AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar XinJiangDaYe / MS.gene78578


Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene78578.t1 MTR_7g029510 100.000 103 0 0 1 103 1 103 2.85e-68 199
MS.gene78578.t1 MTR_7g099610 100.000 103 0 0 1 103 1 103 2.85e-68 199
MS.gene78578.t1 MTR_5g063620 100.000 103 0 0 1 103 1 103 2.85e-68 199
MS.gene78578.t1 MTR_4g061827 100.000 103 0 0 1 103 1 103 2.85e-68 199
MS.gene78578.t1 MTR_4g061920 100.000 103 0 0 1 103 1 103 2.85e-68 199
MS.gene78578.t1 MTR_3g462400 100.000 103 0 0 1 103 1 103 2.85e-68 199
MS.gene78578.t1 MTR_3g054380 100.000 103 0 0 1 103 1 103 2.85e-68 199
MS.gene78578.t1 MTR_3g462730 100.000 103 0 0 1 103 1 103 2.85e-68 199
MS.gene78578.t1 MTR_3g462510 100.000 103 0 0 1 103 1 103 2.85e-68 199
MS.gene78578.t1 MTR_3g070920 100.000 103 0 0 1 103 1 103 2.85e-68 199
MS.gene78578.t1 MTR_3g061440 100.000 103 0 0 1 103 1 103 2.85e-68 199
MS.gene78578.t1 MTR_3g462410 100.000 103 0 0 1 103 1 103 2.85e-68 199
MS.gene78578.t1 MTR_2g096100 100.000 103 0 0 1 103 1 103 2.85e-68 199
MS.gene78578.t1 MTR_8g038460 100.000 103 0 0 1 103 1 103 2.85e-68 199
MS.gene78578.t1 MTR_4g128150 100.000 102 0 0 1 102 1 102 1.67e-66 204
MS.gene78578.t1 MTR_7g029520 84.000 50 8 0 27 76 1 50 2.15e-21 87.0
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene78578.t1 AT5G59970 100.000 103 0 0 1 103 1 103 2.99e-68 199
MS.gene78578.t1 AT5G59690 100.000 103 0 0 1 103 1 103 2.99e-68 199
MS.gene78578.t1 AT5G59970 100.000 103 0 0 1 103 1 103 2.99e-68 199
MS.gene78578.t1 AT3G46320 100.000 103 0 0 1 103 1 103 2.99e-68 199
MS.gene78578.t1 AT3G45930 100.000 103 0 0 1 103 1 103 2.99e-68 199
MS.gene78578.t1 AT3G53730 100.000 103 0 0 1 103 1 103 2.99e-68 199
MS.gene78578.t1 AT2G28740 100.000 103 0 0 1 103 1 103 2.99e-68 199
MS.gene78578.t1 AT1G07660 100.000 103 0 0 1 103 1 103 2.99e-68 199
MS.gene78578.t1 AT1G07820 100.000 103 0 0 1 103 1 103 2.99e-68 199
MS.gene78578.t1 AT1G07820 100.000 103 0 0 1 103 1 103 2.99e-68 199
MS.gene78578.t1 AT1G07660 83.495 103 0 1 1 103 1 86 4.34e-51 155

