AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar XinJiangDaYe / MS.gene63568

Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene63568.t1 MTR_5g063450 81.633 98 14 2 1 94 220 317 3.06e-48 158
MS.gene63568.t1 MTR_1g115250 42.400 125 70 2 9 131 239 363 2.30e-23 94.0
MS.gene63568.t1 MTR_2g082800 46.281 121 62 3 9 128 241 359 1.04e-21 89.4
MS.gene63568.t1 MTR_2g082850 44.715 123 61 3 8 124 243 364 4.05e-21 87.4
MS.gene63568.t1 MTR_2g082880 41.406 128 68 4 10 131 223 349 1.03e-19 83.6
MS.gene63568.t1 MTR_7g094030 43.750 128 63 4 9 128 248 374 2.82e-17 77.0
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score

Find 17 sgRNAs with CRISPR-Local

Find 26 sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
CATTCCTGACTTTCAAATAT+TGG 0.191554 3.2:-25621123 MS.gene63568:CDS
ATTCCTGACTTTCAAATATT+GGG 0.284897 3.2:-25621122 MS.gene63568:CDS
TCTGCAAATATTATGCTATA+TGG 0.307009 3.2:-25621517 MS.gene63568:CDS
CTTTCAAATATTGGGTCATC+TGG 0.346579 3.2:-25621114 MS.gene63568:CDS
TAAAGCTTTGTTTGCGTAGT+AGG 0.346849 3.2:-25621426 MS.gene63568:CDS
GAAGTTTGTTCAATGGACTA+TGG 0.361755 3.2:-25621655 None:intergenic
GCTTTCAAGATCACCATGTT+TGG 0.375297 3.2:-25621054 MS.gene63568:CDS
TGACCCAATATTTGAAAGTC+AGG 0.400469 3.2:+25621119 None:intergenic
ATCACCATGTTTGGAGACTC+TGG 0.444590 3.2:-25621045 MS.gene63568:CDS
AATCTCTGATTGAAAAGAAC+CGG 0.454523 3.2:+25621567 None:intergenic
CTGGATCTCGACTTTGCAAC+CGG 0.511629 3.2:-25621095 MS.gene63568:CDS
TGCTATATGGTTCAAGTAGG+AGG 0.546606 3.2:-25621504 MS.gene63568:CDS
GCTTTGTTTGCGTAGTAGGA+AGG 0.561791 3.2:-25621422 MS.gene63568:intron
ATCAGAGATTATTCTGCTAG+AGG 0.568172 3.2:-25621554 MS.gene63568:CDS
TGGACTATGGTACATGCGTA+AGG 0.597804 3.2:-25621642 MS.gene63568:CDS
AAAACCAGAGTCTCCAAACA+TGG 0.617401 3.2:+25621041 None:intergenic
TTATGCTATATGGTTCAAGT+AGG 0.633988 3.2:-25621507 MS.gene63568:CDS

