AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar XinJiangDaYe / MS.gene33382

Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene33382.t1 MTR_0147s0050 93.168 161 11 0 1 161 45 205 1.75e-111 315
MS.gene33382.t1 MTR_0147s0020 75.862 87 11 1 79 155 1 87 3.65e-40 132
MS.gene33382.t1 MTR_2g101980 48.193 166 68 5 2 158 47 203 5.94e-40 134
MS.gene33382.t1 MTR_8g103530 38.202 89 47 2 65 145 103 191 3.27e-15 70.1
MS.gene33382.t1 MTR_6g086915 31.193 109 59 3 44 136 60 168 3.15e-13 64.3
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene33382.t1 AT1G15260 39.423 104 60 1 58 158 75 178 5.29e-18 77.0
MS.gene33382.t1 AT3G16070 46.377 69 36 1 67 135 83 150 2.18e-15 69.3

Find 25 sgRNAs with CRISPR-Local

Find 31 sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
GAATTCACAAAACATGAATA+AGG 0.296971 4.2:+87847260 MS.gene33382:CDS
CTTGCAGTATCTTCCATTGC+AGG 0.306986 4.2:-87847144 None:intergenic
CCTTCATAAGTGCTTCTTTG+TGG 0.310981 4.2:-87847201 None:intergenic
GCTTCTTTGTGGACTTTGTT+TGG 0.335982 4.2:-87847190 None:intergenic
CATAGAACTCATTGTAGAAT+TGG 0.346345 4.2:-87847068 None:intergenic
AGCACAGAAGATGAAGAAAT+TGG 0.353260 4.2:+87847296 MS.gene33382:CDS
GATGAAGAAATTGGATATGA+TGG 0.381301 4.2:+87847305 MS.gene33382:CDS
ACGATCACAACTGAGGAAAA+AGG 0.381662 4.2:+87847230 MS.gene33382:CDS
CAGAGGGCTGTGGAAGAGTC+AGG 0.415158 4.2:-87847446 None:intergenic
CTCAGCACAATGAAGATGTT+TGG 0.428580 4.2:+87847108 MS.gene33382:CDS
TCCGGTTTATTTAGATATTG+TGG 0.429248 4.2:+87847395 MS.gene33382:CDS
AACTGGACCAAGTCTTTCCT+TGG 0.434890 4.2:-87847484 None:intergenic
CTATTCTCGCCTTAAAAGTC+CGG 0.438812 4.2:+87847377 MS.gene33382:CDS
TCCACAATATCTAAATAAAC+CGG 0.450069 4.2:-87847396 None:intergenic
AAATTGGATATGATGGAATC+AGG 0.453910 4.2:+87847312 MS.gene33382:CDS
TTGAAGCTGGCAGAGGGCTG+TGG 0.468785 4.2:-87847456 None:intergenic
AATTCACAAAACATGAATAA+GGG 0.481457 4.2:+87847261 MS.gene33382:CDS
TTTATTTAGATATTGTGGAC+AGG 0.515044 4.2:+87847400 MS.gene33382:CDS
ACAATGAAGATGTTTGGTAA+AGG 0.547940 4.2:+87847114 MS.gene33382:CDS
CCACAAAGAAGCACTTATGA+AGG 0.551698 4.2:+87847201 MS.gene33382:CDS
AAAAGATCCAAGGAAAGACT+TGG 0.563595 4.2:+87847477 MS.gene33382:CDS
ATGGAAGATACTGCAAGAAG+TGG 0.578425 4.2:+87847150 MS.gene33382:CDS
TGCCAGCTTCAAAAGATCCA+AGG 0.579056 4.2:+87847467 MS.gene33382:CDS
TAAAGGAAAAGAGCCTGCAA+TGG 0.618557 4.2:+87847131 MS.gene33382:CDS
GTAGCGTACGATCACAACTG+AGG 0.731543 4.2:+87847223 MS.gene33382:CDS

