AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar XinJiangDaYe / MS.gene061200


Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene061200.t1 MTR_4g131540 99.569 232 1 0 5 236 3 234 4.43e-171 470
MS.gene061200.t1 MTR_4g131540 82.328 232 1 1 5 236 3 194 5.81e-130 365
MS.gene061200.t1 MTR_3g058560 67.606 71 20 2 42 110 44 113 6.40e-22 87.4
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene061200.t1 AT5G13510 73.626 182 48 0 51 232 39 220 4.66e-102 295
MS.gene061200.t1 AT3G12370 59.589 146 57 1 68 211 15 160 9.23e-62 191

Find 51 sgRNAs with CRISPR-Local

Find 58 sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
ACAACGAGTTTCGTTGTTTC+AGG 0.234422 8.4:+2001634 None:intergenic
TCTTTCTGAAAATCTCTATA+AGG 0.284478 8.4:+2001487 None:intergenic
GATGGATAAACGGTGGGTTT+TGG 0.306620 8.4:+2001795 None:intergenic
GAAAAGTCCTTCTTCTGCTT+TGG 0.317270 8.4:-2001335 MS.gene061200:CDS
GGGTGGGTTGAATGGATTAA+TGG 0.321323 8.4:+2001843 None:intergenic
CGAGATTTATGCTAATTTGT+TGG 0.337443 8.4:-2001365 MS.gene061200:CDS
AGAACTTATCATGGTTCTTA+AGG 0.338473 8.4:-2001287 MS.gene061200:CDS
GAAGCCTTTGTAGTTGATTC+CGG 0.344742 8.4:+2001693 None:intergenic
GAAGCTTGAAGAACAGGAAC+AGG 0.372574 8.4:-2001254 MS.gene061200:CDS
TATGATGTGGGTGGGTTGAA+TGG 0.376194 8.4:+2001835 None:intergenic
GGGTTAGTATTTGAAAAGAT+TGG 0.377643 8.4:+2001869 None:intergenic
GAGATTTATGCTAATTTGTT+GGG 0.387159 8.4:-2001364 MS.gene061200:CDS
GCGTGAAATTGCGGCGTTGA+TGG 0.388449 8.4:+2001777 None:intergenic
TATTTGAAAAGATTGGGTTT+TGG 0.407544 8.4:+2001876 None:intergenic
TCAAGTTTCTTAAACTCGTC+AGG 0.408323 8.4:+2001406 None:intergenic
AAGTTCTTGAAATTGTTTAA+CGG 0.413631 8.4:+2001669 None:intergenic
TTGGTTTGTATGATGTGGGT+GGG 0.413650 8.4:+2001827 None:intergenic
TATTAAGAAGCTTGAAGAAC+AGG 0.423944 8.4:-2001260 MS.gene061200:CDS
GGTTAGTATTTGAAAAGATT+GGG 0.435588 8.4:+2001870 None:intergenic
GGTCTTGGTTTGTATGATGT+GGG 0.456359 8.4:+2001823 None:intergenic
TTTACTGGTGCTGTGTTTGA+AGG 0.465847 8.4:-2001442 MS.gene061200:CDS
TTTCTTTGTGCGTGAAATTG+CGG 0.473934 8.4:+2001768 None:intergenic
TTCTCTAGCAGGAGCTTGAA+TGG 0.482406 8.4:+2001306 None:intergenic
CTTGGTTTGTATGATGTGGG+TGG 0.491348 8.4:+2001826 None:intergenic
GGTTGAATGGATTAATGGGT+CGG 0.496024 8.4:+2001848 None:intergenic
TTGCGGCGTTGATGGATAAA+CGG 0.507344 8.4:+2001785 None:intergenic
GGGTCTTGGTTTGTATGATG+TGG 0.515588 8.4:+2001822 None:intergenic
TGCAGTTGCAGTAGCTTCCA+TGG 0.517404 8.4:+2001927 None:intergenic
AGCACTTGAAGGAACACAAT+GGG 0.519774 8.4:-2001587 MS.gene061200:CDS
GGTGGGTTGAATGGATTAAT+GGG 0.520626 8.4:+2001844 None:intergenic
ACATTCATACCTGTCATACA+TGG 0.531583 8.4:+2001553 None:intergenic
TTGGTGTATAAAGCACTTGA+AGG 0.538624 8.4:-2001598 MS.gene061200:CDS
TCCTGCTAGAGAACTTATCA+TGG 0.541437 8.4:-2001296 MS.gene061200:CDS
GTTGAATGGATTAATGGGTC+GGG 0.546717 8.4:+2001849 None:intergenic
AATAGCAGAAGGAATCTCTT+CGG 0.548948 8.4:+2001513 None:intergenic
ACCATGATAAGTTCTCTAGC+AGG 0.549644 8.4:+2001295 None:intergenic
GGCGTTGATGGATAAACGGT+GGG 0.563964 8.4:+2001789 None:intergenic
CTATAAGGCTTAATAGCAGA+AGG 0.564004 8.4:+2001502 None:intergenic
GTAGTAACCAAAGCAGAAGA+AGG 0.565336 8.4:+2001328 None:intergenic
TGTAGTTGATTCCGGCGAGA+AGG 0.569893 8.4:+2001701 None:intergenic
ACGCTGAAACCATGTATGAC+AGG 0.579109 8.4:-2001562 MS.gene061200:CDS
GCATAAATCTCGCCGCGTGT+CGG 0.580599 8.4:+2001376 None:intergenic
GAAAACTGTTACCTTCTCGC+CGG 0.589832 8.4:-2001712 MS.gene061200:CDS
TTACTGGTGCTGTGTTTGAA+GGG 0.603475 8.4:-2001441 MS.gene061200:CDS
CGGCGTTGATGGATAAACGG+TGG 0.618873 8.4:+2001788 None:intergenic
CTTGAAACATTGCCGACACG+CGG 0.624834 8.4:-2001388 MS.gene061200:CDS
AAGCTTGAAGAACAGGAACA+GGG 0.635295 8.4:-2001253 MS.gene061200:CDS
CGTTGTTGCAAAGAACACAT+TGG 0.653227 8.4:-2001617 MS.gene061200:CDS
AAGCACTTGAAGGAACACAA+TGG 0.664659 8.4:-2001588 MS.gene061200:CDS
CTCGCCGGAATCAACTACAA+AGG 0.670751 8.4:-2001697 MS.gene061200:CDS
GTATGACAGGTATGAATGTG+TGG 0.676357 8.4:-2001549 MS.gene061200:CDS