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
!!! ATCTTTGTTTTATTCTACAT+GGG - chr3.2:25621355-25621374 MS.gene63568:intron 20.0%
!!! TATCTTTGTTTTATTCTACA+TGG - chr3.2:25621354-25621373 MS.gene63568:intron 20.0%
!!! TCACATAAGCATTTTTTTTA+CGG - chr3.2:25621408-25621427 MS.gene63568:intron 20.0%
! ATTCCTGACTTTCAAATATT+GGG - chr3.2:25621546-25621565 MS.gene63568:CDS 25.0%
! TCTGCAAATATTATGCTATA+TGG - chr3.2:25621151-25621170 MS.gene63568:CDS 25.0%
!! ATTTTTGTTCTTTCTCATCA+AGG - chr3.2:25621491-25621510 MS.gene63568:CDS 25.0%
AAGAACAAAAATTGTGTGTC+AGG + chr3.2:25621483-25621502 None:intergenic 30.0%
AATCTCTGATTGAAAAGAAC+CGG + chr3.2:25621104-25621123 None:intergenic 30.0%
CATTCCTGACTTTCAAATAT+TGG - chr3.2:25621545-25621564 MS.gene63568:CDS 30.0%
TTATGCTATATGGTTCAAGT+AGG - chr3.2:25621161-25621180 MS.gene63568:intron 30.0%
!!! CTTGCAAAGTTTTGTTATAC+CGG - chr3.2:25621082-25621101 MS.gene63568:CDS 30.0%
ATCAGAGATTATTCTGCTAG+AGG - chr3.2:25621114-25621133 MS.gene63568:CDS 35.0%
CTTTCAAATATTGGGTCATC+TGG - chr3.2:25621554-25621573 MS.gene63568:CDS 35.0%
TGACCCAATATTTGAAAGTC+AGG + chr3.2:25621552-25621571 None:intergenic 35.0%
! CTTAAGCAGTTTTTGTCTTG+TGG - chr3.2:25621325-25621344 MS.gene63568:intron 35.0%
!! TAAAGCTTTGTTTGCGTAGT+AGG - chr3.2:25621242-25621261 MS.gene63568:intron 35.0%
AAAACCAGAGTCTCCAAACA+TGG + chr3.2:25621630-25621649 None:intergenic 40.0%
GCTTTCAAGATCACCATGTT+TGG - chr3.2:25621614-25621633 MS.gene63568:CDS 40.0%
TGCTATATGGTTCAAGTAGG+AGG - chr3.2:25621164-25621183 MS.gene63568:intron 40.0%
!!! TTTGGAGACTCTGGTTTTGA+AGG - chr3.2:25621632-25621651 MS.gene63568:CDS 40.0%
ATCACCATGTTTGGAGACTC+TGG - chr3.2:25621623-25621642 MS.gene63568:CDS 45.0%
CATGCCAGACAAAAATTCGC+CGG + chr3.2:25621595-25621614 None:intergenic 45.0%
TGGACTATGGTACATGCGTA+AGG - chr3.2:25621026-25621045 MS.gene63568:CDS 45.0%
!! GCTTTGTTTGCGTAGTAGGA+AGG - chr3.2:25621246-25621265 MS.gene63568:intron 45.0%
CTGGATCTCGACTTTGCAAC+CGG - chr3.2:25621573-25621592 MS.gene63568:CDS 50.0%
! GCAACCGGCGAATTTTTGTC+TGG - chr3.2:25621588-25621607 MS.gene63568:CDS 50.0%


Chromosome Type Strat End Strand Name
chr3.2 gene 25621025 25621665 25621025 ID=MS.gene63568
chr3.2 mRNA 25621025 25621665 25621025 ID=MS.gene63568.t1;Parent=MS.gene63568
chr3.2 exon 25621423 25621665 25621423 ID=MS.gene63568.t1.exon1;Parent=MS.gene63568.t1
chr3.2 CDS 25621423 25621665 25621423 ID=cds.MS.gene63568.t1;Parent=MS.gene63568.t1
chr3.2 exon 25621025 25621177 25621025 ID=MS.gene63568.t1.exon2;Parent=MS.gene63568.t1
chr3.2 CDS 25621025 25621177 25621025 ID=cds.MS.gene63568.t1;Parent=MS.gene63568.t1
Gene Sequence

>MS.gene63568

ATGGACTATGGTACATGCGTAAGGTCAAATGCTAAACTTAAGATTTGTGCTTCACGTCTTGCAAAGTTTTGTTATACCGGTTCTTTTCAATCAGAGATTATTCTGCTAGAGGCAGTACACATTGCTTCTGCAAATATTATGCTATATGGTTCAAGTAGGAGGACAGAAGAAACAATGCATTTTGTTAGTAAGCTTTTGAGTATTAATGCAGCAAGTCTAAAGCTTTGTTTGCGTAGTAGGAAGGTATGTTTTCTTTCTTCTCTCAATGTGAGCAGACTTTCTTTGTTTGAATGCAAATGTCTTAAGCAGTTTTTGTCTTGTGGAAATTATATCTTTGTTTTATTCTACATGGGAACTATGCAACATCAAACTAGATCACAACTTCACATAAGCATTTTTTTTACGGATAATTCATCATTATATGTTTGTGCTTTAATTATGTCTTCATAAATTATCCTGACACACAATTTTTGTTCTTTCTCATCAAGGTACTTGAAAGAGTGAAACTTTCTTTCAATGACATTCCTGACTTTCAAATATTGGGTCATCTGGATCTCGACTTTGCAACCGGCGAATTTTTGTCTGGCATGCTTTCAAGATCACCATGTTTGGAGACTCTGGTTTTGAAGGTTTGTGATTGA
Protein sequence

>MS.gene63568.t1

MDYGTCVRSNAKLKICASRLAKFCYTGSFQSEIILLEAVHIASANIMLYGSSRRTEETMHFVSKLLSINAASLKLCLRSRKVLERVKLSFNDIPDFQILGHLDLDFATGEFLSGMLSRSPCLETLVLKVCD