AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar XinJiangDaYe / MS.gene67320

Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene67320.t1 MTR_2g435720 91.209 91 7 1 1 90 1 91 2.56e-47 145
MS.gene67320.t1 MTR_2g435690 91.209 91 7 1 1 90 1 91 2.56e-47 145
MS.gene67320.t1 MTR_4g120300 38.095 84 45 2 1 80 1 81 1.33e-11 55.5
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score

Find 24 sgRNAs with CRISPR-Local

Find 32 sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
CGATTCTTTGGTCTAGTCTT+AGG 0.200603 2.3:-55262330 None:intergenic
TTATAATTATGGTGGTATTA+TGG 0.271896 2.3:+55262296 MS.gene67320:CDS
ATATTACCCCAACGATTCTT+TGG 0.295908 2.3:-55262342 None:intergenic
CAACCAGATCTTGTTAAGAT+AGG 0.330395 2.3:+55262123 MS.gene67320:CDS
AAAGATGCAGCTTATAATTA+TGG 0.330458 2.3:+55262285 MS.gene67320:CDS
CTTCCTCCTTGTACTGATAC+TGG 0.331506 2.3:-55262245 None:intergenic
GACTAGACCAAAGAATCGTT+GGG 0.392554 2.3:+55262335 MS.gene67320:CDS
AGCCCTATCTTAACAAGATC+TGG 0.399344 2.3:-55262126 None:intergenic
AAATGGAGGAAGGCAGGGAC+AGG 0.418939 2.3:+55262200 MS.gene67320:CDS
CATAAATCTTCAAGATTTGA+AGG 0.440954 2.3:-55262373 None:intergenic
CAGGGTCGTAAGGGGCTTCA+AGG 0.447125 2.3:+55262219 MS.gene67320:CDS
AAGGCAGGGACAGGGTCGTA+AGG 0.449778 2.3:+55262209 MS.gene67320:CDS
CTTGTTAAGATAGGGCTAGA+AGG 0.455471 2.3:+55262132 MS.gene67320:CDS
GGCAGGGACAGGGTCGTAAG+GGG 0.482396 2.3:+55262211 MS.gene67320:CDS
AGACTAGACCAAAGAATCGT+TGG 0.497692 2.3:+55262334 MS.gene67320:CDS
AACCAGATCTTGTTAAGATA+GGG 0.511378 2.3:+55262124 MS.gene67320:CDS
TTGTTAAGATAGGGCTAGAA+GGG 0.513413 2.3:+55262133 MS.gene67320:CDS
AGGCAGGGACAGGGTCGTAA+GGG 0.515543 2.3:+55262210 MS.gene67320:CDS
ATCTTAACAAGATCTGGTTG+AGG 0.585003 2.3:-55262120 None:intergenic
AGGTAACCAGTATCAGTACA+AGG 0.622620 2.3:+55262239 MS.gene67320:CDS
AATGGAGGAAGGCAGGGACA+GGG 0.625196 2.3:+55262201 MS.gene67320:CDS
GATGCAGCTTATAATTATGG+TGG 0.635975 2.3:+55262288 MS.gene67320:CDS
ACTAGACCAAAGAATCGTTG+GGG 0.714261 2.3:+55262336 MS.gene67320:CDS
TAACCAGTATCAGTACAAGG+AGG 0.748530 2.3:+55262242 MS.gene67320:CDS

