AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar XinJiangDaYe / MS.gene35818

Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene35818.t1 MTR_2g088320 96.748 123 3 1 1 122 1 123 8.38e-82 235
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene35818.t1 AT5G54970 44.706 85 44 2 13 94 15 99 2.74e-13 62.0

Find 50 sgRNAs with CRISPR-Local

Find 50 sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
GGAGGTGGTGGTGGTGAGGC+TGG 0.218611 2.1:+13383577 None:intergenic
CGGAGGCGAGCTAGGGTTCC+TGG 0.289851 2.1:+13383667 None:intergenic
ACCATCGGCGGCTGCGGCGG+CGG 0.308022 2.1:+13383537 None:intergenic
GATCTTGGTCTTGAATCATT+TGG 0.367487 2.1:-13383400 MS.gene35818:CDS
GGTTTCCCTTCCTTCTTCTC+CGG 0.381260 2.1:-13383517 MS.gene35818:CDS
GCTGCTGACTCAGCAGATCT+TGG 0.404060 2.1:-13383415 MS.gene35818:CDS
AGGTCTTGTTCTCTGCTTCA+TGG 0.408985 2.1:+13383723 None:intergenic
TGGAAGTGGTTTGGTAAAGT+AGG 0.419142 2.1:+13383703 None:intergenic
GGTGGTGGTGGTGAGGCTGG+TGG 0.422166 2.1:+13383580 None:intergenic
TGATCGGAGGGAGGTGGTGG+TGG 0.422451 2.1:+13383568 None:intergenic
GTTTCCCTTCCTTCTTCTCC+GGG 0.422834 2.1:-13383516 MS.gene35818:CDS
TTGAGTCACGGAGGCGAGCT+AGG 0.435623 2.1:+13383659 None:intergenic
AGGGAAACCATCGGCGGCTG+CGG 0.436360 2.1:+13383531 None:intergenic
GCGGCTGCGGCGGCGGTTTG+AGG 0.436624 2.1:+13383544 None:intergenic
GGAGTTGAGACGGTGAGATC+TGG 0.440317 2.1:+13383627 None:intergenic
TCCTTCTTCTCCGGGATCTA+CGG 0.444986 2.1:-13383508 MS.gene35818:CDS
GAGCTAGGGTTCCTGGTTTG+AGG 0.446447 2.1:+13383674 None:intergenic
GGCTGATCGGAGGGAGGTGG+TGG 0.453951 2.1:+13383565 None:intergenic
ACCGTAGATCCCGGAGAAGA+AGG 0.460453 2.1:+13383507 None:intergenic
ACCGCCGCCGCAGCCGCCGA+TGG 0.468049 2.1:-13383538 MS.gene35818:CDS
TTCCTGGTTTGAGGAATTTG+TGG 0.469740 2.1:+13383683 None:intergenic
AGGAATTTGTGGAAGTGGTT+TGG 0.473781 2.1:+13383694 None:intergenic
GTTTGAGGAATTTGTGGAAG+TGG 0.474784 2.1:+13383689 None:intergenic
TCTGCTGAGTCAGCAGCAGC+AGG 0.484937 2.1:+13383421 None:intergenic
CTTGGTCTTGAATCATTTGG+TGG 0.505567 2.1:-13383397 MS.gene35818:CDS
GAAACCATCGGCGGCTGCGG+CGG 0.505671 2.1:+13383534 None:intergenic
TCAGCAGCAGCAGGACTACC+AGG 0.510522 2.1:+13383430 None:intergenic
TGAGGCTGATCGGAGGGAGG+TGG 0.511381 2.1:+13383562 None:intergenic
GTGGTGGTGAGGCTGGTGGA+CGG 0.514928 2.1:+13383584 None:intergenic
GGAGGGAGGTGGTGGTGGTG+AGG 0.526828 2.1:+13383573 None:intergenic
GCGACGAGTTTCTTCCGTTG+TGG 0.540155 2.1:+13383475 None:intergenic
GCGGTTTGAGGCTGATCGGA+GGG 0.544351 2.1:+13383556 None:intergenic
TGAGTCACGGAGGCGAGCTA+GGG 0.544597 2.1:+13383660 None:intergenic
TAGATCCCGGAGAAGAAGGA+AGG 0.559260 2.1:+13383511 None:intergenic
GGCGGCGGTTTGAGGCTGAT+CGG 0.567721 2.1:+13383552 None:intergenic
GGCGGTTTGAGGCTGATCGG+AGG 0.568671 2.1:+13383555 None:intergenic
TGGCGGTTATCTTTGAGTCA+CGG 0.583959 2.1:+13383647 None:intergenic
TCTGAGAGAGGGAGTTGAGA+CGG 0.588321 2.1:+13383617 None:intergenic
ACATCGAGGACCGTAGATCC+CGG 0.588493 2.1:+13383498 None:intergenic
GTTTGAGGCTGATCGGAGGG+AGG 0.605220 2.1:+13383559 None:intergenic
TTCCACAAATTCCTCAAACC+AGG 0.613859 2.1:-13383685 MS.gene35818:CDS
GAAGAAGGAAGGGAAACCAT+CGG 0.615545 2.1:+13383522 None:intergenic
TTCTTCCGTTGTGGACATCG+AGG 0.627074 2.1:+13383484 None:intergenic
AGATCCCGGAGAAGAAGGAA+GGG 0.635957 2.1:+13383512 None:intergenic
GTAGATTGAGATCTGAGAGA+GGG 0.642846 2.1:+13383606 None:intergenic
GGTAGATTGAGATCTGAGAG+AGG 0.644225 2.1:+13383605 None:intergenic
GTTGAGACGGTGAGATCTGG+CGG 0.649621 2.1:+13383630 None:intergenic
ACGGTCCTCGATGTCCACAA+CGG 0.679494 2.1:-13383489 MS.gene35818:CDS
CGGTTATCTTTGAGTCACGG+AGG 0.737996 2.1:+13383650 None:intergenic
GAAGGAAGGGAAACCATCGG+CGG 0.745154 2.1:+13383525 None:intergenic

