AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar XinJiangDaYe / MS.gene072415


Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene072415.t1 MTR_1g096340 95.263 190 9 0 2 191 23 212 2.03e-134 375
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene072415.t1 AT4G09620 67.073 164 50 2 29 191 50 210 4.51e-77 229
MS.gene072415.t1 AT4G09620 67.073 164 50 2 29 191 52 212 5.14e-77 229
MS.gene072415.t1 AT4G09620 67.073 164 50 2 29 191 52 212 5.14e-77 229

Find 36 sgRNAs with CRISPR-Local

Find 45 sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
GCCTTGTTCATTCTCCTTAC+TGG 0.079985 1.1:+69415182 MS.gene072415:CDS
TCCATTTACTGCCTCAAATT+TGG 0.102598 1.1:-69415230 None:intergenic
CCTTCGAAATCCAAAAGTTT+TGG 0.174584 1.1:+69415420 MS.gene072415:CDS
CCCAAATTTGAGGCAGTAAA+TGG 0.185063 1.1:+69415229 MS.gene072415:CDS
AAATTACATCCAAGAACTTC+TGG 0.252185 1.1:-69415319 None:intergenic
ATATTAAAACCCAAAACTTT+TGG 0.261186 1.1:-69415430 None:intergenic
CCATTTACTGCCTCAAATTT+GGG 0.285378 1.1:-69415229 None:intergenic
CCTTGTTCATTCTCCTTACT+GGG 0.302250 1.1:+69415183 MS.gene072415:CDS
GATATTTGGCGATGGAATAA+TGG 0.339231 1.1:-69414960 None:intergenic
CAATACTCCACTGCTCCTTC+AGG 0.365711 1.1:-69415372 None:intergenic
AAGATACTTGGAAAAGCATT+TGG 0.395197 1.1:+69415160 MS.gene072415:CDS
ATGGAACATTAGATTATCTA+AGG 0.403508 1.1:+69415248 MS.gene072415:CDS
ATCATGCAGGCTGATCTTGC+TGG 0.422712 1.1:+69414929 None:intergenic
TGATTGTAAGGGAGATTGTA+AGG 0.441638 1.1:+69415453 MS.gene072415:CDS
GTATTGAAGGAAAATCTCTT+AGG 0.453881 1.1:+69415389 MS.gene072415:CDS
AGGCACAATGCACTAGATGC+TGG 0.458361 1.1:+69415473 MS.gene072415:CDS
TAACTTCGACGATGAAGAAA+AGG 0.469350 1.1:+69415135 MS.gene072415:CDS
AAGGAGCAGTGGAGTATTGA+AGG 0.472993 1.1:+69415376 MS.gene072415:CDS
GAAGAAAAGGACAAGATACT+TGG 0.482017 1.1:+69415148 MS.gene072415:CDS
TGGCGATGGAATAATGGAAA+AGG 0.502232 1.1:-69414954 None:intergenic
GTGATGAAGATCGGAGTATG+TGG 0.505034 1.1:+69415083 MS.gene072415:CDS
TCACGATCTTCTCCCCAGTA+AGG 0.522126 1.1:-69415196 None:intergenic
CAAATCATTCTACCAACCAT+TGG 0.536249 1.1:+69415020 MS.gene072415:CDS
GGCACAATGCACTAGATGCT+GGG 0.562129 1.1:+69415474 MS.gene072415:CDS
GAAGGAAGTTCCCAAATTTG+AGG 0.566069 1.1:+69415219 MS.gene072415:CDS
TAATCTCAAGTGATGAAGAT+CGG 0.572690 1.1:+69415074 MS.gene072415:CDS
CCCAGTAAGGAGAATGAACA+AGG 0.586733 1.1:-69415183 None:intergenic
CTTGTTCATTCTCCTTACTG+GGG 0.596220 1.1:+69415184 MS.gene072415:CDS
TAAAGATCCTGAAGGAGCAG+TGG 0.596954 1.1:+69415365 MS.gene072415:CDS
ATGGTTGGTAGAATGATTTG+AGG 0.603312 1.1:-69415017 None:intergenic
AGAACGCAATATCCAATGGT+TGG 0.612381 1.1:-69415032 None:intergenic
TCGTAGAACGCAATATCCAA+TGG 0.625607 1.1:-69415036 None:intergenic
AGCTAATATAAAGATCCTGA+AGG 0.630758 1.1:+69415357 MS.gene072415:CDS
CTGGGGAGAAGATCGTGAGA+AGG 0.634124 1.1:+69415201 MS.gene072415:CDS
CAAGTCTTGCAAAAGCAAAG+TGG 0.634464 1.1:+69414993 MS.gene072415:CDS
TGATGAAGATCGGAGTATGT+GGG 0.637812 1.1:+69415084 MS.gene072415:CDS