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
!! AAGTTCTTGAAATTGTTTAA+CGG + chr8.4:2001496-2001515 None:intergenic 20.0%
! GGTTAGTATTTGAAAAGATT+GGG + chr8.4:2001295-2001314 None:intergenic 25.0%
!! TATTTGAAAAGATTGGGTTT+TGG + chr8.4:2001289-2001308 None:intergenic 25.0%
!! TCTTTCTGAAAATCTCTATA+AGG + chr8.4:2001678-2001697 None:intergenic 25.0%
!!! GAGATTTATGCTAATTTGTT+GGG - chr8.4:2001798-2001817 MS.gene061200:CDS 25.0%
AGAACTTATCATGGTTCTTA+AGG - chr8.4:2001875-2001894 MS.gene061200:CDS 30.0%
TATTAAGAAGCTTGAAGAAC+AGG - chr8.4:2001902-2001921 MS.gene061200:CDS 30.0%
! CGAGATTTATGCTAATTTGT+TGG - chr8.4:2001797-2001816 MS.gene061200:CDS 30.0%
! CTTGAAGAGAATGATTTTAC+TGG - chr8.4:2001705-2001724 MS.gene061200:CDS 30.0%
! GGGTTAGTATTTGAAAAGAT+TGG + chr8.4:2001296-2001315 None:intergenic 30.0%
! GTGTTTGAAGGGAAATTTTA+TGG - chr8.4:2001732-2001751 MS.gene061200:CDS 30.0%
!! GTTTTCAAGCTGTTCTTTTA+CGG + chr8.4:2001436-2001455 None:intergenic 30.0%
AATAGCAGAAGGAATCTCTT+CGG + chr8.4:2001652-2001671 None:intergenic 35.0%
ACATTCATACCTGTCATACA+TGG + chr8.4:2001612-2001631 None:intergenic 35.0%
CTATAAGGCTTAATAGCAGA+AGG + chr8.4:2001663-2001682 None:intergenic 35.0%
TCAAGTTTCTTAAACTCGTC+AGG + chr8.4:2001759-2001778 None:intergenic 35.0%
TTTCTTTGTGCGTGAAATTG+CGG + chr8.4:2001397-2001416 None:intergenic 35.0%
! TTGGTGTATAAAGCACTTGA+AGG - chr8.4:2001564-2001583 MS.gene061200:CDS 35.0%
!! TTGAAAAGATTGGGTTTTGG+TGG + chr8.4:2001286-2001305 None:intergenic 35.0%
AAGCACTTGAAGGAACACAA+TGG - chr8.4:2001574-2001593 MS.gene061200:CDS 40.0%
AAGCTTGAAGAACAGGAACA+GGG - chr8.4:2001909-2001928 MS.gene061200:CDS 40.0%
ACCATGATAAGTTCTCTAGC+AGG + chr8.4:2001870-2001889 None:intergenic 40.0%
AGCACTTGAAGGAACACAAT+GGG - chr8.4:2001575-2001594 MS.gene061200:CDS 40.0%
CGTTGTTGCAAAGAACACAT+TGG - chr8.4:2001545-2001564 MS.gene061200:CDS 40.0%
GAAAAGTCCTTCTTCTGCTT+TGG - chr8.4:2001827-2001846 MS.gene061200:CDS 40.0%
GTAGTAACCAAAGCAGAAGA+AGG + chr8.4:2001837-2001856 None:intergenic 40.0%
GTATGACAGGTATGAATGTG+TGG - chr8.4:2001613-2001632 MS.gene061200:CDS 40.0%
TCCTGCTAGAGAACTTATCA+TGG - chr8.4:2001866-2001885 MS.gene061200:CDS 40.0%
! ACAACGAGTTTCGTTGTTTC+AGG + chr8.4:2001531-2001550 None:intergenic 40.0%