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
! AAGTCAGTTTTCTTTGTTCC+TGG - chr2.1:13383648-13383667 MS.gene35818:CDS 35.0%
!! GATCTTGGTCTTGAATCATT+TGG - chr2.1:13383696-13383715 MS.gene35818:CDS 35.0%
AGGAATTTGTGGAAGTGGTT+TGG + chr2.1:13383405-13383424 None:intergenic 40.0%
GTAGATTGAGATCTGAGAGA+GGG + chr2.1:13383493-13383512 None:intergenic 40.0%
GTTTGAGGAATTTGTGGAAG+TGG + chr2.1:13383410-13383429 None:intergenic 40.0%
TTCCACAAATTCCTCAAACC+AGG - chr2.1:13383411-13383430 MS.gene35818:CDS 40.0%
! TTCCTGGTTTGAGGAATTTG+TGG + chr2.1:13383416-13383435 None:intergenic 40.0%
!! CTTGGTCTTGAATCATTTGG+TGG - chr2.1:13383699-13383718 MS.gene35818:CDS 40.0%
!! TGGAAGTGGTTTGGTAAAGT+AGG + chr2.1:13383396-13383415 None:intergenic 40.0%
GAAGAAGGAAGGGAAACCAT+CGG + chr2.1:13383577-13383596 None:intergenic 45.0%
GGTAGATTGAGATCTGAGAG+AGG + chr2.1:13383494-13383513 None:intergenic 45.0%
TGGCGGTTATCTTTGAGTCA+CGG + chr2.1:13383452-13383471 None:intergenic 45.0%
AGATCCCGGAGAAGAAGGAA+GGG + chr2.1:13383587-13383606 None:intergenic 50.0%
CGGTTATCTTTGAGTCACGG+AGG + chr2.1:13383449-13383468 None:intergenic 50.0%
GGTTTCCCTTCCTTCTTCTC+CGG - chr2.1:13383579-13383598 MS.gene35818:CDS 50.0%
GTTTCCCTTCCTTCTTCTCC+GGG - chr2.1:13383580-13383599 MS.gene35818:CDS 50.0%
TAGATCCCGGAGAAGAAGGA+AGG + chr2.1:13383588-13383607 None:intergenic 50.0%
TCCTTCTTCTCCGGGATCTA+CGG - chr2.1:13383588-13383607 MS.gene35818:CDS 50.0%
TCTGAGAGAGGGAGTTGAGA+CGG + chr2.1:13383482-13383501 None:intergenic 50.0%
TTCTTCCGTTGTGGACATCG+AGG + chr2.1:13383615-13383634 None:intergenic 50.0%
ACATCGAGGACCGTAGATCC+CGG + chr2.1:13383601-13383620 None:intergenic 55.0%
ACCGTAGATCCCGGAGAAGA+AGG + chr2.1:13383592-13383611 None:intergenic 55.0%
ACGGTCCTCGATGTCCACAA+CGG - chr2.1:13383607-13383626 MS.gene35818:CDS 55.0%
GAAGGAAGGGAAACCATCGG+CGG + chr2.1:13383574-13383593 None:intergenic 55.0%
GCGACGAGTTTCTTCCGTTG+TGG + chr2.1:13383624-13383643 None:intergenic 55.0%
GGAGTTGAGACGGTGAGATC+TGG + chr2.1:13383472-13383491 None:intergenic 55.0%
GTTGAGACGGTGAGATCTGG+CGG + chr2.1:13383469-13383488 None:intergenic 55.0%
! GAGCTAGGGTTCCTGGTTTG+AGG + chr2.1:13383425-13383444 None:intergenic 55.0%
