AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar XinJiangDaYe / MS.gene79115

Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene79115.t1 MTR_3g086030 62.500 168 37 4 1 168 1 142 9.93e-59 181
MS.gene79115.t1 MTR_3g083080 46.860 207 88 5 1 187 1 205 1.11e-52 167
MS.gene79115.t1 MTR_3g083050 46.445 211 86 6 1 188 1 207 7.88e-52 165
MS.gene79115.t1 MTR_3g083030 50.811 185 76 5 15 188 50 230 8.38e-51 163
MS.gene79115.t1 MTR_3g083150 41.204 216 95 8 1 188 1 212 5.63e-30 109
MS.gene79115.t1 MTR_3g082420 42.012 169 85 7 28 187 57 221 5.73e-30 110
MS.gene79115.t1 MTR_3g080680 41.243 177 90 6 21 187 26 198 1.15e-29 108
MS.gene79115.t1 MTR_3g082340 41.566 166 84 7 31 187 61 222 6.94e-29 107
MS.gene79115.t1 MTR_3g083100 46.825 126 51 3 79 188 49 174 8.88e-25 95.1
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score

Find 44 sgRNAs with CRISPR-Local

Find 52 sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
TCGACCTCCTCCGCTGAAAT+TGG 0.233701 3.1:+68845484 MS.gene79115:CDS
TGTCAAGTCAACTCGAAAAT+TGG 0.257704 3.1:+68845943 MS.gene79115:CDS
TTGCCTCTCCAAACTTGCTT+TGG 0.332332 3.1:+68845778 MS.gene79115:CDS
TTGCAGAATGTCGATGGAAT+TGG 0.342181 3.1:+68845439 None:intergenic
CAGACCTCTTGTTCCAGACT+TGG 0.349258 3.1:-68846048 None:intergenic
CCAGCTAAACCTGCTATTGC+AGG 0.361502 3.1:-68845710 None:intergenic
TCTTCAACAGGTCTCCATTT+CGG 0.369598 3.1:-68845509 None:intergenic
TGGGCCTGGAAAATTGTATC+AGG 0.383119 3.1:-68846028 None:intergenic
CGCTGAAATTGGAACCGAAA+TGG 0.389800 3.1:+68845495 MS.gene79115:CDS
GTAGTCGTCCAAAGCAAGTT+TGG 0.392482 3.1:-68845786 None:intergenic
TCAACTCGAAAATTGGTTAC+TGG 0.397529 3.1:+68845950 MS.gene79115:CDS
TCGCTTTGAGTATAAGAATA+AGG 0.404801 3.1:+68845595 MS.gene79115:CDS
TTCAACTCAACATCTTCAAC+AGG 0.405309 3.1:-68845521 None:intergenic
GAATTGGATTCCCGCTTGTT+CGG 0.412872 3.1:+68845455 MS.gene79115:CDS
CGACTACAATCATAAGAATC+AGG 0.442857 3.1:+68845802 MS.gene79115:CDS
GGTTCCAATTTCAGCGGAGG+AGG 0.445623 3.1:-68845488 None:intergenic
ATGGCACACGATTTGACCTC+AGG 0.468928 3.1:-68846073 None:intergenic
CCTGCAATAGCAGGTTTAGC+TGG 0.471208 3.1:+68845710 MS.gene79115:CDS
TCTTGTTCCAGACTTGGGCC+TGG 0.477668 3.1:-68846042 None:intergenic
AGACCTCTTGTTCCAGACTT+GGG 0.479027 3.1:-68846047 None:intergenic
CGATCACACTTAATCACAAA+AGG 0.481304 3.1:-68845575 None:intergenic
ATCGCCCCTCCTGCAATAGC+AGG 0.508072 3.1:+68845701 MS.gene79115:CDS
CGATAGCATCAAAGGGACTT+AGG 0.513793 3.1:-68845682 None:intergenic
CTGGAAAATTGTATCAGGAT+TGG 0.515830 3.1:-68846023 None:intergenic
GAACAAGAGGTCTGCACCTG+AGG 0.544263 3.1:+68846057 MS.gene79115:CDS
AGGAGGGGCGATAGCATCAA+AGG 0.546475 3.1:-68845690 None:intergenic
TTGCAATTGCAGAATGTCGA+TGG 0.566979 3.1:+68845433 None:intergenic
GCGCTTGTCGTACTCCGCCA+TGG 0.567075 3.1:-68845651 None:intergenic
CATTTCGGTTCCAATTTCAG+CGG 0.570500 3.1:-68845494 None:intergenic
GTCGAGTAACGCCGAACAAG+CGG 0.580577 3.1:-68845466 None:intergenic
ACTCGAAAATTGGTTACTGG+TGG 0.583640 3.1:+68845953 MS.gene79115:CDS
TTCGGTTCCAATTTCAGCGG+AGG 0.584740 3.1:-68845491 None:intergenic
TAAACCTGCTATTGCAGGAG+GGG 0.586552 3.1:-68845705 None:intergenic
TCGAGTAACGCCGAACAAGC+GGG 0.589918 3.1:-68845465 None:intergenic
GCTAAACCTGCTATTGCAGG+AGG 0.591208 3.1:-68845707 None:intergenic
GGCTCAGATTAAACTAGATG+AGG 0.594266 3.1:+68845616 MS.gene79115:CDS
TGAGGAGATTGAAGCAGCCA+TGG 0.603332 3.1:+68845634 MS.gene79115:CDS
AGGCCCAAGTCTGGAACAAG+AGG 0.603727 3.1:+68846044 MS.gene79115:CDS
GGAGGGGCGATAGCATCAAA+GGG 0.607813 3.1:-68845689 None:intergenic
CAAAGGGACTTAGGTTGCGA+CGG 0.608411 3.1:-68845673 None:intergenic
CTAAACCTGCTATTGCAGGA+GGG 0.624497 3.1:-68845706 None:intergenic
CGTCCAAAGCAAGTTTGGAG+AGG 0.664103 3.1:-68845781 None:intergenic
GCAATAGCAGGTTTAGCTGG+CGG 0.670820 3.1:+68845713 MS.gene79115:CDS
GGAGATTGAAGCAGCCATGG+CGG 0.715841 3.1:+68845637 MS.gene79115:CDS

