AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar XinJiangDaYe / MS.gene98852


Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene98852.t1 MTR_6g084600 91.810 232 14 3 1 228 1 231 2.47e-148 412
MS.gene98852.t1 MTR_8g104140 38.865 229 87 10 5 228 6 186 5.84e-26 100
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene98852.t1 AT1G13360 31.905 210 88 8 49 227 8 193 2.33e-11 61.2

Find 65 sgRNAs with CRISPR-Local

Find 76 sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
GGGGATGGGTTGTTTGAATA+TGG 0.265700 6.1:+74133842 MS.gene98852:CDS
ATCAACTCTCTTTCTCTTGT+CGG 0.351509 6.1:-74133249 None:intergenic
GATGACTTTGGTTATGGAAC+TGG 0.354739 6.1:+74133776 MS.gene98852:CDS
GCCACCAACTGTCACTGAAC+CGG 0.360188 6.1:+74133670 MS.gene98852:CDS
CTGGTTCAAATGACCGGTTC+AGG 0.389592 6.1:+74133590 MS.gene98852:CDS
GGAGAATTTGTGACTGGGGA+TGG 0.411873 6.1:+74133827 MS.gene98852:CDS
TGGTGAACCGGCGGCGGCGG+CGG 0.425589 6.1:+74133862 MS.gene98852:CDS
GAGGCTTCTGATGATGAACT+TGG 0.430006 6.1:+74133644 MS.gene98852:CDS
GAACTTAGGTTACTTGTTTG+AGG 0.431948 6.1:+74133625 MS.gene98852:CDS
TCGGAGAGTGATGGCGGGTC+CGG 0.442269 6.1:+74133806 MS.gene98852:CDS
TGAACCAGGTCGGTCTGAAC+CGG 0.443902 6.1:-74133575 None:intergenic
TTTGCTCCTGGGACTGAACC+AGG 0.451646 6.1:+74133536 MS.gene98852:CDS
CATCTCCATCTCACCTGAAC+CGG 0.455184 6.1:-74133603 None:intergenic
ATCATCAAACCCAACAAAAC+CGG 0.455560 6.1:-74133738 None:intergenic
GGGTTCGAATGAACCGGGTT+CGG 0.457493 6.1:+74133691 MS.gene98852:CDS
CCGGTCAGGTCCACCTTCTC+CGG 0.459201 6.1:-74133719 None:intergenic
AGGTCTGACTGAACCGGAAC+CGG 0.460456 6.1:+74133556 MS.gene98852:CDS
AGGTCGGTCTGAACCGGTTC+CGG 0.460806 6.1:-74133569 None:intergenic
GTCAGACCTGGTTCAGTCCC+AGG 0.465329 6.1:-74133542 None:intergenic
TCAAGACCCATCACTGAGTC+AGG 0.467138 6.1:-74133482 None:intergenic
GGGTCCGGAGAATTTGTGAC+TGG 0.467684 6.1:+74133821 MS.gene98852:CDS
TGAACCAGGTCTGACTGAAC+CGG 0.472252 6.1:+74133550 MS.gene98852:CDS
GAGAATTTGTGACTGGGGAT+GGG 0.479678 6.1:+74133828 MS.gene98852:CDS
TGAACCGGGTTCGGTTGAAC+CGG 0.479989 6.1:+74133700 MS.gene98852:CDS
ATATGGTGAACCGGCGGCGG+CGG 0.480010 6.1:+74133859 MS.gene98852:CDS
TTCTGAGCCTGACTCAGTGA+TGG 0.480676 6.1:+74133475 MS.gene98852:CDS
AGATGACTTAACATCAGAAA+AGG 0.486054 6.1:-74133336 None:intergenic
TGAACCGGGTTCGAATGAAC+CGG 0.486228 6.1:+74133685 MS.gene98852:CDS
TGACTCGAGTGAGTCGAGTC+AGG 0.489034 6.1:+74133391 MS.gene98852:CDS
