AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar XinJiangDaYe / MS.gene79286

Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene79286.t1 MTR_1g069905 100.000 164 0 0 1 164 1 164 1.48e-120 337
MS.gene79286.t1 MTR_7g107420 99.390 164 1 0 1 164 1 164 2.29e-120 336
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene79286.t1 AT1G09690 81.098 164 31 0 1 164 1 164 3.44e-101 288
MS.gene79286.t1 AT1G09590 81.098 164 31 0 1 164 1 164 3.44e-101 288
MS.gene79286.t1 AT1G57860 80.488 164 32 0 1 164 1 164 1.04e-100 286
MS.gene79286.t1 AT1G57660 80.488 164 32 0 1 164 1 164 1.04e-100 286

Find 60 sgRNAs with CRISPR-Local

Find 87 sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
TATGTCGACATTAGAGTTAA+TGG 0.335175 1.4:+56861659 MS.gene79286:CDS
TCCACCATGAAACCAGGTTT+GGG 0.345744 1.4:-56862818 None:intergenic
AACTCCTCAGTGCACCTTGA+TGG 0.353770 1.4:-56862707 None:intergenic
AGATCATTAACGACATCATA+TGG 0.366035 1.4:-56862872 None:intergenic
GGGGCCCTCTGGCTTGCGCT+TGG 0.369033 1.4:-56862798 None:intergenic
TTCCACCATGAAACCAGGTT+TGG 0.392778 1.4:-56862819 None:intergenic
GGGCCCCAAACCTGGTTTCA+TGG 0.399375 1.4:+56862814 MS.gene79286:CDS
TTAACGACATCATATGGAAT+TGG 0.408404 1.4:-56862866 None:intergenic
CTTGTTGACTTCGACACCAA+TGG 0.410846 1.4:-56861756 None:intergenic
AAACCAGGTTTGGGGCCCTC+TGG 0.418683 1.4:-56862809 None:intergenic
ACGGTCGTACCGGTCGTGTC+TGG 0.430669 1.4:+56861717 MS.gene79286:CDS
AAGCCAGAGGGCCCCAAACC+TGG 0.445982 1.4:+56862806 MS.gene79286:CDS
CTCTCCCTTGGCCTTAGCCT+CGG 0.448320 1.4:-56862765 None:intergenic
GGTGCTTATCACCTCTCCCT+TGG 0.453810 1.4:-56862777 None:intergenic
CTCTCGTCCCTTCCGCAAGA+AGG 0.461875 1.4:+56861589 MS.gene79286:CDS
TTCGACACCAATGGCCCGCT+TGG 0.477602 1.4:-56861747 None:intergenic
CGAGGCTAAGGCCAAGGGAG+AGG 0.486454 1.4:+56862766 MS.gene79286:CDS
GGGACGAGAGAATGAATCTC+TGG 0.494698 1.4:-56861576 None:intergenic
TATTGTTCCCTTCTTGCGGA+AGG 0.501884 1.4:-56861597 None:intergenic
AGCACCAAGCGCAAGCCAGA+GGG 0.504695 1.4:+56862794 MS.gene79286:CDS
TCAATTGAAGGCCGAGGCTA+AGG 0.510816 1.4:+56862754 MS.gene79286:CDS
AATGTCACCAAGCGGGCCAT+TGG 0.521717 1.4:+56861740 MS.gene79286:CDS
AAATTCTACCACGGTCGTAC+CGG 0.524822 1.4:+56861707 MS.gene79286:CDS
GATCAAGAATGATCAATTGA+AGG 0.525684 1.4:+56862742 MS.gene79286:CDS