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
!! AATTCACAAAACATGAATAA+GGG + chr4.2:87847261-87847280 MS.gene33382:CDS 20.0%
! GAATTCACAAAACATGAATA+AGG + chr4.2:87847260-87847279 MS.gene33382:CDS 25.0%
! TCCACAATATCTAAATAAAC+CGG - chr4.2:87847399-87847418 None:intergenic 25.0%
! TTTATTTAGATATTGTGGAC+AGG + chr4.2:87847400-87847419 MS.gene33382:CDS 25.0%
!! TATCTTTTATGTAACTGAAC+TGG - chr4.2:87847504-87847523 None:intergenic 25.0%
ACAATGAAGATGTTTGGTAA+AGG + chr4.2:87847114-87847133 MS.gene33382:CDS 30.0%
CATAGAACTCATTGTAGAAT+TGG - chr4.2:87847071-87847090 None:intergenic 30.0%
GATGAAGAAATTGGATATGA+TGG + chr4.2:87847305-87847324 MS.gene33382:CDS 30.0%
TCCGGTTTATTTAGATATTG+TGG + chr4.2:87847395-87847414 MS.gene33382:CDS 30.0%
! AAATTGGATATGATGGAATC+AGG + chr4.2:87847312-87847331 MS.gene33382:CDS 30.0%
! CTAAATAAACCGGACTTTTA+AGG - chr4.2:87847389-87847408 None:intergenic 30.0%
AAAAGATCCAAGGAAAGACT+TGG + chr4.2:87847477-87847496 MS.gene33382:CDS 35.0%
AGCACAGAAGATGAAGAAAT+TGG + chr4.2:87847296-87847315 MS.gene33382:CDS 35.0%
ACGATCACAACTGAGGAAAA+AGG + chr4.2:87847230-87847249 MS.gene33382:CDS 40.0%
ATCACAACTGAGGAAAAAGG+AGG + chr4.2:87847233-87847252 MS.gene33382:CDS 40.0%
ATGGAAGATACTGCAAGAAG+TGG + chr4.2:87847150-87847169 MS.gene33382:CDS 40.0%
CCTTCATAAGTGCTTCTTTG+TGG - chr4.2:87847204-87847223 None:intergenic 40.0%
CTATTCTCGCCTTAAAAGTC+CGG + chr4.2:87847377-87847396 MS.gene33382:CDS 40.0%
CTCAGCACAATGAAGATGTT+TGG + chr4.2:87847108-87847127 MS.gene33382:CDS 40.0%
GCTTCTTTGTGGACTTTGTT+TGG - chr4.2:87847193-87847212 None:intergenic 40.0%
TAAAGGAAAAGAGCCTGCAA+TGG + chr4.2:87847131-87847150 MS.gene33382:CDS 40.0%
!! CCACAAAGAAGCACTTATGA+AGG + chr4.2:87847201-87847220 MS.gene33382:CDS 40.0%
!!! TTCCTTGGATCTTTTGAAGC+TGG - chr4.2:87847472-87847491 None:intergenic 40.0%
AACTGGACCAAGTCTTTCCT+TGG - chr4.2:87847487-87847506 None:intergenic 45.0%
CTTGCAGTATCTTCCATTGC+AGG - chr4.2:87847147-87847166 None:intergenic 45.0%
TGCCAGCTTCAAAAGATCCA+AGG + chr4.2:87847467-87847486 MS.gene33382:CDS 45.0%
!!! GATCTTTTGAAGCTGGCAGA+GGG - chr4.2:87847465-87847484 None:intergenic 45.0%
GTAGCGTACGATCACAACTG+AGG + chr4.2:87847223-87847242 MS.gene33382:CDS 50.0%
!!! GGATCTTTTGAAGCTGGCAG+AGG - chr4.2:87847466-87847485 None:intergenic 50.0%
CAGAGGGCTGTGGAAGAGTC+AGG - chr4.2:87847449-87847468 None:intergenic 60.0%
TTGAAGCTGGCAGAGGGCTG+TGG - chr4.2:87847459-87847478 None:intergenic 60.0%


Chromosome Type Strat End Strand Name
chr4.2 gene 87847039 87847524 87847039 ID=MS.gene33382
chr4.2 mRNA 87847039 87847524 87847039 ID=MS.gene33382.t1;Parent=MS.gene33382
chr4.2 exon 87847039 87847524 87847039 ID=MS.gene33382.t1.exon1;Parent=MS.gene33382.t1
chr4.2 CDS 87847039 87847524 87847039 ID=cds.MS.gene33382.t1;Parent=MS.gene33382.t1
Gene Sequence

>MS.gene33382

ATGGACAATGCAAAAGCTTATTCAAGCGACCAATTCTACAATGAGTTCTATGATATCTTGCAATCTGATCTCAGCACAATGAAGATGTTTGGTAAAGGAAAAGAGCCTGCAATGGAAGATACTGCAAGAAGTGGAAACTTCATGTGTTTTTCCAAACAAAGTCCACAAAGAAGCACTTATGAAGGTAGCGTACGATCACAACTGAGGAAAAAGGAGGATCTGAATTCACAAAACATGAATAAGGGAGCACATGTGTTAGCACAGAAGATGAAGAAATTGGATATGATGGAATCAGGTGATCTTGAACATGTGCTAGACATAGAAGAAGCACTTCACTACTATTCTCGCCTTAAAAGTCCGGTTTATTTAGATATTGTGGACAGGTTTTTCATCGACATAAACTCAGACCTGACTCTTCCACAGCCCTCTGCCAGCTTCAAAAGATCCAAGGAAAGACTTGGTCCAGTTCAGTTACATAAAAGATAA
Protein sequence

>MS.gene33382.t1

MDNAKAYSSDQFYNEFYDILQSDLSTMKMFGKGKEPAMEDTARSGNFMCFSKQSPQRSTYEGSVRSQLRKKEDLNSQNMNKGAHVLAQKMKKLDMMESGDLEHVLDIEEALHYYSRLKSPVYLDIVDRFFIDINSDLTLPQPSASFKRSKERLGPVQLHKR