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
!!! TCTTATTTATTTATTTATCC+AGG + chr3.1:68845895-68845914 MS.gene79115:intron 15.0%
! GAATTAATTAAGGAAGTAAC+TGG - chr3.1:68845843-68845862 None:intergenic 25.0%
!!! ATCATTTGCTTTTGCTTTAA+AGG - chr3.1:68845993-68846012 None:intergenic 25.0%
!!! CGATTTTTTGTTATGTCAAT+GGG - chr3.1:68845746-68845765 None:intergenic 25.0%
! TCGCTTTGAGTATAAGAATA+AGG + chr3.1:68845595-68845614 MS.gene79115:CDS 30.0%
!!! GCGATTTTTTGTTATGTCAA+TGG - chr3.1:68845747-68845766 None:intergenic 30.0%
CAAACTCATAATTCGAATCC+TGG - chr3.1:68845916-68845935 None:intergenic 35.0%
CGACTACAATCATAAGAATC+AGG + chr3.1:68845802-68845821 MS.gene79115:CDS 35.0%
CGATCACACTTAATCACAAA+AGG - chr3.1:68845578-68845597 None:intergenic 35.0%
CTGGAAAATTGTATCAGGAT+TGG - chr3.1:68846026-68846045 None:intergenic 35.0%
TCAACTCGAAAATTGGTTAC+TGG + chr3.1:68845950-68845969 MS.gene79115:CDS 35.0%
TGTCAAGTCAACTCGAAAAT+TGG + chr3.1:68845943-68845962 MS.gene79115:CDS 35.0%
TTCAACTCAACATCTTCAAC+AGG - chr3.1:68845524-68845543 None:intergenic 35.0%
! CAATCCTGATACAATTTTCC+AGG + chr3.1:68846024-68846043 MS.gene79115:CDS 35.0%
!!! ATTTTCGAGTTGACTTGACA+AGG - chr3.1:68845943-68845962 None:intergenic 35.0%
ACTCGAAAATTGGTTACTGG+TGG + chr3.1:68845953-68845972 MS.gene79115:CDS 40.0%
CATTTCGGTTCCAATTTCAG+CGG - chr3.1:68845497-68845516 None:intergenic 40.0%
GGCTCAGATTAAACTAGATG+AGG + chr3.1:68845616-68845635 MS.gene79115:CDS 40.0%
TCTTCAACAGGTCTCCATTT+CGG - chr3.1:68845512-68845531 None:intergenic 40.0%
AGACCTCTTGTTCCAGACTT+GGG - chr3.1:68846050-68846069 None:intergenic 45.0%
CGATAGCATCAAAGGGACTT+AGG - chr3.1:68845685-68845704 None:intergenic 45.0%
CGCTGAAATTGGAACCGAAA+TGG + chr3.1:68845495-68845514 MS.gene79115:CDS 45.0%
CTAAACCTGCTATTGCAGGA+GGG - chr3.1:68845709-68845728 None:intergenic 45.0%
GAATTGGATTCCCGCTTGTT+CGG + chr3.1:68845455-68845474 MS.gene79115:CDS 45.0%
GTAGTCGTCCAAAGCAAGTT+TGG - chr3.1:68845789-68845808 None:intergenic 45.0%
TAAACCTGCTATTGCAGGAG+GGG - chr3.1:68845708-68845727 None:intergenic 45.0%