CCACCAACTGTCACTGAACC+GGG 0.496666 6.1:+74133671 MS.gene98852:CDS
GGTGAGATGGAGATGAACTT+AGG 0.499586 6.1:+74133611 MS.gene98852:CDS
TCGACTCACTCGAGTCAACT+CGG 0.500752 6.1:-74133385 None:intergenic
ATAACCAAAGTCATCAAAAC+CGG 0.504257 6.1:-74133768 None:intergenic
TTATGGAACTGGCTTGTTGT+CGG 0.511227 6.1:+74133787 MS.gene98852:CDS
AACTCTCTTTCTCTTGTCGG+TGG 0.513345 6.1:-74133246 None:intergenic
AGGCTTCTGATGATGAACTT+GGG 0.517202 6.1:+74133645 MS.gene98852:CDS
ATCCCCAGTCACAAATTCTC+CGG 0.519021 6.1:-74133825 None:intergenic
CCCGGTTCAGTGACAGTTGG+TGG 0.523123 6.1:-74133671 None:intergenic
GTTGTTTGAATATGGTGAAC+CGG 0.528733 6.1:+74133850 MS.gene98852:CDS
CAGTTGATGCTAAGATTCGT+AGG 0.534819 6.1:+74133306 MS.gene98852:CDS
AAAACATCCGCCGCCGCCGC+CGG 0.537815 6.1:-74133869 None:intergenic
ACCGACCTGGTTCAAATGAC+CGG 0.543645 6.1:+74133584 MS.gene98852:CDS
CCGGAGAAGGTGGACCTGAC+CGG 0.544040 6.1:+74133719 MS.gene98852:CDS
TGAATATGGTGAACCGGCGG+CGG 0.545351 6.1:+74133856 MS.gene98852:CDS
AATGACCGGTTCAGGTGAGA+TGG 0.546414 6.1:+74133598 MS.gene98852:CDS
TTCTCCGGTTCAACCGAACC+CGG 0.546934 6.1:-74133704 None:intergenic
TCTGAGCCTGACTCAGTGAT+GGG 0.558261 6.1:+74133476 MS.gene98852:CDS
CGACTCACTCGAGTCAACTC+GGG 0.566994 6.1:-74133384 None:intergenic
TTCGGTTGAACCGGAGAAGG+TGG 0.570994 6.1:+74133709 MS.gene98852:CDS
TGTTGTCGGAGAGTGATGGC+GGG 0.575499 6.1:+74133801 MS.gene98852:CDS
CAAACCCAACAAAACCGGTC+AGG 0.575768 6.1:-74133733 None:intergenic
GGTCCGGAGAATTTGTGACT+GGG 0.586088 6.1:+74133822 MS.gene98852:CDS
AGTTGATGCTAAGATTCGTA+GGG 0.588681 6.1:+74133307 MS.gene98852:CDS
CTGAACCGGTCATTTGAACC+AGG 0.593475 6.1:-74133589 None:intergenic
GGGTTCGGTTGAACCGGAGA+AGG 0.602699 6.1:+74133706 MS.gene98852:CDS
TTGTTGTCGGAGAGTGATGG+CGG 0.629129 6.1:+74133800 MS.gene98852:CDS
GAACCGGGTTCGAATGAACC+GGG 0.634647 6.1:+74133686 MS.gene98852:CDS
GTCCGGAGAATTTGTGACTG+GGG 0.639139 6.1:+74133823 MS.gene98852:CDS
ACCGGTCATTTGAACCAGGT+CGG 0.640805 6.1:-74133585 None:intergenic
GGCTTGTTGTCGGAGAGTGA+TGG 0.645676 6.1:+74133797 MS.gene98852:CDS
GAACCCGGTTCAGTGACAGT+TGG 0.648924 6.1:-74133674 None:intergenic
GGTTCCGGTTCAGTCAGACC+TGG 0.663444 6.1:-74133554 None:intergenic
GAACCCGGTTCATTCGAACC+CGG 0.677439 6.1:-74133689 None:intergenic
GTTTGAATATGGTGAACCGG+CGG 0.679093 6.1:+74133853 MS.gene98852:CDS
GGAACCGGTTCAGACCGACC+TGG 0.727527 6.1:+74133571 MS.gene98852:CDS

