AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar XinJiangDaYe / MS.gene73777

Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene73777.t1 MTR_7g082140 98.246 114 2 0 1 114 99 212 1.78e-76 226
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene73777.t1 AT1G67060 84.211 114 17 1 1 114 34 146 1.26e-61 186
MS.gene73777.t1 AT1G67060 84.211 114 17 1 1 114 34 146 1.26e-61 186
MS.gene73777.t1 AT1G67060 84.211 114 17 1 1 114 101 213 2.15e-60 185

Find 16 sgRNAs with CRISPR-Local

Find 47 sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
CCTTGCCCTTGTAATGGTTT+TGG 0.181287 7.3:+25592782 MS.gene73777:CDS
GAATAACATAGCGAAGGATA+TGG 0.377399 7.3:-25592426 None:intergenic
TGGTTGCTTTCTTGCTGCTC+TGG 0.389334 7.3:+25592100 MS.gene73777:CDS
CGCTATGTTATTCTCTTCAT+CGG 0.422285 7.3:+25592436 MS.gene73777:CDS
GTCTGCCCTTGCCCTTGTAA+TGG 0.430059 7.3:+25592776 MS.gene73777:CDS
CTTACTGCAAGGATTGCTGC+TGG 0.492007 7.3:+25592080 MS.gene73777:CDS
CCCCACCCAAAACCATTACA+AGG 0.500731 7.3:-25592788 None:intergenic
TATCCAAAAGTGGACACTGC+GGG 0.526440 7.3:+25592250 MS.gene73777:intron
CTACAAATATTCTTACTGCA+AGG 0.548085 7.3:+25592069 MS.gene73777:CDS
ACACTGCGGGGACTCTGTAT+CGG 0.572546 7.3:+25592263 MS.gene73777:CDS
CCAAAACCATTACAAGGGCA+AGG 0.586840 7.3:-25592782 None:intergenic
TGAAGAGAATAACATAGCGA+AGG 0.615134 7.3:-25592432 None:intergenic
CAAAACCATTACAAGGGCAA+GGG 0.650178 7.3:-25592781 None:intergenic
ATCCAAAAGTGGACACTGCG+GGG 0.667397 7.3:+25592251 MS.gene73777:intron
CCCACCCAAAACCATTACAA+GGG 0.672104 7.3:-25592787 None:intergenic
TTATCCAAAAGTGGACACTG+CGG 0.740464 7.3:+25592249 MS.gene73777:intron