Find 33 sgRNAs with CRISPR-Local

Find 30 sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
AGGCAGGGAAGGACTTTATA+TGG 0.314150 7.4:+3609918 MS.gene78578:CDS
GGAAGGACTTTATATGGTTT+CGG 0.362238 7.4:+3609924 MS.gene78578:CDS
GGAAAAGGAGGAAAGGGATT+AGG 0.403262 7.4:+3609654 MS.gene78578:CDS
AAAATGTCAGGCAGAGGAAA+AGG 0.476544 7.4:+3609639 None:intergenic
GTGCTTCGTGACAACATTCA+AGG 0.477240 7.4:+3609705 MS.gene78578:CDS
GGCAGAGGAAAAGGAGGAAA+GGG 0.498699 7.4:+3609648 MS.gene78578:CDS
TCACTGCAAGCGAAAATGTC+AGG 0.502586 7.4:+3609627 None:intergenic
CTGCGATTCGTCGTCTTGCA+AGG 0.502831 7.4:+3609739 MS.gene78578:CDS
TGTTTATGCTCTGAAGAGGC+AGG 0.507468 7.4:+3609902 MS.gene78578:CDS
AGGAGGAAAGGGATTAGGAA+AGG 0.515958 7.4:+3609659 MS.gene78578:CDS
GGAGGAAAGGGATTAGGAAA+GGG 0.527356 7.4:+3609660 MS.gene78578:CDS
GGAAAGGGATTAGGAAAGGG+AGG 0.538569 7.4:+3609663 MS.gene78578:CDS
AAGACGACGAATCGCAGGCT+TGG 0.548379 7.4:-3609733 None:intergenic
CTTGCAAGACGACGAATCGC+AGG 0.552192 7.4:-3609738 None:intergenic
AGGCAGAGGAAAAGGAGGAA+AGG 0.557567 7.4:+3609647 MS.gene78578:CDS
ATGCTCTGAAGAGGCAGGGA+AGG 0.564763 7.4:+3609907 MS.gene78578:CDS
GAGGAAGACTGTTACCGCCA+TGG 0.588179 7.4:+3609875 MS.gene78578:CDS
CAAGCGAAAATGTCAGGCAG+AGG 0.590069 7.4:+3609633 None:intergenic
CATTCTCGAGGAAGATCTTG+AGG 0.597682 7.4:-3609815 None:intergenic
AGGACTTTATATGGTTTCGG+TGG 0.600172 7.4:+3609927 MS.gene78578:CDS
TTACATACACTGAACACGCT+AGG 0.600176 7.4:+3609853 MS.gene78578:CDS
GTTTATGCTCTGAAGAGGCA+GGG 0.605263 7.4:+3609903 MS.gene78578:CDS
ATTCGTCGTCTTGCAAGGCG+TGG 0.611450 7.4:+3609744 MS.gene78578:CDS
GGCGGTGTTAAGAGAATCAG+TGG 0.619776 7.4:+3609765 MS.gene78578:CDS
CAGAGCATAAACAACATCCA+TGG 0.631933 7.4:-3609892 None:intergenic
CATACACTGAACACGCTAGG+AGG 0.635713 7.4:+3609856 MS.gene78578:CDS
CGTCGTCTTGCAAGGCGTGG+CGG 0.636706 7.4:+3609747 MS.gene78578:CDS
ATGTCAGGCAGAGGAAAAGG+AGG 0.661131 7.4:+3609642 MS.gene78578:CDS
ATGTTGTTTATGCTCTGAAG+AGG 0.672733 7.4:+3609898 MS.gene78578:CDS
TAGGAAAGGGAGGAGCAAAG+AGG 0.691969 7.4:+3609673 MS.gene78578:CDS
CTCATATATGAAGAAACTCG+CGG 0.708309 7.4:+3609789 MS.gene78578:CDS
CATCACGAATCACATTCTCG+AGG 0.731876 7.4:-3609827 None:intergenic
AGCATAAACAACATCCATGG+CGG 0.735882 7.4:-3609889 None:intergenic