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
AGATGACTTAACATCAGAAA+AGG - chr6.1:74133339-74133358 None:intergenic 30.0%
ATAACCAAAGTCATCAAAAC+CGG - chr6.1:74133771-74133790 None:intergenic 30.0%
! AAGAAGAAATTTTTGCTCCT+GGG + chr6.1:74133525-74133544 MS.gene98852:CDS 30.0%
ATCAACTCTCTTTCTCTTGT+CGG - chr6.1:74133252-74133271 None:intergenic 35.0%
ATCATCAAACCCAACAAAAC+CGG - chr6.1:74133741-74133760 None:intergenic 35.0%
GAACTTAGGTTACTTGTTTG+AGG + chr6.1:74133625-74133644 MS.gene98852:CDS 35.0%
GTTGTTTGAATATGGTGAAC+CGG + chr6.1:74133850-74133869 MS.gene98852:CDS 35.0%
! AGTTGATGCTAAGATTCGTA+GGG + chr6.1:74133307-74133326 MS.gene98852:CDS 35.0%
! GAAGAAGAAATTTTTGCTCC+TGG + chr6.1:74133524-74133543 MS.gene98852:CDS 35.0%
!! GGTTTTGATGACTTTGGTTA+TGG + chr6.1:74133770-74133789 MS.gene98852:CDS 35.0%
!!! GGGTTTGATGATGATTTTAC+CGG + chr6.1:74133749-74133768 MS.gene98852:CDS 35.0%
!!! TTTACCGGTTTTGATGACTT+TGG + chr6.1:74133764-74133783 MS.gene98852:CDS 35.0%
GATGACTTTGGTTATGGAAC+TGG + chr6.1:74133776-74133795 MS.gene98852:CDS 40.0%
! AGGCTTCTGATGATGAACTT+GGG + chr6.1:74133645-74133664 MS.gene98852:CDS 40.0%
! CAGTTGATGCTAAGATTCGT+AGG + chr6.1:74133306-74133325 MS.gene98852:CDS 40.0%
!! GTCGAGTCAGGTTTTTGATT+CGG + chr6.1:74133403-74133422 MS.gene98852:CDS 40.0%
!! TTATGGAACTGGCTTGTTGT+CGG + chr6.1:74133787-74133806 MS.gene98852:CDS 40.0%
AACTCTCTTTCTCTTGTCGG+TGG - chr6.1:74133249-74133268 None:intergenic 45.0%
ATCCCCAGTCACAAATTCTC+CGG - chr6.1:74133828-74133847 None:intergenic 45.0%
GAGAATTTGTGACTGGGGAT+GGG + chr6.1:74133828-74133847 MS.gene98852:CDS 45.0%
GGTGAGATGGAGATGAACTT+AGG + chr6.1:74133611-74133630 MS.gene98852:CDS 45.0%
GTTTGAATATGGTGAACCGG+CGG + chr6.1:74133853-74133872 MS.gene98852:CDS 45.0%
! GAGGCTTCTGATGATGAACT+TGG + chr6.1:74133644-74133663 MS.gene98852:CDS 45.0%
!! GGGGATGGGTTGTTTGAATA+TGG + chr6.1:74133842-74133861 MS.gene98852:CDS 45.0%
ACCGACCTGGTTCAAATGAC+CGG + chr6.1:74133584-74133603 MS.gene98852:CDS 50.0%
ACCGGTCATTTGAACCAGGT+CGG - chr6.1:74133588-74133607 None:intergenic 50.0%
CAAACCCAACAAAACCGGTC+AGG - chr6.1:74133736-74133755 None:intergenic 50.0%
CATCTCCATCTCACCTGAAC+CGG - chr6.1:74133606-74133625 None:intergenic 50.0%
CTGAACCGGTCATTTGAACC+AGG - chr6.1:74133592-74133611 None:intergenic 50.0%
GGAGAATTTGTGACTGGGGA+TGG + chr6.1:74133827-74133846 MS.gene98852:CDS 50.0%
GGTCCGGAGAATTTGTGACT+GGG + chr6.1:74133822-74133841 MS.gene98852:CDS 50.0%
GTCCGGAGAATTTGTGACTG+GGG + chr6.1:74133823-74133842 MS.gene98852:CDS 50.0%
TCAAGACCCATCACTGAGTC+AGG - chr6.1:74133485-74133504 None:intergenic 50.0%
TCGACTCACTCGAGTCAACT+CGG - chr6.1:74133388-74133407 None:intergenic 50.0%
TCTGAGCCTGACTCAGTGAT+GGG + chr6.1:74133476-74133495 MS.gene98852:CDS 50.0%
TGAACCAGGTCTGACTGAAC+CGG + chr6.1:74133550-74133569 MS.gene98852:CDS 50.0%
TGAACCGGGTTCGAATGAAC+CGG + chr6.1:74133685-74133704 MS.gene98852:CDS 50.0%
TTCTGAGCCTGACTCAGTGA+TGG + chr6.1:74133475-74133494 MS.gene98852:CDS 50.0%