TGGGCCTGGAAAATTGTATC+AGG - chr3.1:68846031-68846050 None:intergenic 45.0%
! TTGCCTCTCCAAACTTGCTT+TGG + chr3.1:68845778-68845797 MS.gene79115:CDS 45.0%
!! TAATAATAATGAATTAATTA+AGG - chr3.1:68845853-68845872 None:intergenic 5.0%
ATGGCACACGATTTGACCTC+AGG - chr3.1:68846076-68846095 None:intergenic 50.0%
CAGACCTCTTGTTCCAGACT+TGG - chr3.1:68846051-68846070 None:intergenic 50.0%
CCAGCTAAACCTGCTATTGC+AGG - chr3.1:68845713-68845732 None:intergenic 50.0%
CCTGCAATAGCAGGTTTAGC+TGG + chr3.1:68845710-68845729 MS.gene79115:CDS 50.0%
CGTCCAAAGCAAGTTTGGAG+AGG - chr3.1:68845784-68845803 None:intergenic 50.0%
GCAATAGCAGGTTTAGCTGG+CGG + chr3.1:68845713-68845732 MS.gene79115:CDS 50.0%
GCTAAACCTGCTATTGCAGG+AGG - chr3.1:68845710-68845729 None:intergenic 50.0%
TGAGGAGATTGAAGCAGCCA+TGG + chr3.1:68845634-68845653 MS.gene79115:CDS 50.0%
TTCGGTTCCAATTTCAGCGG+AGG - chr3.1:68845494-68845513 None:intergenic 50.0%
! CAAAGGGACTTAGGTTGCGA+CGG - chr3.1:68845676-68845695 None:intergenic 50.0%
! CAATTTTCCAGGCCCAAGTC+TGG + chr3.1:68846035-68846054 MS.gene79115:CDS 50.0%
AGGAGGGGCGATAGCATCAA+AGG - chr3.1:68845693-68845712 None:intergenic 55.0%
GAACAAGAGGTCTGCACCTG+AGG + chr3.1:68846057-68846076 MS.gene79115:CDS 55.0%
GGAGATTGAAGCAGCCATGG+CGG + chr3.1:68845637-68845656 MS.gene79115:CDS 55.0%
GGAGGGGCGATAGCATCAAA+GGG - chr3.1:68845692-68845711 None:intergenic 55.0%
GGTTCCAATTTCAGCGGAGG+AGG - chr3.1:68845491-68845510 None:intergenic 55.0%
GTCGAGTAACGCCGAACAAG+CGG - chr3.1:68845469-68845488 None:intergenic 55.0%
TCGACCTCCTCCGCTGAAAT+TGG + chr3.1:68845484-68845503 MS.gene79115:CDS 55.0%
TCGAGTAACGCCGAACAAGC+GGG - chr3.1:68845468-68845487 None:intergenic 55.0%
TCTTGTTCCAGACTTGGGCC+TGG - chr3.1:68846045-68846064 None:intergenic 55.0%
! AGGCCCAAGTCTGGAACAAG+AGG + chr3.1:68846044-68846063 MS.gene79115:CDS 55.0%
ATCGCCCCTCCTGCAATAGC+AGG + chr3.1:68845701-68845720 MS.gene79115:CDS 60.0%
GCGCTTGTCGTACTCCGCCA+TGG - chr3.1:68845654-68845673 None:intergenic 65.0%