GAAAACATGCCTGCAGGTCA+TGG 0.528675 1.4:+56861539 None:intergenic
GATCGTAAACCATGACCTGC+AGG 0.529368 1.4:-56861548 None:intergenic
ATTGTTCCCTTCTTGCGGAA+GGG 0.530894 1.4:-56861596 None:intergenic
CATGGTGGAAGGTGCTACAT+TGG 0.534415 1.4:+56862832 MS.gene79286:CDS
AGAGAATGAATCTCTGGTGC+GGG 0.544173 1.4:-56861570 None:intergenic
TCTCGTCCCTTCCGCAAGAA+GGG 0.545142 1.4:+56861590 MS.gene79286:CDS
TAGCGTTAGCCACCTACCTC+AGG 0.550280 1.4:+56861618 MS.gene79286:CDS
ACGCTATTGTTCCCTTCTTG+CGG 0.550599 1.4:-56861601 None:intergenic
GAATGATCAATTGAAGGCCG+AGG 0.551548 1.4:+56862748 MS.gene79286:CDS
AAGCACCAAGCGCAAGCCAG+AGG 0.557087 1.4:+56862793 MS.gene79286:CDS
GAAGAAGAAAACATGCCTGC+AGG 0.557795 1.4:+56861533 None:intergenic
TGGAGCATGTTATGCCATCA+AGG 0.559210 1.4:+56862693 MS.gene79286:CDS
GAAGGCCGAGGCTAAGGCCA+AGG 0.560874 1.4:+56862760 MS.gene79286:CDS
TGTCTGGAATGTCACCAAGC+GGG 0.572072 1.4:+56861733 MS.gene79286:CDS
GCACCTTCCACCATGAAACC+AGG 0.576804 1.4:-56862824 None:intergenic
AAACCTGGTTTCATGGTGGA+AGG 0.589005 1.4:+56862821 MS.gene79286:CDS
GCACTGAGGAGTTCAGATTG+AGG 0.599052 1.4:+56862717 MS.gene79286:CDS
GGTGACATTCCAGACACGAC+CGG 0.600537 1.4:-56861726 None:intergenic
ATGGCATAACATGCTCCACT+CGG 0.618716 1.4:-56862688 None:intergenic
GAGAGAATGAATCTCTGGTG+CGG 0.619187 1.4:-56861571 None:intergenic
GATGTCGTTAATGATCTCAA+AGG 0.621805 1.4:+56862878 MS.gene79286:CDS
GTTAATGGAGCTGTGCACAA+AGG 0.632022 1.4:+56861674 MS.gene79286:CDS
GTCGTTAATGATCTCAAAGG+AGG 0.636972 1.4:+56862881 MS.gene79286:CDS
AAGGCCGAGGCTAAGGCCAA+GGG 0.643263 1.4:+56862761 MS.gene79286:CDS
CCACCATGAAACCAGGTTTG+GGG 0.653619 1.4:-56862817 None:intergenic
GTGTCTGGAATGTCACCAAG+CGG 0.655012 1.4:+56861732 MS.gene79286:CDS
GTGATAAGTCCTGAGGTAGG+TGG 0.662852 1.4:-56861627 None:intergenic
CGACCGTGGTAGAATTTGTG+CGG 0.677873 1.4:-56861701 None:intergenic
CACCGATGTGATAAGTCCTG+AGG 0.683027 1.4:-56861634 None:intergenic
GATGTGATAAGTCCTGAGGT+AGG 0.683685 1.4:-56861630 None:intergenic
CCCCAAACCTGGTTTCATGG+TGG 0.684233 1.4:+56862817 MS.gene79286:CDS
AGACACGACCGGTACGACCG+TGG 0.690324 1.4:-56861715 None:intergenic
GAAGAGGATTCATGTCCGAG+TGG 0.705446 1.4:+56862673 MS.gene79286:CDS
TACCTCAGGACTTATCACAT+CGG 0.727991 1.4:+56861632 MS.gene79286:CDS