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
CTCATATATGAAGAAACTCG+CGG + chr7.4:3609789-3609808 MS.gene78578:CDS 35.0%
GGAAGGACTTTATATGGTTT+CGG + chr7.4:3609924-3609943 MS.gene78578:CDS 35.0%
!! ATGTTGTTTATGCTCTGAAG+AGG + chr7.4:3609898-3609917 MS.gene78578:CDS 35.0%
AGCATAAACAACATCCATGG+CGG - chr7.4:3609892-3609911 None:intergenic 40.0%
AGGACTTTATATGGTTTCGG+TGG + chr7.4:3609927-3609946 MS.gene78578:CDS 40.0%
CAGAGCATAAACAACATCCA+TGG - chr7.4:3609895-3609914 None:intergenic 40.0%
TTACATACACTGAACACGCT+AGG + chr7.4:3609853-3609872 MS.gene78578:CDS 40.0%
AGGAGGAAAGGGATTAGGAA+AGG + chr7.4:3609659-3609678 MS.gene78578:CDS 45.0%
AGGCAGGGAAGGACTTTATA+TGG + chr7.4:3609918-3609937 MS.gene78578:CDS 45.0%
CATCACGAATCACATTCTCG+AGG - chr7.4:3609830-3609849 None:intergenic 45.0%
CATTCTCGAGGAAGATCTTG+AGG - chr7.4:3609818-3609837 None:intergenic 45.0%
GGAAAAGGAGGAAAGGGATT+AGG + chr7.4:3609654-3609673 MS.gene78578:CDS 45.0%
GGAGGAAAGGGATTAGGAAA+GGG + chr7.4:3609660-3609679 MS.gene78578:CDS 45.0%
GTGCTTCGTGACAACATTCA+AGG + chr7.4:3609705-3609724 MS.gene78578:CDS 45.0%
!! GTTTATGCTCTGAAGAGGCA+GGG + chr7.4:3609903-3609922 MS.gene78578:CDS 45.0%
!! TGTTTATGCTCTGAAGAGGC+AGG + chr7.4:3609902-3609921 MS.gene78578:CDS 45.0%
AGGCAGAGGAAAAGGAGGAA+AGG + chr7.4:3609647-3609666 MS.gene78578:CDS 50.0%
ATGTCAGGCAGAGGAAAAGG+AGG + chr7.4:3609642-3609661 MS.gene78578:CDS 50.0%
CATACACTGAACACGCTAGG+AGG + chr7.4:3609856-3609875 MS.gene78578:CDS 50.0%
GGAAAGGGATTAGGAAAGGG+AGG + chr7.4:3609663-3609682 MS.gene78578:CDS 50.0%
GGCAGAGGAAAAGGAGGAAA+GGG + chr7.4:3609648-3609667 MS.gene78578:CDS 50.0%
TAGGAAAGGGAGGAGCAAAG+AGG + chr7.4:3609673-3609692 MS.gene78578:CDS 50.0%
! GGCGGTGTTAAGAGAATCAG+TGG + chr7.4:3609765-3609784 MS.gene78578:CDS 50.0%
AAGACGACGAATCGCAGGCT+TGG - chr7.4:3609736-3609755 None:intergenic 55.0%
ATTCGTCGTCTTGCAAGGCG+TGG + chr7.4:3609744-3609763 MS.gene78578:CDS 55.0%
CTGCGATTCGTCGTCTTGCA+AGG + chr7.4:3609739-3609758 MS.gene78578:CDS 55.0%
CTTGCAAGACGACGAATCGC+AGG - chr7.4:3609741-3609760 None:intergenic 55.0%
GAGGAAGACTGTTACCGCCA+TGG + chr7.4:3609875-3609894 MS.gene78578:CDS 55.0%
!! ATGCTCTGAAGAGGCAGGGA+AGG + chr7.4:3609907-3609926 MS.gene78578:CDS 55.0%
CGTCGTCTTGCAAGGCGTGG+CGG + chr7.4:3609747-3609766 MS.gene78578:CDS 65.0%


Chromosome Type Strat End Strand Name
chr7.4 gene 3609642 3609953 3609642 ID=MS.gene78578
chr7.4 mRNA 3609642 3609953 3609642 ID=MS.gene78578.t1;Parent=MS.gene78578
chr7.4 exon 3609642 3609953 3609642 ID=MS.gene78578.t1.exon1;Parent=MS.gene78578.t1
chr7.4 CDS 3609642 3609953 3609642 ID=cds.MS.gene78578.t1;Parent=MS.gene78578.t1
Gene Sequence

>MS.gene78578

ATGTCAGGCAGAGGAAAAGGAGGAAAGGGATTAGGAAAGGGAGGAGCAAAGAGGCACAGAAAAGTGCTTCGTGACAACATTCAAGGAATAACCAAGCCTGCGATTCGTCGTCTTGCAAGGCGTGGCGGTGTTAAGAGAATCAGTGGTCTCATATATGAAGAAACTCGCGGTGTCCTCAAGATCTTCCTCGAGAATGTGATTCGTGATGCTGTTACATACACTGAACACGCTAGGAGGAAGACTGTTACCGCCATGGATGTTGTTTATGCTCTGAAGAGGCAGGGAAGGACTTTATATGGTTTCGGTGGTTGA

Protein sequence

>MS.gene78578.t1

MSGRGKGGKGLGKGGAKRHRKVLRDNIQGITKPAIRRLARRGGVKRISGLIYEETRGVLKIFLENVIRDAVTYTEHARRKTVTAMDVVYALKRQGRTLYGFGG