AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar XinJiangDaYe / MS.gene049661


Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene049661.t1 MTR_3g064070 97.414 116 3 0 1 116 54 169 2.07e-79 231
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene049661.t1 AT2G01918 45.378 119 59 3 3 115 60 178 4.52e-27 99.0
MS.gene049661.t1 AT4G21280 31.579 114 72 1 9 116 102 215 2.33e-13 63.9
MS.gene049661.t1 AT4G21280 31.579 114 72 1 9 116 101 214 2.37e-13 63.9
MS.gene049661.t1 AT4G05180 30.357 112 72 1 9 114 108 219 4.70e-13 63.2
MS.gene049661.t1 AT4G05180 30.357 112 72 1 9 114 108 219 4.70e-13 63.2

Find 15 sgRNAs with CRISPR-Local

Find 21 sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
ATTGCAAATGCATTTGATTT+TGG 0.133260 3.2:-71568628 MS.gene049661:CDS
AACTGTGACCTTTCACTTCC+AGG 0.232695 3.2:+71568427 None:intergenic
GCCTCTTCAACTGTTTGATC+AGG 0.315431 3.2:+71568595 None:intergenic
TCATAACGCTGCCACACTTC+AGG 0.379368 3.2:+71568213 None:intergenic
GTCATGGAAAATAGCACAAA+AGG 0.423780 3.2:-71568509 MS.gene049661:CDS
TTAGTGGAGAGTGCATGTTT+AGG 0.480583 3.2:-71568657 None:intergenic
ACCATAATTCAAAACAAGCC+TGG 0.511434 3.2:-71568445 MS.gene049661:CDS
GAAGTGAAAGGTCACAGTTA+AGG 0.517020 3.2:-71568423 MS.gene049661:CDS
CCTCTTCAACTGTTTGATCA+GGG 0.547039 3.2:+71568596 None:intergenic
CCCTGATCAAACAGTTGAAG+AGG 0.549247 3.2:-71568596 MS.gene049661:CDS
AAAACAAGCCTGGAAGTGAA+AGG 0.596015 3.2:-71568435 MS.gene049661:CDS
ATTTGTTAGAGTCAAAGTCA+TGG 0.608950 3.2:-71568525 MS.gene049661:CDS
ATCAAGATGGACCTGAAGTG+TGG 0.634230 3.2:-71568224 MS.gene049661:CDS
GCGTTATGAGAACATTGTTG+TGG 0.635212 3.2:-71568199 MS.gene049661:CDS
TATGCAGCAAGAGATCAAGA+TGG 0.661307 3.2:-71568237 MS.gene049661:CDS

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
!!! TTTATTGTTTTTGTTGTGTA+AGG - chr3.2:71568521-71568540 MS.gene049661:CDS 20.0%
!!! ATTGATGTTTAGTTTTGCAT+TGG - chr3.2:71568559-71568578 MS.gene049661:CDS 25.0%
!!! ATTGCAAATGCATTTGATTT+TGG - chr3.2:71568212-71568231 MS.gene049661:CDS 25.0%
TCAACAATGTTACTAGAGTA+AGG - chr3.2:71568459-71568478 MS.gene049661:CDS 30.0%
! ATTTGTTAGAGTCAAAGTCA+TGG - chr3.2:71568315-71568334 MS.gene049661:intron 30.0%
ACCATAATTCAAAACAAGCC+TGG - chr3.2:71568395-71568414 MS.gene049661:CDS 35.0%
GTCATGGAAAATAGCACAAA+AGG - chr3.2:71568331-71568350 MS.gene049661:intron 35.0%
!! AAGTTCAGCACTTTTGAAGA+AGG - chr3.2:71568364-71568383 MS.gene049661:intron 35.0%
!! TGACAAAGTGTCCTAGTTTT+AGG + chr3.2:71568494-71568513 None:intergenic 35.0%
!!! TCCAGGCTTGTTTTGAATTA+TGG + chr3.2:71568399-71568418 None:intergenic 35.0%
AAAACAAGCCTGGAAGTGAA+AGG - chr3.2:71568405-71568424 MS.gene049661:CDS 40.0%
CCTCTTCAACTGTTTGATCA+GGG + chr3.2:71568247-71568266 None:intergenic 40.0%
GAAGTGAAAGGTCACAGTTA+AGG - chr3.2:71568417-71568436 MS.gene049661:CDS 40.0%
GCGTTATGAGAACATTGTTG+TGG - chr3.2:71568641-71568660 MS.gene049661:CDS 40.0%
GGAGACTTTGTCCTAAAACT+AGG - chr3.2:71568480-71568499 MS.gene049661:CDS 40.0%
TATGCAGCAAGAGATCAAGA+TGG - chr3.2:71568603-71568622 MS.gene049661:CDS 40.0%
AACTGTGACCTTTCACTTCC+AGG + chr3.2:71568416-71568435 None:intergenic 45.0%
ATCAAGATGGACCTGAAGTG+TGG - chr3.2:71568616-71568635 MS.gene049661:CDS 45.0%
CCCTGATCAAACAGTTGAAG+AGG - chr3.2:71568244-71568263 MS.gene049661:CDS 45.0%
GCCTCTTCAACTGTTTGATC+AGG + chr3.2:71568248-71568267 None:intergenic 45.0%
TCATAACGCTGCCACACTTC+AGG + chr3.2:71568630-71568649 None:intergenic 50.0%


Chromosome Type Strat End Strand Name
chr3.2 gene 71568197 71568665 71568197 ID=MS.gene049661
chr3.2 mRNA 71568197 71568665 71568197 ID=MS.gene049661.t1;Parent=MS.gene049661
chr3.2 exon 71568387 71568665 71568387 ID=MS.gene049661.t1.exon1;Parent=MS.gene049661.t1
chr3.2 CDS 71568387 71568665 71568387 ID=cds.MS.gene049661.t1;Parent=MS.gene049661.t1
chr3.2 exon 71568197 71568265 71568197 ID=MS.gene049661.t1.exon2;Parent=MS.gene049661.t1
chr3.2 CDS 71568197 71568265 71568197 ID=cds.MS.gene049661.t1;Parent=MS.gene049661.t1
Gene Sequence

>MS.gene049661

ATGTTTAGGACAAAGATTGCAAATGCATTTGATTTTGGACTTGTTGTCCCTGATCAAACAGTTGAAGAGGCACAAAATGTAGTGAGAGTTCATGCACAAGATTTATTGCAAGTTAGAGATTTGTTAGAGTCAAAGTCATGGAAAATAGCACAAAAGGAATTGAGAAGAAGTTCAGCACTTTTGAAGAAGGATATATACACCATAATTCAAAACAAGCCTGGAAGTGAAAGGTCACAGTTAAGGAAGCTCTATTCTACTCTCTTCAACAATGTTACTAGAGTAAGGAGACTTTGTCCTAAAACTAGGACACTTTGTCATGAAGAGTTTATTGTTTTTGTTGTGTAAGGTTTTATTACTTTTCAATTGATGTTTAGTTTTGCATTGGTGAAAAATAACGCAGCTAGATTATGCAGCAAGAGATCAAGATGGACCTGAAGTGTGGCAGCGTTATGAGAACATTGTTGTGGCT

Protein sequence

>MS.gene049661.t1

MFRTKIANAFDFGLVVPDQTVEEAQNVVRVHAQDLLQVRDLLESKSWKIAQKELRRSSALLKKDIYTIIQNKPGSERSQLRKLYSTLFNNVTRLDYAARDQDGPEVWQRYENIVVA