AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar XinJiangDaYe / MS.gene09056


Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene09056.t1 MTR_8g086330 100.000 81 0 0 1 81 1 81 2.06e-53 160
MS.gene09056.t1 MTR_4g028080 92.405 79 6 0 1 79 1 79 6.38e-40 126
MS.gene09056.t1 MTR_1g082400 60.000 80 24 1 5 76 21 100 8.81e-25 89.4
MS.gene09056.t1 MTR_2g093770 60.976 82 26 1 4 79 21 102 4.51e-24 87.4
MS.gene09056.t1 MTR_5g066500 66.071 56 16 1 9 64 56 108 8.34e-16 66.6
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene09056.t1 AT3G60540 80.769 78 14 1 4 80 3 80 3.30e-34 112
MS.gene09056.t1 AT3G60540 80.769 78 14 1 4 80 3 80 3.30e-34 112
MS.gene09056.t1 AT3G60540 80.769 78 14 1 4 80 3 80 3.30e-34 112
MS.gene09056.t1 AT2G45070 82.500 80 10 1 4 79 3 82 3.40e-32 107
MS.gene09056.t1 AT2G45070 82.500 80 10 1 4 79 3 82 3.40e-32 107
MS.gene09056.t1 AT2G45070 82.500 80 10 1 4 79 3 82 3.40e-32 107
MS.gene09056.t1 AT2G45070 82.500 80 10 1 4 79 3 82 3.40e-32 107
MS.gene09056.t1 AT5G60460 58.621 87 28 1 2 80 19 105 3.23e-23 85.5
MS.gene09056.t1 AT5G60460 58.621 87 28 1 2 80 19 105 3.23e-23 85.5

Find 31 sgRNAs with CRISPR-Local

Find 30 sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
CGCTGCTGCACTTCCTCTTT+GGG 0.153735 4.4:-13834564 None:intergenic
TCGCTGCTGCACTTCCTCTT+TGG 0.195557 4.4:-13834565 None:intergenic
ACACCCGGTGGTGGGGCATC+TGG 0.275877 4.4:+13834611 MS.gene09056:CDS
GGGGCATCTGGAGGAGCTGC+AGG 0.292492 4.4:+13834623 MS.gene09056:CDS
CTCATCACAAGAACCACATT+TGG 0.388681 4.4:-13834695 None:intergenic
TCATCACAAGAACCACATTT+GGG 0.392066 4.4:-13834694 None:intergenic
GTGTTTCAGAAAATGGCTTC+AGG 0.402843 4.4:+13834530 None:intergenic
GTTGCCATCCTTCATGTGAT+TGG 0.409593 4.4:+13834737 MS.gene09056:CDS
TCCTCCAGATGCCCCACCAC+CGG 0.423552 4.4:-13834615 None:intergenic
GGGCATCTGGAGGAGCTGCA+GGG 0.495153 4.4:+13834624 MS.gene09056:CDS
CGACTGCAAGCATGAGAAGA+AGG 0.502053 4.4:+13834585 MS.gene09056:CDS
TTTGGGGAGATCTTCAGTCC+AGG 0.507378 4.4:-13834677 None:intergenic
AGAAGGAAGACACCCGGTGG+TGG 0.513757 4.4:+13834602 MS.gene09056:CDS
CCCGGTGGTGGGGCATCTGG+AGG 0.518412 4.4:+13834614 MS.gene09056:CDS
CCTCCAGATGCCCCACCACC+GGG 0.523682 4.4:-13834614 None:intergenic
GCTGCTGCACTTCCTCTTTG+GGG 0.527227 4.4:-13834563 None:intergenic
GTGGTTCTTGTGATGAGCAT+TGG 0.535637 4.4:+13834701 MS.gene09056:CDS
GAAGGAAGACACCCGGTGGT+GGG 0.541352 4.4:+13834603 MS.gene09056:CDS
TGGCAAGTTGTACTTGCGTA+AGG 0.559707 4.4:+13834757 MS.gene09056:CDS
TTGGGGAGATCTTCAGTCCA+GGG 0.561617 4.4:-13834676 None:intergenic
GGTGGAGCAGCTCCCCAAAG+AGG 0.584751 4.4:+13834551 MS.gene09056:CDS
CAAGTTGTACTTGCGTAAGG+AGG 0.591387 4.4:+13834760 MS.gene09056:CDS
AAGGAAGACACCCGGTGGTG+GGG 0.594885 4.4:+13834604 MS.gene09056:CDS
TTTCAGAAAATGGCTTCAGG+TGG 0.611619 4.4:+13834533 None:intergenic
ACAACTTGCCAATCACATGA+AGG 0.616873 4.4:-13834745 None:intergenic
CTTGCCAATCACATGAAGGA+TGG 0.620482 4.4:-13834741 None:intergenic
ACTGAAGATCTCCCCAAATG+TGG 0.630953 4.4:+13834682 MS.gene09056:CDS
TGGGGAGATCTTCAGTCCAG+GGG 0.635342 4.4:-13834675 None:intergenic
ATGAGAAGAAGGAAGACACC+CGG 0.674561 4.4:+13834596 MS.gene09056:CDS
CATCACAAGAACCACATTTG+GGG 0.690194 4.4:-13834693 None:intergenic
AGAAGAAGGAAGACACCCGG+TGG 0.765392 4.4:+13834599 MS.gene09056:CDS