Chromosome Type Strat End Strand Name
chr3.1 gene 68845446 68846105 68845446 ID=MS.gene79115
chr3.1 mRNA 68845446 68846105 68845446 ID=MS.gene79115.t1;Parent=MS.gene79115
chr3.1 exon 68845446 68845823 68845446 ID=MS.gene79115.t1.exon1;Parent=MS.gene79115.t1
chr3.1 CDS 68845446 68845823 68845446 ID=cds.MS.gene79115.t1;Parent=MS.gene79115.t1
chr3.1 exon 68845917 68846105 68845917 ID=MS.gene79115.t1.exon2;Parent=MS.gene79115.t1
chr3.1 CDS 68845917 68846105 68845917 ID=cds.MS.gene79115.t1;Parent=MS.gene79115.t1
Gene Sequence

>MS.gene79115

ATGTCGATGGAATTGGATTCCCGCTTGTTCGGCGTTACTCGACCTCCTCCGCTGAAATTGGAACCGAAATGGAGACCTGTTGAAGATGTTGAGTTGAAAGACTTCTCTATATATGATGATGACGTTGAGCCTTTTGTGATTAAGTGTGATCGCTTTGAGTATAAGAATAAGGCTCAGATTAAACTAGATGAGGAGATTGAAGCAGCCATGGCGGAGTACGACAAGCGCCGTCGCAACCTAAGTCCCTTTGATGCTATCGCCCCTCCTGCAATAGCAGGTTTAGCTGGCGGTATCAGACCCATTGACATAACAAAAAATCGCACACTTCTCACTTGCCTCTCCAAACTTGCTTTGGACGACTACAATCATAAGAATCAGGTACTAAACTTAATCACCAGTTACTTCCTTAATTAATTCATTATTATTATTATTATTCTAGTAATTCTTTTTCTTATTTATTTATTTATCCAGGATTCGAATTATGAGTTTGTTGACCTTGTCAAGTCAACTCGAAAATTGGTTACTGGTGGAATGTATTTCATTACCTTTAAAGCAAAAGCAAATGATGATGCTACTACCAATCCTGATACAATTTTCCAGGCCCAAGTCTGGAACAAGAGGTCTGCACCTGAGGTCAAATCGTGTGCCATCAAAACCTAA
Protein sequence

>MS.gene79115.t1

MSMELDSRLFGVTRPPPLKLEPKWRPVEDVELKDFSIYDDDVEPFVIKCDRFEYKNKAQIKLDEEIEAAMAEYDKRRRNLSPFDAIAPPAIAGLAGGIRPIDITKNRTLLTCLSKLALDDYNHKNQDSNYEFVDLVKSTRKLVTGGMYFITFKAKANDDATTNPDTIFQAQVWNKRSAPEVKSCAIKT