ATGCCGCACAAATTCTACCA+CGG 0.741255 1.4:+56861698 MS.gene79286:CDS
TATGCCATCAAGGTGCACTG+AGG 0.765204 1.4:+56862703 MS.gene79286:CDS

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
!! TATTTGTAGGAACATAAAAT+GGG - chr1.4:56862291-56862310 None:intergenic 20.0%
!!! ACATAAATGAAAGTATTTGT+AGG - chr1.4:56862304-56862323 None:intergenic 20.0%
!!! CAAAATTCTTCTAAGTTTTT+AGG + chr1.4:56862460-56862479 MS.gene79286:intron 20.0%
!!! GAAGAATTTTGTGTTAAATA+TGG - chr1.4:56862451-56862470 None:intergenic 20.0%
! AAGTTGGAAAACAAAAACTT+AGG - chr1.4:56862217-56862236 None:intergenic 25.0%
! CATCAAAATCATCATATATG+AGG + chr1.4:56862375-56862394 MS.gene79286:intron 25.0%
! GAACATAAAATGGGATAAAA+TGG - chr1.4:56862282-56862301 None:intergenic 25.0%
! GTATTTGTAGGAACATAAAA+TGG - chr1.4:56862292-56862311 None:intergenic 25.0%
! TCAAACAACAAAATGAATCA+AGG - chr1.4:56862074-56862093 None:intergenic 25.0%
! TTTGCTTTAGTAGTATATTC+AGG + chr1.4:56861996-56862015 MS.gene79286:intron 25.0%
!! ATCATATATGAGGTTTTTGA+AGG + chr1.4:56862385-56862404 MS.gene79286:intron 25.0%
!! TGACATCATGATGTTTTATA+TGG + chr1.4:56862418-56862437 MS.gene79286:intron 25.0%
!!! AATGTTGCTATTTATGTTTC+AGG + chr1.4:56862631-56862650 MS.gene79286:intron 25.0%
!!! ATTCGAGTGTTTTAATAAGT+TGG - chr1.4:56862233-56862252 None:intergenic 25.0%
!!! TTCTAAGTTTTTAGGTCTTA+AGG + chr1.4:56862468-56862487 MS.gene79286:intron 25.0%
AACAAAAACTTAGGCATGTT+TGG - chr1.4:56862208-56862227 None:intergenic 30.0%
AATCTCTTGGATAGAATGTA+TGG + chr1.4:56862528-56862547 MS.gene79286:intron 30.0%
AGATCATTAACGACATCATA+TGG - chr1.4:56862875-56862894 None:intergenic 30.0%
CAATATCTTTACAAGCAAAG+CGG - chr1.4:56862596-56862615 None:intergenic 30.0%
GATCAAGAATGATCAATTGA+AGG + chr1.4:56862742-56862761 MS.gene79286:CDS 30.0%
GCAAATATATGTGATGTGAT+AGG + chr1.4:56861889-56861908 MS.gene79286:intron 30.0%
TATGTCGACATTAGAGTTAA+TGG + chr1.4:56861659-56861678 MS.gene79286:CDS 30.0%
TTAACGACATCATATGGAAT+TGG - chr1.4:56862869-56862888 None:intergenic 30.0%
TTAATTTCCAGAGAATCTCT+TGG + chr1.4:56862515-56862534 MS.gene79286:intron 30.0%
! AGGTTAGGAACAAAATTTTG+AGG + chr1.4:56862651-56862670 MS.gene79286:intron 30.0%
!! TGCTATTTATGTTTCAGGTT+AGG + chr1.4:56862636-56862655 MS.gene79286:intron 30.0%