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
!! AAAATGAAACGTATAAAAAG+TGG - chr7.3:25592631-25592650 None:intergenic 20.0%
!!! CTAATTATGATTTGATTTTC+AGG + chr7.3:25592564-25592583 MS.gene73777:intron 20.0%
!!! TACAATCTTCTGAAATAAAA+AGG + chr7.3:25592296-25592315 MS.gene73777:intron 20.0%
!!! TATACGTTTCATTTTCAATT+TGG + chr7.3:25592636-25592655 MS.gene73777:intron 20.0%
! ATTCAACCATATGATATAAG+TGG - chr7.3:25592680-25592699 None:intergenic 25.0%
! GACAAGTTCAAAATATTTGA+AGG - chr7.3:25592488-25592507 None:intergenic 25.0%
! TTCTTGATCAATGAATATCA+GGG + chr7.3:25592353-25592372 MS.gene73777:intron 25.0%
!! TCATATGGTTGAATTTTGTA+TGG + chr7.3:25592686-25592705 MS.gene73777:intron 25.0%
!!! AACAGTTTGTTTTCAGTTTA+TGG + chr7.3:25592594-25592613 MS.gene73777:CDS 25.0%
!!! TGTCATTTCTTTGAAATGTA+TGG + chr7.3:25592523-25592542 MS.gene73777:intron 25.0%
!!! TTGTTTTTATTGCTGTCATT+TGG + chr7.3:25592380-25592399 MS.gene73777:CDS 25.0%
AAAGGAAAGACGATATCATT+AGG + chr7.3:25592314-25592333 MS.gene73777:intron 30.0%
AAGGAAAGACGATATCATTA+GGG + chr7.3:25592315-25592334 MS.gene73777:intron 30.0%
CTACAAATATTCTTACTGCA+AGG + chr7.3:25592069-25592088 MS.gene73777:CDS 30.0%
CTTCTTGATCAATGAATATC+AGG + chr7.3:25592352-25592371 MS.gene73777:intron 30.0%
TTGACACCACTTATATCATA+TGG + chr7.3:25592671-25592690 MS.gene73777:intron 30.0%
!! AAATATTTTGAACTTGTCCC+TGG + chr7.3:25592490-25592509 MS.gene73777:intron 30.0%
AAATGACACAAATACCAACC+AGG - chr7.3:25592511-25592530 None:intergenic 35.0%
AACATACCCTTATCCAAAAG+TGG + chr7.3:25592240-25592259 MS.gene73777:intron 35.0%
AATGACACAAATACCAACCA+GGG - chr7.3:25592510-25592529 None:intergenic 35.0%
CGCTATGTTATTCTCTTCAT+CGG + chr7.3:25592436-25592455 MS.gene73777:CDS 35.0%
GAATAACATAGCGAAGGATA+TGG - chr7.3:25592429-25592448 None:intergenic 35.0%
TATGTTAGCGAGACAGAAAA+CGG - chr7.3:25592226-25592245 None:intergenic 35.0%
TGAAGAGAATAACATAGCGA+AGG - chr7.3:25592435-25592454 None:intergenic 35.0%
TTTGAAGGAAACATGTGAAG+AGG - chr7.3:25592473-25592492 None:intergenic 35.0%
ATGTTAGCGAGACAGAAAAC+GGG - chr7.3:25592225-25592244 None:intergenic 40.0%
CAAAACCATTACAAGGGCAA+GGG - chr7.3:25592784-25592803 None:intergenic 40.0%
TTATCCAAAAGTGGACACTG+CGG + chr7.3:25592249-25592268 MS.gene73777:intron 40.0%
! ATTTTGAACTTGTCCCTGGT+TGG + chr7.3:25592494-25592513 MS.gene73777:intron 40.0%
! CTTGCCCTTGTAATGGTTTT+GGG + chr7.3:25592783-25592802 MS.gene73777:CDS 40.0%
!! CAGTGTCCACTTTTGGATAA+GGG - chr7.3:25592249-25592268 None:intergenic 40.0%
AGGAAACATGTGAAGAGGAC+AGG - chr7.3:25592468-25592487 None:intergenic 45.0%
CCAAAACCATTACAAGGGCA+AGG - chr7.3:25592785-25592804 None:intergenic 45.0%
CCCACCCAAAACCATTACAA+GGG - chr7.3:25592790-25592809 None:intergenic 45.0%
TATCCAAAAGTGGACACTGC+GGG + chr7.3:25592250-25592269 MS.gene73777:intron 45.0%
! CCTTGCCCTTGTAATGGTTT+TGG + chr7.3:25592782-25592801 MS.gene73777:CDS 45.0%
!! GCAGTGTCCACTTTTGGATA+AGG - chr7.3:25592250-25592269 None:intergenic 45.0%
!!! CCCTTGTAATGGTTTTGGGT+GGG + chr7.3:25592787-25592806 MS.gene73777:CDS 45.0%
!!! CCTTGTAATGGTTTTGGGTG+GGG + chr7.3:25592788-25592807 MS.gene73777:CDS 45.0%
ATCCAAAAGTGGACACTGCG+GGG + chr7.3:25592251-25592270 MS.gene73777:intron 50.0%
CCCCACCCAAAACCATTACA+AGG - chr7.3:25592791-25592810 None:intergenic 50.0%
CTTACTGCAAGGATTGCTGC+TGG + chr7.3:25592080-25592099 MS.gene73777:CDS 50.0%
! TGGTTGCTTTCTTGCTGCTC+TGG + chr7.3:25592100-25592119 MS.gene73777:CDS 50.0%
!!! GCCCTTGTAATGGTTTTGGG+TGG + chr7.3:25592786-25592805 MS.gene73777:CDS 50.0%
ACACTGCGGGGACTCTGTAT+CGG + chr7.3:25592263-25592282 MS.gene73777:CDS 55.0%
GTCTGCCCTTGCCCTTGTAA+TGG + chr7.3:25592776-25592795 MS.gene73777:CDS 55.0%
! GTCCCCGCAGTGTCCACTTT+TGG - chr7.3:25592256-25592275 None:intergenic 60.0%