! GAAGCCTTTGTAGTTGATTC+CGG + chr8.4:2001472-2001491 None:intergenic 40.0%
!! AAAGATTGGGTTTTGGTGGA+TGG + chr8.4:2001282-2001301 None:intergenic 40.0%
!! GGTCTTGGTTTGTATGATGT+GGG + chr8.4:2001342-2001361 None:intergenic 40.0%
!! GGTGGGTTGAATGGATTAAT+GGG + chr8.4:2001321-2001340 None:intergenic 40.0%
!! GGTTGAATGGATTAATGGGT+CGG + chr8.4:2001317-2001336 None:intergenic 40.0%
!! GTTGAATGGATTAATGGGTC+GGG + chr8.4:2001316-2001335 None:intergenic 40.0%
!! TTACTGGTGCTGTGTTTGAA+GGG - chr8.4:2001721-2001740 MS.gene061200:CDS 40.0%
!! TTGGTTTGTATGATGTGGGT+GGG + chr8.4:2001338-2001357 None:intergenic 40.0%
!! TTTACTGGTGCTGTGTTTGA+AGG - chr8.4:2001720-2001739 MS.gene061200:CDS 40.0%
!!! AAACGGTGGGTTTTGGAAAT+GGG + chr8.4:2001363-2001382 None:intergenic 40.0%
!!! TAAACGGTGGGTTTTGGAAA+TGG + chr8.4:2001364-2001383 None:intergenic 40.0%
ACGCTGAAACCATGTATGAC+AGG - chr8.4:2001600-2001619 MS.gene061200:CDS 45.0%
GAAAACTGTTACCTTCTCGC+CGG - chr8.4:2001450-2001469 MS.gene061200:CDS 45.0%
GAAGCTTGAAGAACAGGAAC+AGG - chr8.4:2001908-2001927 MS.gene061200:CDS 45.0%
TTCTCTAGCAGGAGCTTGAA+TGG + chr8.4:2001859-2001878 None:intergenic 45.0%
!! CTTGGTTTGTATGATGTGGG+TGG + chr8.4:2001339-2001358 None:intergenic 45.0%
!! GATGGATAAACGGTGGGTTT+TGG + chr8.4:2001370-2001389 None:intergenic 45.0%
!! GGGTCTTGGTTTGTATGATG+TGG + chr8.4:2001343-2001362 None:intergenic 45.0%
!! GGGTGGGTTGAATGGATTAA+TGG + chr8.4:2001322-2001341 None:intergenic 45.0%
!! TATGATGTGGGTGGGTTGAA+TGG + chr8.4:2001330-2001349 None:intergenic 45.0%
!! TTGCGGCGTTGATGGATAAA+CGG + chr8.4:2001380-2001399 None:intergenic 45.0%
!!! TGGGTTTTGGAAATGGGTCT+TGG + chr8.4:2001357-2001376 None:intergenic 45.0%
CTCGCCGGAATCAACTACAA+AGG - chr8.4:2001465-2001484 MS.gene061200:CDS 50.0%
CTTGAAACATTGCCGACACG+CGG - chr8.4:2001774-2001793 MS.gene061200:CDS 50.0%
! TGTAGTTGATTCCGGCGAGA+AGG + chr8.4:2001464-2001483 None:intergenic 50.0%
!! GGCGTTGATGGATAAACGGT+GGG + chr8.4:2001376-2001395 None:intergenic 50.0%
GCATAAATCTCGCCGCGTGT+CGG + chr8.4:2001789-2001808 None:intergenic 55.0%
! GCGTGAAATTGCGGCGTTGA+TGG + chr8.4:2001388-2001407 None:intergenic 55.0%
!! CGGCGTTGATGGATAAACGG+TGG + chr8.4:2001377-2001396 None:intergenic 55.0%