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
!! TTATAATTATGGTGGTATTA+TGG + chr2.3:55262296-55262315 MS.gene67320:CDS 20.0%
! AAAGATGCAGCTTATAATTA+TGG + chr2.3:55262285-55262304 MS.gene67320:CDS 25.0%
AACCAGATCTTGTTAAGATA+GGG + chr2.3:55262124-55262143 MS.gene67320:CDS 30.0%
! GCTCTCATAGATAACTTTTA+TGG + chr2.3:55262159-55262178 MS.gene67320:CDS 30.0%
AAATGTCCAAAAATGGAGGA+AGG + chr2.3:55262190-55262209 MS.gene67320:CDS 35.0%
ATATTACCCCAACGATTCTT+TGG - chr2.3:55262345-55262364 None:intergenic 35.0%
ATCTTAACAAGATCTGGTTG+AGG - chr2.3:55262123-55262142 None:intergenic 35.0%
CAACCAGATCTTGTTAAGAT+AGG + chr2.3:55262123-55262142 MS.gene67320:CDS 35.0%
CCAAAAATGTCCAAAAATGG+AGG + chr2.3:55262186-55262205 MS.gene67320:CDS 35.0%
CCACCAAAAATGTCCAAAAA+TGG + chr2.3:55262183-55262202 MS.gene67320:CDS 35.0%
GATGCAGCTTATAATTATGG+TGG + chr2.3:55262288-55262307 MS.gene67320:CDS 35.0%
TTGTTAAGATAGGGCTAGAA+GGG + chr2.3:55262133-55262152 MS.gene67320:CDS 35.0%
!! CCATTTTTGGACATTTTTGG+TGG - chr2.3:55262186-55262205 None:intergenic 35.0%
!! CCTCCATTTTTGGACATTTT+TGG - chr2.3:55262189-55262208 None:intergenic 35.0%
ACTAGACCAAAGAATCGTTG+GGG + chr2.3:55262336-55262355 MS.gene67320:CDS 40.0%
AGACTAGACCAAAGAATCGT+TGG + chr2.3:55262334-55262353 MS.gene67320:CDS 40.0%
AGCCCTATCTTAACAAGATC+TGG - chr2.3:55262129-55262148 None:intergenic 40.0%
AGGTAACCAGTATCAGTACA+AGG + chr2.3:55262239-55262258 MS.gene67320:CDS 40.0%
CTTGTTAAGATAGGGCTAGA+AGG + chr2.3:55262132-55262151 MS.gene67320:CDS 40.0%
GACTAGACCAAAGAATCGTT+GGG + chr2.3:55262335-55262354 MS.gene67320:CDS 40.0%
TAACCAGTATCAGTACAAGG+AGG + chr2.3:55262242-55262261 MS.gene67320:CDS 40.0%
! CGATTCTTTGGTCTAGTCTT+AGG - chr2.3:55262333-55262352 None:intergenic 40.0%
TCCAAAAATGGAGGAAGGCA+GGG + chr2.3:55262195-55262214 MS.gene67320:CDS 45.0%
! CTTCCTCCTTGTACTGATAC+TGG - chr2.3:55262248-55262267 None:intergenic 45.0%
GTCCAAAAATGGAGGAAGGC+AGG + chr2.3:55262194-55262213 MS.gene67320:CDS 50.0%
! TCCCTGCCTTCCTCCATTTT+TGG - chr2.3:55262199-55262218 None:intergenic 50.0%
AAATGGAGGAAGGCAGGGAC+AGG + chr2.3:55262200-55262219 MS.gene67320:CDS 55.0%
AATGGAGGAAGGCAGGGACA+GGG + chr2.3:55262201-55262220 MS.gene67320:CDS 55.0%
AAGGCAGGGACAGGGTCGTA+AGG + chr2.3:55262209-55262228 MS.gene67320:CDS 60.0%
AGGCAGGGACAGGGTCGTAA+GGG + chr2.3:55262210-55262229 MS.gene67320:CDS 60.0%
CAGGGTCGTAAGGGGCTTCA+AGG + chr2.3:55262219-55262238 MS.gene67320:CDS 60.0%
GGCAGGGACAGGGTCGTAAG+GGG + chr2.3:55262211-55262230 MS.gene67320:CDS 65.0%


Chromosome Type Strat End Strand Name
chr2.3 gene 55262114 55262386 55262114 ID=MS.gene67320
chr2.3 mRNA 55262114 55262386 55262114 ID=MS.gene67320.t1;Parent=MS.gene67320
chr2.3 exon 55262114 55262386 55262114 ID=MS.gene67320.t1.exon1;Parent=MS.gene67320.t1
chr2.3 CDS 55262114 55262386 55262114 ID=cds.MS.gene67320.t1;Parent=MS.gene67320.t1
Gene Sequence

>MS.gene67320

ATGGCACCTCAACCAGATCTTGTTAAGATAGGGCTAGAAGGGTTTGCTCTCATAGATAACTTTTATGGTCCACCAAAAATGTCCAAAAATGGAGGAAGGCAGGGACAGGGTCGTAAGGGGCTTCAAGGTAACCAGTATCAGTACAAGGAGGAAGAGACAGTTATCAATAGCAAAGATGCAGCTTATAATTATGGTGGTATTATGGTTGTCAATTATCCTAAGACTAGACCAAAGAATCGTTGGGGTAATATATTTAACGCCTTCAAATCTTGA
Protein sequence

>MS.gene67320.t1

MAPQPDLVKIGLEGFALIDNFYGPPKMSKNGGRQGQGRKGLQGNQYQYKEEETVINSKDAAYNYGGIMVVNYPKTRPKNRWGNIFNAFKS