!!! GTTTTTTCACTGATTCGTAT+TGG + chr1.4:56861832-56861851 MS.gene79286:intron 30.0%
ATGTGATGTGATAGGTGTTA+TGG + chr1.4:56861897-56861916 MS.gene79286:intron 35.0%
ATTCTATCCAAGAGATTCTC+TGG - chr1.4:56862525-56862544 None:intergenic 35.0%
GATGTCGTTAATGATCTCAA+AGG + chr1.4:56862878-56862897 MS.gene79286:CDS 35.0%
TCCAATTCCAAGTGAGAAAT+TGG - chr1.4:56862334-56862353 None:intergenic 35.0%
TCCAATTTCTCACTTGGAAT+TGG + chr1.4:56862330-56862349 MS.gene79286:intron 35.0%
!! GGAACAAAATTTTGAGGAAG+AGG + chr1.4:56862657-56862676 MS.gene79286:CDS 35.0%
CAAGTCTCCAATTTCTCACT+TGG + chr1.4:56862324-56862343 MS.gene79286:intron 40.0%
GTCGTTAATGATCTCAAAGG+AGG + chr1.4:56862881-56862900 MS.gene79286:CDS 40.0%
TACCTCAGGACTTATCACAT+CGG + chr1.4:56861632-56861651 MS.gene79286:CDS 40.0%
AAATTCTACCACGGTCGTAC+CGG + chr1.4:56861707-56861726 MS.gene79286:CDS 45.0%
ACGCTATTGTTCCCTTCTTG+CGG - chr1.4:56861604-56861623 None:intergenic 45.0%
AGAGAATGAATCTCTGGTGC+GGG - chr1.4:56861573-56861592 None:intergenic 45.0%
ATGCCGCACAAATTCTACCA+CGG + chr1.4:56861698-56861717 MS.gene79286:CDS 45.0%
ATGGCATAACATGCTCCACT+CGG - chr1.4:56862691-56862710 None:intergenic 45.0%
ATTGTTCCCTTCTTGCGGAA+GGG - chr1.4:56861599-56861618 None:intergenic 45.0%
GAATGATCAATTGAAGGCCG+AGG + chr1.4:56862748-56862767 MS.gene79286:CDS 45.0%
GAGAGAATGAATCTCTGGTG+CGG - chr1.4:56861574-56861593 None:intergenic 45.0%
GATGTGATAAGTCCTGAGGT+AGG - chr1.4:56861633-56861652 None:intergenic 45.0%
GTTAATGGAGCTGTGCACAA+AGG + chr1.4:56861674-56861693 MS.gene79286:CDS 45.0%
TATTGTTCCCTTCTTGCGGA+AGG - chr1.4:56861600-56861619 None:intergenic 45.0%
TCCACCATGAAACCAGGTTT+GGG - chr1.4:56862821-56862840 None:intergenic 45.0%
TGGAGCATGTTATGCCATCA+AGG + chr1.4:56862693-56862712 MS.gene79286:CDS 45.0%
TTCCACCATGAAACCAGGTT+TGG - chr1.4:56862822-56862841 None:intergenic 45.0%
! AAACCTGGTTTCATGGTGGA+AGG + chr1.4:56862821-56862840 MS.gene79286:CDS 45.0%
!! CTTGTTGACTTCGACACCAA+TGG - chr1.4:56861759-56861778 None:intergenic 45.0%
AACTCCTCAGTGCACCTTGA+TGG - chr1.4:56862710-56862729 None:intergenic 50.0%
CACCGATGTGATAAGTCCTG+AGG - chr1.4:56861637-56861656 None:intergenic 50.0%
CCACCATGAAACCAGGTTTG+GGG - chr1.4:56862820-56862839 None:intergenic 50.0%
CGACCGTGGTAGAATTTGTG+CGG - chr1.4:56861704-56861723 None:intergenic 50.0%