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
TCATCACAAGAACCACATTT+GGG - chr4.4:13834697-13834716 None:intergenic 35.0%
ACAACTTGCCAATCACATGA+AGG - chr4.4:13834748-13834767 None:intergenic 40.0%
CATCACAAGAACCACATTTG+GGG - chr4.4:13834696-13834715 None:intergenic 40.0%
CTCATCACAAGAACCACATT+TGG - chr4.4:13834698-13834717 None:intergenic 40.0%
ACTGAAGATCTCCCCAAATG+TGG + chr4.4:13834682-13834701 MS.gene09056:CDS 45.0%
ATGAGAAGAAGGAAGACACC+CGG + chr4.4:13834596-13834615 MS.gene09056:CDS 45.0%
CAAGTTGTACTTGCGTAAGG+AGG + chr4.4:13834760-13834779 MS.gene09056:CDS 45.0%
CTTGCCAATCACATGAAGGA+TGG - chr4.4:13834744-13834763 None:intergenic 45.0%
GTGGTTCTTGTGATGAGCAT+TGG + chr4.4:13834701-13834720 MS.gene09056:CDS 45.0%
GTTGCCATCCTTCATGTGAT+TGG + chr4.4:13834737-13834756 MS.gene09056:CDS 45.0%
TGGCAAGTTGTACTTGCGTA+AGG + chr4.4:13834757-13834776 MS.gene09056:CDS 45.0%
!! TTTTACACTGATGATGCCCC+TGG + chr4.4:13834659-13834678 MS.gene09056:CDS 45.0%
CGACTGCAAGCATGAGAAGA+AGG + chr4.4:13834585-13834604 MS.gene09056:CDS 50.0%
TTGGGGAGATCTTCAGTCCA+GGG - chr4.4:13834679-13834698 None:intergenic 50.0%
TTTGGGGAGATCTTCAGTCC+AGG - chr4.4:13834680-13834699 None:intergenic 50.0%
AGAAGAAGGAAGACACCCGG+TGG + chr4.4:13834599-13834618 MS.gene09056:CDS 55.0%
CGCTGCTGCACTTCCTCTTT+GGG - chr4.4:13834567-13834586 None:intergenic 55.0%
GCTGCTGCACTTCCTCTTTG+GGG - chr4.4:13834566-13834585 None:intergenic 55.0%
TCGCTGCTGCACTTCCTCTT+TGG - chr4.4:13834568-13834587 None:intergenic 55.0%
TGGGGAGATCTTCAGTCCAG+GGG - chr4.4:13834678-13834697 None:intergenic 55.0%
AAGGAAGACACCCGGTGGTG+GGG + chr4.4:13834604-13834623 MS.gene09056:CDS 60.0%
AGAAGGAAGACACCCGGTGG+TGG + chr4.4:13834602-13834621 MS.gene09056:CDS 60.0%
GAAGGAAGACACCCGGTGGT+GGG + chr4.4:13834603-13834622 MS.gene09056:CDS 60.0%
GGGCATCTGGAGGAGCTGCA+GGG + chr4.4:13834624-13834643 MS.gene09056:CDS 65.0%
GGTGGAGCAGCTCCCCAAAG+AGG + chr4.4:13834551-13834570 MS.gene09056:CDS 65.0%
TCCTCCAGATGCCCCACCAC+CGG - chr4.4:13834618-13834637 None:intergenic 65.0%
CCTCCAGATGCCCCACCACC+GGG - chr4.4:13834617-13834636 None:intergenic 70.0%
! GGGGCATCTGGAGGAGCTGC+AGG + chr4.4:13834623-13834642 MS.gene09056:CDS 70.0%
!! ACACCCGGTGGTGGGGCATC+TGG + chr4.4:13834611-13834630 MS.gene09056:CDS 70.0%
!! CCCGGTGGTGGGGCATCTGG+AGG + chr4.4:13834614-13834633 MS.gene09056:CDS 75.0%


Chromosome Type Strat End Strand Name
chr4.4 gene 13834542 13834787 13834542 ID=MS.gene09056
chr4.4 mRNA 13834542 13834787 13834542 ID=MS.gene09056.t1;Parent=MS.gene09056
chr4.4 exon 13834542 13834787 13834542 ID=MS.gene09056.t1.exon1;Parent=MS.gene09056.t1
chr4.4 CDS 13834542 13834787 13834542 ID=cds.MS.gene09056.t1;Parent=MS.gene09056.t1
Gene Sequence

>MS.gene09056

ATGGCTTCAGGTGGAGCAGCTCCCCAAAGAGGAAGTGCAGCAGCGACTGCAAGCATGAGAAGAAGGAAGACACCCGGTGGTGGGGCATCTGGAGGAGCTGCAGGGACTATGCTTCAGTTTTACACTGATGATGCCCCTGGACTGAAGATCTCCCCAAATGTGGTTCTTGTGATGAGCATTGGCTTTATAGCATTTGTTGCCATCCTTCATGTGATTGGCAAGTTGTACTTGCGTAAGGAGGCTTAG

Protein sequence

>MS.gene09056.t1

MASGGAAPQRGSAAATASMRRRKTPGGGASGGAAGTMLQFYTDDAPGLKISPNVVLVMSIGFIAFVAILHVIGKLYLRKEA