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
!!! ATATTAAAACCCAAAACTTT+TGG - chr1.1:69415433-69415452 None:intergenic 20.0%
!!! GGTTTTAATATTGATTGTAA+GGG + chr1.1:69415442-69415461 MS.gene072415:CDS 20.0%
! AAAAAATTTCCAGAAGTTCT+TGG + chr1.1:69415310-69415329 MS.gene072415:CDS 25.0%
! ATGGAACATTAGATTATCTA+AGG + chr1.1:69415248-69415267 MS.gene072415:CDS 25.0%
!!! GGGTTTTAATATTGATTGTA+AGG + chr1.1:69415441-69415460 MS.gene072415:CDS 25.0%
!!! TGGAAATTTTTTAAGCAACT+TGG - chr1.1:69415302-69415321 None:intergenic 25.0%
AAAAATCTGATATTTGGCGA+TGG - chr1.1:69414971-69414990 None:intergenic 30.0%
AAATTACATCCAAGAACTTC+TGG - chr1.1:69415322-69415341 None:intergenic 30.0%
AGCTAATATAAAGATCCTGA+AGG + chr1.1:69415357-69415376 MS.gene072415:CDS 30.0%
CTTGGCAAAAATCTGATATT+TGG - chr1.1:69414977-69414996 None:intergenic 30.0%
GTATTGAAGGAAAATCTCTT+AGG + chr1.1:69415389-69415408 MS.gene072415:CDS 30.0%
TAATCTCAAGTGATGAAGAT+CGG + chr1.1:69415074-69415093 MS.gene072415:CDS 30.0%
! CTTCGAAATCCAAAAGTTTT+GGG + chr1.1:69415421-69415440 MS.gene072415:CDS 30.0%
!! AAGATACTTGGAAAAGCATT+TGG + chr1.1:69415160-69415179 MS.gene072415:CDS 30.0%
CAAATCATTCTACCAACCAT+TGG + chr1.1:69415020-69415039 MS.gene072415:CDS 35.0%
CCATTTACTGCCTCAAATTT+GGG - chr1.1:69415232-69415251 None:intergenic 35.0%
GAAGAAAAGGACAAGATACT+TGG + chr1.1:69415148-69415167 MS.gene072415:CDS 35.0%
GATATTTGGCGATGGAATAA+TGG - chr1.1:69414963-69414982 None:intergenic 35.0%
TAACTTCGACGATGAAGAAA+AGG + chr1.1:69415135-69415154 MS.gene072415:CDS 35.0%
TCCATTTACTGCCTCAAATT+TGG - chr1.1:69415233-69415252 None:intergenic 35.0%
TGATTGTAAGGGAGATTGTA+AGG + chr1.1:69415453-69415472 MS.gene072415:CDS 35.0%
! CCAAAACTTTTGGATTTCGA+AGG - chr1.1:69415423-69415442 None:intergenic 35.0%
! CCTTCGAAATCCAAAAGTTT+TGG + chr1.1:69415420-69415439 MS.gene072415:CDS 35.0%
!! ATGGTTGGTAGAATGATTTG+AGG - chr1.1:69415020-69415039 None:intergenic 35.0%
AGAACGCAATATCCAATGGT+TGG - chr1.1:69415035-69415054 None:intergenic 40.0%
CAAGTCTTGCAAAAGCAAAG+TGG + chr1.1:69414993-69415012 MS.gene072415:CDS 40.0%
CCTTGTTCATTCTCCTTACT+GGG + chr1.1:69415183-69415202 MS.gene072415:CDS 40.0%
CTTGTTCATTCTCCTTACTG+GGG + chr1.1:69415184-69415203 MS.gene072415:CDS 40.0%
GAAGGAAGTTCCCAAATTTG+AGG + chr1.1:69415219-69415238 MS.gene072415:CDS 40.0%
TCGTAGAACGCAATATCCAA+TGG - chr1.1:69415039-69415058 None:intergenic 40.0%
TGATGAAGATCGGAGTATGT+GGG + chr1.1:69415084-69415103 MS.gene072415:CDS 40.0%
! CCCAAATTTGAGGCAGTAAA+TGG + chr1.1:69415229-69415248 MS.gene072415:CDS 40.0%
! CTTTTGGATTTCGAAGGAGA+AGG - chr1.1:69415417-69415436 None:intergenic 40.0%
! TGGCGATGGAATAATGGAAA+AGG - chr1.1:69414957-69414976 None:intergenic 40.0%
!! CACTTTGCTTTTGCAAGACT+TGG - chr1.1:69414995-69415014 None:intergenic 40.0%
CCCAGTAAGGAGAATGAACA+AGG - chr1.1:69415186-69415205 None:intergenic 45.0%
GTGATGAAGATCGGAGTATG+TGG + chr1.1:69415083-69415102 MS.gene072415:CDS 45.0%
TAAAGATCCTGAAGGAGCAG+TGG + chr1.1:69415365-69415384 MS.gene072415:CDS 45.0%
! GCCTTGTTCATTCTCCTTAC+TGG + chr1.1:69415182-69415201 MS.gene072415:CDS 45.0%
!! AAGGAGCAGTGGAGTATTGA+AGG + chr1.1:69415376-69415395 MS.gene072415:CDS 45.0%
AGGCACAATGCACTAGATGC+TGG + chr1.1:69415473-69415492 MS.gene072415:CDS 50.0%
CAATACTCCACTGCTCCTTC+AGG - chr1.1:69415375-69415394 None:intergenic 50.0%
GGCACAATGCACTAGATGCT+GGG + chr1.1:69415474-69415493 MS.gene072415:CDS 50.0%
TCACGATCTTCTCCCCAGTA+AGG - chr1.1:69415199-69415218 None:intergenic 50.0%
CTGGGGAGAAGATCGTGAGA+AGG + chr1.1:69415201-69415220 MS.gene072415:CDS 55.0%


