AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar XinJiangDaYe / MS.gene066134

Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene066134.t1 MTR_5g063450 81.633 98 14 2 1 94 220 317 3.06e-48 158
MS.gene066134.t1 MTR_1g115250 42.400 125 70 2 9 131 239 363 2.30e-23 94.0
MS.gene066134.t1 MTR_2g082800 46.281 121 62 3 9 128 241 359 1.04e-21 89.4
MS.gene066134.t1 MTR_2g082850 44.715 123 61 3 8 124 243 364 4.05e-21 87.4
MS.gene066134.t1 MTR_2g082880 41.406 128 68 4 10 131 223 349 1.03e-19 83.6
MS.gene066134.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 3.1:-26748985 MS.gene066134:CDS
ATTCCTGACTTTCAAATATT+GGG 0.284897 3.1:-26748984 MS.gene066134:CDS
TCTGCAAATATTATGCTATA+TGG 0.307009 3.1:-26749379 MS.gene066134:CDS
CTTTCAAATATTGGGTCATC+TGG 0.346579 3.1:-26748976 MS.gene066134:CDS
TAAAGCTTTGTTTGCGTAGT+AGG 0.346849 3.1:-26749288 MS.gene066134:CDS
GAAGTTTGTTCAATGGACTA+TGG 0.361755 3.1:-26749517 None:intergenic
GCTTTCAAGATCACCATGTT+TGG 0.375297 3.1:-26748916 MS.gene066134:CDS
TGACCCAATATTTGAAAGTC+AGG 0.400469 3.1:+26748981 None:intergenic
ATCACCATGTTTGGAGACTC+TGG 0.444590 3.1:-26748907 MS.gene066134:CDS
AATCTCTGATTGAAAAGAAC+CGG 0.454523 3.1:+26749429 None:intergenic
CTGGATCTCGACTTTGCAAC+CGG 0.511629 3.1:-26748957 MS.gene066134:CDS
TGCTATATGGTTCAAGTAGG+AGG 0.546606 3.1:-26749366 MS.gene066134:CDS
GCTTTGTTTGCGTAGTAGGA+AGG 0.561791 3.1:-26749284 MS.gene066134:intron
ATCAGAGATTATTCTGCTAG+AGG 0.568172 3.1:-26749416 MS.gene066134:CDS
TGGACTATGGTACATGCGTA+AGG 0.597804 3.1:-26749504 MS.gene066134:CDS
AAAACCAGAGTCTCCAAACA+TGG 0.617401 3.1:+26748903 None:intergenic
TTATGCTATATGGTTCAAGT+AGG 0.633988 3.1:-26749369 MS.gene066134:CDS