TTGTTGTCGGAGAGTGATGG+CGG + chr6.1:74133800-74133819 MS.gene98852:CDS 50.0%
! AATGACCGGTTCAGGTGAGA+TGG + chr6.1:74133598-74133617 MS.gene98852:CDS 50.0%
! CTGGTTCAAATGACCGGTTC+AGG + chr6.1:74133590-74133609 MS.gene98852:CDS 50.0%
!!! TGGACCTGACCGGTTTTGTT+GGG + chr6.1:74133729-74133748 MS.gene98852:CDS 50.0%
AGGTCTGACTGAACCGGAAC+CGG + chr6.1:74133556-74133575 MS.gene98852:CDS 55.0%
CCACCAACTGTCACTGAACC+GGG + chr6.1:74133671-74133690 MS.gene98852:CDS 55.0%
CGACTCACTCGAGTCAACTC+GGG - chr6.1:74133387-74133406 None:intergenic 55.0%
GAACCCGGTTCAGTGACAGT+TGG - chr6.1:74133677-74133696 None:intergenic 55.0%
GAACCCGGTTCATTCGAACC+CGG - chr6.1:74133692-74133711 None:intergenic 55.0%
GAACCGGGTTCGAATGAACC+GGG + chr6.1:74133686-74133705 MS.gene98852:CDS 55.0%
GCCACCAACTGTCACTGAAC+CGG + chr6.1:74133670-74133689 MS.gene98852:CDS 55.0%
GGGTCCGGAGAATTTGTGAC+TGG + chr6.1:74133821-74133840 MS.gene98852:CDS 55.0%
GGGTTCGAATGAACCGGGTT+CGG + chr6.1:74133691-74133710 MS.gene98852:CDS 55.0%
TGAACCAGGTCGGTCTGAAC+CGG - chr6.1:74133578-74133597 None:intergenic 55.0%
TGAATATGGTGAACCGGCGG+CGG + chr6.1:74133856-74133875 MS.gene98852:CDS 55.0%
TGACTCGAGTGAGTCGAGTC+AGG + chr6.1:74133391-74133410 MS.gene98852:CDS 55.0%
TGTTGTCGGAGAGTGATGGC+GGG + chr6.1:74133801-74133820 MS.gene98852:CDS 55.0%
TTCGGTTGAACCGGAGAAGG+TGG + chr6.1:74133709-74133728 MS.gene98852:CDS 55.0%
TTCTCCGGTTCAACCGAACC+CGG - chr6.1:74133707-74133726 None:intergenic 55.0%
TTTGCTCCTGGGACTGAACC+AGG + chr6.1:74133536-74133555 MS.gene98852:CDS 55.0%
! TGAACCGGGTTCGGTTGAAC+CGG + chr6.1:74133700-74133719 MS.gene98852:CDS 55.0%
!! GGCTTGTTGTCGGAGAGTGA+TGG + chr6.1:74133797-74133816 MS.gene98852:CDS 55.0%
!! GTGGACCTGACCGGTTTTGT+TGG + chr6.1:74133728-74133747 MS.gene98852:CDS 55.0%
CCCGGTTCAGTGACAGTTGG+TGG - chr6.1:74133674-74133693 None:intergenic 60.0%
GGTTCCGGTTCAGTCAGACC+TGG - chr6.1:74133557-74133576 None:intergenic 60.0%
GTCAGACCTGGTTCAGTCCC+AGG - chr6.1:74133545-74133564 None:intergenic 60.0%
! AGGTCGGTCTGAACCGGTTC+CGG - chr6.1:74133572-74133591 None:intergenic 60.0%
! GGCGGATGTTTTGTGGCGGT+CGG + chr6.1:74133880-74133899 MS.gene98852:CDS 60.0%
! GGGTTCGGTTGAACCGGAGA+AGG + chr6.1:74133706-74133725 MS.gene98852:CDS 60.0%
ATATGGTGAACCGGCGGCGG+CGG + chr6.1:74133859-74133878 MS.gene98852:CDS 65.0%
CCGGAGAAGGTGGACCTGAC+CGG + chr6.1:74133719-74133738 MS.gene98852:CDS 65.0%
CCGGTCAGGTCCACCTTCTC+CGG - chr6.1:74133722-74133741 None:intergenic 65.0%
! CGGCGGCGGATGTTTTGTGG+CGG + chr6.1:74133876-74133895 MS.gene98852:CDS 65.0%
! GGAACCGGTTCAGACCGACC+TGG + chr6.1:74133571-74133590 MS.gene98852:CDS 65.0%
!! TCGGAGAGTGATGGCGGGTC+CGG + chr6.1:74133806-74133825 MS.gene98852:CDS 65.0%
AAAACATCCGCCGCCGCCGC+CGG - chr6.1:74133872-74133891 None:intergenic 70.0%
! CGGCGGCGGCGGATGTTTTG+TGG + chr6.1:74133873-74133892 MS.gene98852:CDS 70.0%
! TGGTGAACCGGCGGCGGCGG+CGG + chr6.1:74133862-74133881 MS.gene98852:CDS 80.0%