GAAGAGGATTCATGTCCGAG+TGG + chr1.4:56862673-56862692 MS.gene79286:CDS 50.0%
GATCGTAAACCATGACCTGC+AGG - chr1.4:56861551-56861570 None:intergenic 50.0%
GCACTGAGGAGTTCAGATTG+AGG + chr1.4:56862717-56862736 MS.gene79286:CDS 50.0%
GGGACGAGAGAATGAATCTC+TGG - chr1.4:56861579-56861598 None:intergenic 50.0%
GTGATAAGTCCTGAGGTAGG+TGG - chr1.4:56861630-56861649 None:intergenic 50.0%
TATGCCATCAAGGTGCACTG+AGG + chr1.4:56862703-56862722 MS.gene79286:CDS 50.0%
TCAATTGAAGGCCGAGGCTA+AGG + chr1.4:56862754-56862773 MS.gene79286:CDS 50.0%
! GTGTCTGGAATGTCACCAAG+CGG + chr1.4:56861732-56861751 MS.gene79286:CDS 50.0%
! TGTCTGGAATGTCACCAAGC+GGG + chr1.4:56861733-56861752 MS.gene79286:CDS 50.0%
!! CATGGTGGAAGGTGCTACAT+TGG + chr1.4:56862832-56862851 MS.gene79286:CDS 50.0%
AATGTCACCAAGCGGGCCAT+TGG + chr1.4:56861740-56861759 MS.gene79286:CDS 55.0%
CCCCAAACCTGGTTTCATGG+TGG + chr1.4:56862817-56862836 MS.gene79286:CDS 55.0%
GCACCTTCCACCATGAAACC+AGG - chr1.4:56862827-56862846 None:intergenic 55.0%
GGTGACATTCCAGACACGAC+CGG - chr1.4:56861729-56861748 None:intergenic 55.0%
GGTGCTTATCACCTCTCCCT+TGG - chr1.4:56862780-56862799 None:intergenic 55.0%
TAGCGTTAGCCACCTACCTC+AGG + chr1.4:56861618-56861637 MS.gene79286:CDS 55.0%
TCTCGTCCCTTCCGCAAGAA+GGG + chr1.4:56861590-56861609 MS.gene79286:CDS 55.0%
AAGCACCAAGCGCAAGCCAG+AGG + chr1.4:56862793-56862812 MS.gene79286:CDS 60.0%
AAGGCCGAGGCTAAGGCCAA+GGG + chr1.4:56862761-56862780 MS.gene79286:CDS 60.0%
AGCACCAAGCGCAAGCCAGA+GGG + chr1.4:56862794-56862813 MS.gene79286:CDS 60.0%
CTCTCGTCCCTTCCGCAAGA+AGG + chr1.4:56861589-56861608 MS.gene79286:CDS 60.0%
GGGCCCCAAACCTGGTTTCA+TGG + chr1.4:56862814-56862833 MS.gene79286:CDS 60.0%
TTCGACACCAATGGCCCGCT+TGG - chr1.4:56861750-56861769 None:intergenic 60.0%
! AAACCAGGTTTGGGGCCCTC+TGG - chr1.4:56862812-56862831 None:intergenic 60.0%
!! CTCTCCCTTGGCCTTAGCCT+CGG - chr1.4:56862768-56862787 None:intergenic 60.0%
AAGCCAGAGGGCCCCAAACC+TGG + chr1.4:56862806-56862825 MS.gene79286:CDS 65.0%
AGACACGACCGGTACGACCG+TGG - chr1.4:56861718-56861737 None:intergenic 65.0%
CGAGGCTAAGGCCAAGGGAG+AGG + chr1.4:56862766-56862785 MS.gene79286:CDS 65.0%
GAAGGCCGAGGCTAAGGCCA+AGG + chr1.4:56862760-56862779 MS.gene79286:CDS 65.0%
! ACGGTCGTACCGGTCGTGTC+TGG + chr1.4:56861717-56861736 MS.gene79286:CDS 65.0%