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
!!! ATCTTTGTTTTATTCTACAT+GGG - chr3.1:26749217-26749236 MS.gene066134:intron 20.0%
!!! TATCTTTGTTTTATTCTACA+TGG - chr3.1:26749216-26749235 MS.gene066134:intron 20.0%
!!! TCACATAAGCATTTTTTTTA+CGG - chr3.1:26749270-26749289 MS.gene066134:intron 20.0%
! ATTCCTGACTTTCAAATATT+GGG - chr3.1:26749408-26749427 MS.gene066134:CDS 25.0%
! TCTGCAAATATTATGCTATA+TGG - chr3.1:26749013-26749032 MS.gene066134:CDS 25.0%
!! ATTTTTGTTCTTTCTCATCA+AGG - chr3.1:26749353-26749372 MS.gene066134:CDS 25.0%
AAGAACAAAAATTGTGTGTC+AGG + chr3.1:26749345-26749364 None:intergenic 30.0%
AATCTCTGATTGAAAAGAAC+CGG + chr3.1:26748966-26748985 None:intergenic 30.0%
CATTCCTGACTTTCAAATAT+TGG - chr3.1:26749407-26749426 MS.gene066134:CDS 30.0%
TTATGCTATATGGTTCAAGT+AGG - chr3.1:26749023-26749042 MS.gene066134:intron 30.0%
!!! CTTGCAAAGTTTTGTTATAC+CGG - chr3.1:26748944-26748963 MS.gene066134:CDS 30.0%
ATCAGAGATTATTCTGCTAG+AGG - chr3.1:26748976-26748995 MS.gene066134:CDS 35.0%
CTTTCAAATATTGGGTCATC+TGG - chr3.1:26749416-26749435 MS.gene066134:CDS 35.0%
TGACCCAATATTTGAAAGTC+AGG + chr3.1:26749414-26749433 None:intergenic 35.0%
! CTTAAGCAGTTTTTGTCTTG+TGG - chr3.1:26749187-26749206 MS.gene066134:intron 35.0%
!! TAAAGCTTTGTTTGCGTAGT+AGG - chr3.1:26749104-26749123 MS.gene066134:intron 35.0%
AAAACCAGAGTCTCCAAACA+TGG + chr3.1:26749492-26749511 None:intergenic 40.0%
GCTTTCAAGATCACCATGTT+TGG - chr3.1:26749476-26749495 MS.gene066134:CDS 40.0%
TGCTATATGGTTCAAGTAGG+AGG - chr3.1:26749026-26749045 MS.gene066134:intron 40.0%
!!! TTTGGAGACTCTGGTTTTGA+AGG - chr3.1:26749494-26749513 MS.gene066134:CDS 40.0%
ATCACCATGTTTGGAGACTC+TGG - chr3.1:26749485-26749504 MS.gene066134:CDS 45.0%
CATGCCAGACAAAAATTCGC+CGG + chr3.1:26749457-26749476 None:intergenic 45.0%
TGGACTATGGTACATGCGTA+AGG - chr3.1:26748888-26748907 MS.gene066134:CDS 45.0%
!! GCTTTGTTTGCGTAGTAGGA+AGG - chr3.1:26749108-26749127 MS.gene066134:intron 45.0%
CTGGATCTCGACTTTGCAAC+CGG - chr3.1:26749435-26749454 MS.gene066134:CDS 50.0%
! GCAACCGGCGAATTTTTGTC+TGG - chr3.1:26749450-26749469 MS.gene066134:CDS 50.0%


Chromosome Type Strat End Strand Name
chr3.1 gene 26748887 26749527 26748887 ID=MS.gene066134
chr3.1 mRNA 26748887 26749527 26748887 ID=MS.gene066134.t1;Parent=MS.gene066134
chr3.1 exon 26749285 26749527 26749285 ID=MS.gene066134.t1.exon1;Parent=MS.gene066134.t1
chr3.1 CDS 26749285 26749527 26749285 ID=cds.MS.gene066134.t1;Parent=MS.gene066134.t1
chr3.1 exon 26748887 26749039 26748887 ID=MS.gene066134.t1.exon2;Parent=MS.gene066134.t1
chr3.1 CDS 26748887 26749039 26748887 ID=cds.MS.gene066134.t1;Parent=MS.gene066134.t1
Gene Sequence

>MS.gene066134

ATGGACTATGGTACATGCGTAAGGTCAAATGCTAAACTTAAGATTTGTGCTTCACGTCTTGCAAAGTTTTGTTATACCGGTTCTTTTCAATCAGAGATTATTCTGCTAGAGGCAGTACACATTGCTTCTGCAAATATTATGCTATATGGTTCAAGTAGGAGGACAGAAGAAACAATGCATTTTGTTAGTAAGCTTTTGAGTATTAATGCAGCAAGTCTAAAGCTTTGTTTGCGTAGTAGGAAGGTATGTTTTCTTTCTTCTCTCAATGTGAGCAGACTTTCTTTGTTTGAATGCAAATGTCTTAAGCAGTTTTTGTCTTGTGGAAATTATATCTTTGTTTTATTCTACATGGGAACTATGCAACATCAAACTAGATCACAACTTCACATAAGCATTTTTTTTACGGATAATTCATCATTATATGTTTGTGCTTTAATTATGTCTTCATAAATTATCCTGACACACAATTTTTGTTCTTTCTCATCAAGGTACTTGAAAGAGTGAAACTTTCTTTCAATGACATTCCTGACTTTCAAATATTGGGTCATCTGGATCTCGACTTTGCAACCGGCGAATTTTTGTCTGGCATGCTTTCAAGATCACCATGTTTGGAGACTCTGGTTTTGAAGGTTTGTGATTGA
Protein sequence

>MS.gene066134.t1

MDYGTCVRSNAKLKICASRLAKFCYTGSFQSEIILLEAVHIASANIMLYGSSRRTEETMHFVSKLLSINAASLKLCLRSRKVLERVKLSFNDIPDFQILGHLDLDFATGEFLSGMLSRSPCLETLVLKVCD