Chromosome Type Strat End Strand Name
chr1.1 gene 69414932 69415507 69414932 ID=MS.gene072415
chr1.1 mRNA 69414932 69415507 69414932 ID=MS.gene072415.t1;Parent=MS.gene072415
chr1.1 exon 69414932 69415507 69414932 ID=MS.gene072415.t1.exon1;Parent=MS.gene072415.t1
chr1.1 CDS 69414932 69415507 69414932 ID=cds.MS.gene072415.t1;Parent=MS.gene072415.t1
Gene Sequence

>MS.gene072415

ATGCAGGCTGATCTTGCTGGTGCCTTTTCCATTATTCCATCGCCAAATATCAGATTTTTGCCAAGTCTTGCAAAAGCAAAGTGGACCTCAAATCATTCTACCAACCATTGGATATTGCGTTCTACGACACAGATAGAGAATGTAATCTCAAGTGATGAAGATCGGAGTATGTGGGAAGCATGTAGACAAGCTCTTTCTGCATTTAACTTCGACGATGAAGAAAAGGACAAGATACTTGGAAAAGCATTTGGCCTTGTTCATTCTCCTTACTGGGGAGAAGATCGTGAGAAGGAAGTTCCCAAATTTGAGGCAGTAAATGGAACATTAGATTATCTAAGGAGTTTAAATCTTTCTGACGATGATTTGTCCAAGTTGCTTAAAAAATTTCCAGAAGTTCTTGGATGTAATTTAGAAGAAGAGTTGAAAGCTAATATAAAGATCCTGAAGGAGCAGTGGAGTATTGAAGGAAAATCTCTTAGGAACCTTCTCCTTCGAAATCCAAAAGTTTTGGGTTTTAATATTGATTGTAAGGGAGATTGTAAGGCACAATGCACTAGATGCTGGGTTCGATTCTAG

Protein sequence

>MS.gene072415.t1

MQADLAGAFSIIPSPNIRFLPSLAKAKWTSNHSTNHWILRSTTQIENVISSDEDRSMWEACRQALSAFNFDDEEKDKILGKAFGLVHSPYWGEDREKEVPKFEAVNGTLDYLRSLNLSDDDLSKLLKKFPEVLGCNLEEELKANIKILKEQWSIEGKSLRNLLLRNPKVLGFNIDCKGDCKAQCTRCWVRF