Chromosome Type Strat End Strand Name
chr7.3 gene 25592050 25592819 25592050 ID=MS.gene73777
chr7.3 mRNA 25592050 25592819 25592050 ID=MS.gene73777.t1;Parent=MS.gene73777
chr7.3 exon 25592050 25592148 25592050 ID=MS.gene73777.t1.exon1;Parent=MS.gene73777.t1
chr7.3 CDS 25592050 25592148 25592050 ID=cds.MS.gene73777.t1;Parent=MS.gene73777.t1
chr7.3 exon 25592260 25592284 25592260 ID=MS.gene73777.t1.exon2;Parent=MS.gene73777.t1
chr7.3 CDS 25592260 25592284 25592260 ID=cds.MS.gene73777.t1;Parent=MS.gene73777.t1
chr7.3 exon 25592374 25592457 25592374 ID=MS.gene73777.t1.exon3;Parent=MS.gene73777.t1
chr7.3 CDS 25592374 25592457 25592374 ID=cds.MS.gene73777.t1;Parent=MS.gene73777.t1
chr7.3 exon 25592586 25592615 25592586 ID=MS.gene73777.t1.exon4;Parent=MS.gene73777.t1
chr7.3 CDS 25592586 25592615 25592586 ID=cds.MS.gene73777.t1;Parent=MS.gene73777.t1
chr7.3 exon 25592714 25592819 25592714 ID=MS.gene73777.t1.exon5;Parent=MS.gene73777.t1
chr7.3 CDS 25592714 25592819 25592714 ID=cds.MS.gene73777.t1;Parent=MS.gene73777.t1
Gene Sequence

>MS.gene73777

ATGGCTTTGATTCTTGCTTCTACAAATATTCTTACTGCAAGGATTGCTGCTGGTTGCTTTCTTGCTGCTCTGGTTATTGTGCTCTTTGTTGCTAAAAATGTAAGATATTATACATGCAGAAGTGAAATTGTTTGTATCAAATCTTTTGAAGATATTTGTTCTTGACTTTTCTCCCGTTTTCTGTCTCGCTAACATACCCTTATCCAAAAGTGGACACTGCGGGGACTCTGTATCGGTGAGCAATTTTACAATCTTCTGAAATAAAAAGGAAAGACGATATCATTAGGGTTTCTCACGTTATGCTTCTTGATCAATGAATATCAGGGTTTATTGTTTTTATTGCTGTCATTTGGCTTCTGCAAGAGAAGACTAAAGTCCATATCCTTCGCTATGTTATTCTCTTCATCGGTATGTTCCTGTCCTCTTCACATGTTTCCTTCAAATATTTTGAACTTGTCCCTGGTTGGTATTTGTGTCATTTCTTTGAAATGTATGGATAACTAATAAGTAATAACTAATTATGATTTGATTTTCAGGAGTTATGAACAGTTTGTTTTCAGTTTATGGTATGCTTTCAACCACTTTTTATACGTTTCATTTTCAATTTGGATAATAACTCTATTGACACCACTTATATCATATGGTTGAATTTTGTATGGTGTAGATATTTATGATGATTTAATATCTAGAAGAGTCAACTCTAGTGATGCTGAGAAGTTTGCAGAAGTCTGCCCTTGCCCTTGTAATGGTTTTGGGTGGGGAGTTATTTG
Protein sequence

>MS.gene73777.t1

MALILASTNILTARIAAGCFLAALVIVLFVAKNWTLRGLCIGFIVFIAVIWLLQEKTKVHILRYVILFIGVMNSLFSVYDIYDDLISRRVNSSDAEKFAEVCPCPCNGFGWGVI