Chromosome Type Strat End Strand Name
chr6.1 gene 74133236 74133922 74133236 ID=MS.gene98852
chr6.1 mRNA 74133236 74133922 74133236 ID=MS.gene98852.t1;Parent=MS.gene98852
chr6.1 exon 74133236 74133922 74133236 ID=MS.gene98852.t1.exon1;Parent=MS.gene98852.t1
chr6.1 CDS 74133236 74133922 74133236 ID=cds.MS.gene98852.t1;Parent=MS.gene98852.t1
Gene Sequence

>MS.gene98852

ATGGAGAATTCCACCGACAAGAGAAAGAGAGTTGATGATGAGTTTGAAACTCAAACTCACTGTGTTGACTCAGTTGATGCTAAGATTCGTAGGGTTAACTCCTTTTCTGATGTTAAGTCATCTGAAACGAAAACTGAGACTCAGCTTACCCGAGTTGACTCGAGTGAGTCGAGTCAGGTTTTTGATTCGGATGAGATTTTTAACATACTTGATGATGAAAACAATGCTCATGAACGTGATTCTGAGCCTGACTCAGTGATGGGTCTTGACTCAGTTATCAAAAGCTTTGAAGAAGAAATTTTTGCTCCTGGGACTGAACCAGGTCTGACTGAACCGGAACCGGTTCAGACCGACCTGGTTCAAATGACCGGTTCAGGTGAGATGGAGATGAACTTAGGTTACTTGTTTGAGGCTTCTGATGATGAACTTGGGTTGCCACCAACTGTCACTGAACCGGGTTCGAATGAACCGGGTTCGGTTGAACCGGAGAAGGTGGACCTGACCGGTTTTGTTGGGTTTGATGATGATTTTACCGGTTTTGATGACTTTGGTTATGGAACTGGCTTGTTGTCGGAGAGTGATGGCGGGTCCGGAGAATTTGTGACTGGGGATGGGTTGTTTGAATATGGTGAACCGGCGGCGGCGGCGGATGTTTTGTGGCGGTCGGAGTCTTTACAAGCTATGTAA

Protein sequence

>MS.gene98852.t1

MENSTDKRKRVDDEFETQTHCVDSVDAKIRRVNSFSDVKSSETKTETQLTRVDSSESSQVFDSDEIFNILDDENNAHERDSEPDSVMGLDSVIKSFEEEIFAPGTEPGLTEPEPVQTDLVQMTGSGEMEMNLGYLFEASDDELGLPPTVTEPGSNEPGSVEPEKVDLTGFVGFDDDFTGFDDFGYGTGLLSESDGGSGEFVTGDGLFEYGEPAAAADVLWRSESLQAM