! GGGGCCCTCTGGCTTGCGCT+TGG - chr1.4:56862801-56862820 None:intergenic 75.0%


Chromosome Type Strat End Strand Name
chr1.4 gene 56861545 56862910 56861545 ID=MS.gene79286
chr1.4 mRNA 56861545 56862910 56861545 ID=MS.gene79286.t1;Parent=MS.gene79286
chr1.4 exon 56861545 56861781 56861545 ID=MS.gene79286.t1.exon1;Parent=MS.gene79286.t1
chr1.4 CDS 56861545 56861781 56861545 ID=cds.MS.gene79286.t1;Parent=MS.gene79286.t1
chr1.4 exon 56862653 56862910 56862653 ID=MS.gene79286.t1.exon2;Parent=MS.gene79286.t1
chr1.4 CDS 56862653 56862910 56862653 ID=cds.MS.gene79286.t1;Parent=MS.gene79286.t1
Gene Sequence

>MS.gene79286

ATGCCTGCAGGTCATGGTTTACGATCCCGCACCAGAGATTCATTCTCTCGTCCCTTCCGCAAGAAGGGAACAATAGCGTTAGCCACCTACCTCAGGACTTATCACATCGGTGACTATGTCGACATTAGAGTTAATGGAGCTGTGCACAAAGGTATGCCGCACAAATTCTACCACGGTCGTACCGGTCGTGTCTGGAATGTCACCAAGCGGGCCATTGGTGTCGAAGTCAACAAGCAAGTATGTCAAATCTTCTTATATTCATCACTTGTTTGATTCATTTTCATTTTGTTTTTTCACTGATTCGTATTGGTTAATGATTGATTTTAGTGTTTAGTGTTATATCTGCAAATATATGTGATGTGATAGGTGTTATGGCTTGTTCGATTGATATTTTTTTGTTTCATTTCGAGCTTTCTTTTGAATTGTTATGTATTTGTTGCAAGTATGTTTCTTTGCTTTAGTAGTATATTCAGGATCTAGTTTAAGTTGTTCATGTTACAAATGAATTGTTTATTGTTGTTTCATTCCTTGATTCATTTTGTTGTTTGAGATAGCTTACAGCTTATAGCATATACAGAAACAATTCAATTTTATTTTATCATTTGCAGCAAAAATAAGCTCTTATCATGACAATAAGCACTTGTGCTATAAGCTGTCTATCCAAACATGCCTAAGTTTTTGTTTTCCAACTTATTAAAACACTCGAATTTTGACTCTTATATTATATACTAGTACCATTTTATCCCATTTTATGTTCCTACAAATACTTTCATTTATGTCAAGTCTCCAATTTCTCACTTGGAATTGGAACAATTATTTATGAAAATTTTCATCAAAATCATCATATATGAGGTTTTTGAAGGAGACTGAACTTGACATCATGATGTTTTATATGGACTCGAACCATATTTAACACAAAATTCTTCTAAGTTTTTAGGTCTTAAGGTAAATGAGATTGAGACTAACATTTTTAATTTCCAGAGAATCTCTTGGATAGAATGTATGGTTGTTGCATAAGTATCTCAATTTTTTATGTTCTCTGCAAGTGCCGCTTTGCTTGTAAAGATATTGTTTACTCAATTTTAAAATGTTGCTATTTATGTTTCAGGTTAGGAACAAAATTTTGAGGAAGAGGATTCATGTCCGAGTGGAGCATGTTATGCCATCAAGGTGCACTGAGGAGTTCAGATTGAGGAAGATCAAGAATGATCAATTGAAGGCCGAGGCTAAGGCCAAGGGAGAGGTGATAAGCACCAAGCGCAAGCCAGAGGGCCCCAAACCTGGTTTCATGGTGGAAGGTGCTACATTGGAGACTGTTACTCCAATTCCATATGATGTCGTTAATGATCTCAAAGGAGGATACTAG
Protein sequence

>MS.gene79286.t1

MPAGHGLRSRTRDSFSRPFRKKGTIALATYLRTYHIGDYVDIRVNGAVHKGMPHKFYHGRTGRVWNVTKRAIGVEVNKQVRNKILRKRIHVRVEHVMPSRCTEEFRLRKIKNDQLKAEAKAKGEVISTKRKPEGPKPGFMVEGATLETVTPIPYDVVNDLKGGY