Chromosome Type Strat End Strand Name
chr8.4 gene 2001237 2001947 2001237 ID=MS.gene061200
chr8.4 mRNA 2001237 2001947 2001237 ID=MS.gene061200.t1;Parent=MS.gene061200
chr8.4 exon 2001237 2001947 2001237 ID=MS.gene061200.t1.exon1;Parent=MS.gene061200.t1
chr8.4 CDS 2001237 2001947 2001237 ID=cds.MS.gene061200.t1;Parent=MS.gene061200.t1
Gene Sequence

>MS.gene061200

ATGGAAGCTACTGCAACTGCAACTCTACTCAGCTTTTCACTTCCATCCACCAAAACCCAATCTTTTCAAATACTAACCCGACCCATTAATCCATTCAACCCACCCACATCATACAAACCAAGACCCATTTCCAAAACCCACCGTTTATCCATCAACGCCGCAATTTCACGCACAAAGAAAGAAGAAACAGTTGAAACCGTAAAAGAACAGCTTGAAAACTGTTACCTTCTCGCCGGAATCAACTACAAAGGCTTCACCGTTAAACAATTTCAAGAACTTAGAAAAACTCTTCCTGAAACAACGAAACTCGTTGTTGCAAAGAACACATTGGTGTATAAAGCACTTGAAGGAACACAATGGGAGACGCTGAAACCATGTATGACAGGTATGAATGTGTGGTTGTTTGTTCATACCGAAGAGATTCCTTCTGCTATTAAGCCTTATAGAGATTTTCAGAAAGAGAAGAAGCTTGAAGAGAATGATTTTACTGGTGCTGTGTTTGAAGGGAAATTTTATGGTCCTGACGAGTTTAAGAAACTTGAAACATTGCCGACACGCGGCGAGATTTATGCTAATTTGTTGGGTTCTTTGAAAAGTCCTTCTTCTGCTTTGGTTACTACCATTCAAGCTCCTGCTAGAGAACTTATCATGGTTCTTAAGGCACATATTAAGAAGCTTGAAGAACAGGAACAGGGTAGTGCTGTTCTATAG

Protein sequence

>MS.gene061200.t1

MEATATATLLSFSLPSTKTQSFQILTRPINPFNPPTSYKPRPISKTHRLSINAAISRTKKEETVETVKEQLENCYLLAGINYKGFTVKQFQELRKTLPETTKLVVAKNTLVYKALEGTQWETLKPCMTGMNVWLFVHTEEIPSAIKPYRDFQKEKKLEENDFTGAVFEGKFYGPDEFKKLETLPTRGEIYANLLGSLKSPSSALVTTIQAPARELIMVLKAHIKKLEEQEQGSAVL