATCG+GGG - chr6.1:66241613-66241632 MS.gene069706:CDS 50.0%
GACCTGATCATGTTGGGAGA+TGG - chr6.1:66241533-66241552 MS.gene069706:CDS 50.0%
GATAGCCAGATGATTCAGGG+TGG - chr6.1:66241926-66241945 MS.gene069706:CDS 50.0%
GATATCGGCAGTGAAGTGCA+TGG - chr6.1:66241659-66241678 MS.gene069706:CDS 50.0%
GCAAATAAAGGCTCAGGAGG+AGG - chr6.1:66242282-66242301 MS.gene069706:CDS 50.0%
TAGTGGAAGATCACGACTCG+AGG - chr6.1:66241571-66241590 MS.gene069706:CDS 50.0%
TCAGTTAGGTCAATCGGGGT+GGG - chr6.1:66241617-66241636 MS.gene069706:CDS 50.0%
TTCAGTTAGGTCAATCGGGG+TGG - chr6.1:66241616-66241635 MS.gene069706:CDS 50.0%
!! CGTGATCGTGATAGTGGACT+TGG - chr6.1:66241725-66241744 MS.gene069706:CDS 50.0%
!! GATCGTGATAGTGGACTTGG+GGG - chr6.1:66241728-66241747 MS.gene069706:CDS 50.0%
AGCCAGATGATTCAGGGTGG+TGG - chr6.1:66241929-66241948 MS.gene069706:CDS 55.0%
CTGCTGTGCAAGAGCAGGTA+AGG - chr6.1:66242260-66242279 MS.gene069706:CDS 55.0%
GATTGCTGCTGTGCAAGAGC+AGG - chr6.1:66242255-66242274 MS.gene069706:CDS 55.0%
GTGGTTCCAGTAAGTCGCCA+TGG - chr6.1:66241948-66241967 MS.gene069706:CDS 55.0%
TCTTCGTGGAGGCAGAAGAG+TGG - chr6.1:66242040-66242059 MS.gene069706:CDS 55.0%
GGGACAAAGCTCTGCCAGAC+AGG + chr6.1:66241503-66241522 None:intergenic 60.0%
TGATGCACGCGGAACCTGTC+TGG - chr6.1:66241486-66241505 MS.gene069706:CDS 60.0%


Chromosome Type Strat End Strand Name
chr6.1 gene 66241440 66242366 66241440 ID=MS.gene069706
chr6.1 mRNA 66241440 66242366 66241440 ID=MS.gene069706.t1;Parent=MS.gene069706
chr6.1 exon 66241440 66242366 66241440 ID=MS.gene069706.t1.exon1;Parent=MS.gene069706.t1
chr6.1 CDS 66241440 66242366 66241440 ID=cds.MS.gene069706.t1;Parent=MS.gene069706.t1
Gene Sequence

>MS.gene069706

ATGGCTCAATACGATGGAGAATTGATGGATGTAGAGGAATTGAATCTGATGCACGCGGAACCTGTCTGGCAGAGCTTTGTCCCTCAGACAAATGACCTGATCATGTTGGGAGATGGAAAAGTTCTGAATCATAGTGGAAGATCACGACTCGAGGAAATGGAAGATGATCAACACGGTTCAGTTAGGTCAATCGGGGTGGGTTTCAACAGTGATGCTGCCGATATCGGCAGTGAAGTGCATGGAAGTTTTATTGGTGGTAGTAGTGAAGGGGATTTAGAATATTTCCGTGATCGTGATAGTGGACTTGGGGGATCTAAACACTCTCATCATGATTTCGGAAAGAATTCTATGGACAAATCATTTAAAAATAAGAAGAAAATTGATGAGATTGAGTCCAGTAAATATGTCATTGGAGGTCATAAAGATGCACACTCACAAATAAAAACACATACTGAAGGCAACTTTTCATTTCCTCAGTCTCTTAAAGATAGCCAGATGATTCAGGGTGGTGGTTCCAGTAAGTCGCCATGGTTAAATAATTGTAATGCGGGCGAAACCGATGACTGTATGAATGCTTTTGAGGGATCTGATGAAATGCTTTCTTCGTGGAGGCAGAAGAGTGGCGATTCTTCACCCGAGAAAAGTTCTAGGGATGAGAATAATGCTCATGCGGTTAGATCTTCGAACTCGTCTCGAACTACTGTCAATAATTACGGGTACGCTGATAAAGAGCATGTCAAGCTAGAAAAGGATGATGATGAAGAAGTTGACATTACAAGGGAAGATGATTTAGGTGTTTCACAAGAGGATGAAGAGATTGCTGCTGTGCAAGAGCAGGTAAGGCAAATAAAGGCTCAGGAGGAGGAATTTGAAACCTTCAATCTAAAGATTGTGCACAGGAAAAACAGGCACGTCTTCAACATATAA

Protein sequence

>MS.gene069706.t1

MAQYDGELMDVEELNLMHAEPVWQSFVPQTNDLIMLGDGKVLNHSGRSRLEEMEDDQHGSVRSIGVGFNSDAADIGSEVHGSFIGGSSEGDLEYFRDRDSGLGGSKHSHHDFGKNSMDKSFKNKKKIDEIESSKYVIGGHKDAHSQIKTHTEGNFSFPQSLKDSQMIQGGGSSKSPWLNNCNAGETDDCMNAFEGSDEMLSSWRQKSGDSSPEKSSRDENNAHAVRSSNSSRTTVNNYGYADKEHVKLEKDDDEEVDITREDDLGVSQEDEEIAAVQEQVRQIKAQEEEFETFNLKIVHRKNRHVFNI