!! GCTGCTGACTCAGCAGATCT+TGG - chr2.1:13383681-13383700 MS.gene35818:CDS 55.0%
TCAGCAGCAGCAGGACTACC+AGG + chr2.1:13383669-13383688 None:intergenic 60.0%
TCTGCTGAGTCAGCAGCAGC+AGG + chr2.1:13383678-13383697 None:intergenic 60.0%
TGAGTCACGGAGGCGAGCTA+GGG + chr2.1:13383439-13383458 None:intergenic 60.0%
TTGAGTCACGGAGGCGAGCT+AGG + chr2.1:13383440-13383459 None:intergenic 60.0%
! GCGGTTTGAGGCTGATCGGA+GGG + chr2.1:13383543-13383562 None:intergenic 60.0%
! GTTTGAGGCTGATCGGAGGG+AGG + chr2.1:13383540-13383559 None:intergenic 60.0%
AGGGAAACCATCGGCGGCTG+CGG + chr2.1:13383568-13383587 None:intergenic 65.0%
TGAGGCTGATCGGAGGGAGG+TGG + chr2.1:13383537-13383556 None:intergenic 65.0%
! GGCGGCGGTTTGAGGCTGAT+CGG + chr2.1:13383547-13383566 None:intergenic 65.0%
! GGCGGTTTGAGGCTGATCGG+AGG + chr2.1:13383544-13383563 None:intergenic 65.0%
! GTGGTGGTGAGGCTGGTGGA+CGG + chr2.1:13383515-13383534 None:intergenic 65.0%
! TGATCGGAGGGAGGTGGTGG+TGG + chr2.1:13383531-13383550 None:intergenic 65.0%
CGGAGGCGAGCTAGGGTTCC+TGG + chr2.1:13383432-13383451 None:intergenic 70.0%
GAAACCATCGGCGGCTGCGG+CGG + chr2.1:13383565-13383584 None:intergenic 70.0%
GGCTGATCGGAGGGAGGTGG+TGG + chr2.1:13383534-13383553 None:intergenic 70.0%
!! GGAGGGAGGTGGTGGTGGTG+AGG + chr2.1:13383526-13383545 None:intergenic 70.0%
!! GGAGGTGGTGGTGGTGAGGC+TGG + chr2.1:13383522-13383541 None:intergenic 70.0%
!! GGTGGTGGTGGTGAGGCTGG+TGG + chr2.1:13383519-13383538 None:intergenic 70.0%
! ACCATCGGCGGCTGCGGCGG+CGG + chr2.1:13383562-13383581 None:intergenic 80.0%
! GCGGCTGCGGCGGCGGTTTG+AGG + chr2.1:13383555-13383574 None:intergenic 80.0%
! ACCGCCGCCGCAGCCGCCGA+TGG - chr2.1:13383558-13383577 MS.gene35818:CDS 85.0%


Chromosome Type Strat End Strand Name
chr2.1 gene 13383375 13383743 13383375 ID=MS.gene35818
chr2.1 mRNA 13383375 13383743 13383375 ID=MS.gene35818.t1;Parent=MS.gene35818
chr2.1 exon 13383375 13383743 13383375 ID=MS.gene35818.t1.exon1;Parent=MS.gene35818.t1
chr2.1 CDS 13383375 13383743 13383375 ID=cds.MS.gene35818.t1;Parent=MS.gene35818.t1
Gene Sequence

>MS.gene35818

ATGAAGCAGAGAACAAGACCTACTTTACCAAACCACTTCCACAAATTCCTCAAACCAGGAACCCTAGCTCGCCTCCGTGACTCAAAGATAACCGCCAGATCTCACCGTCTCAACTCCCTCTCTCAGATCTCAATCTACCGTCCACCAGCCTCACCACCACCACCTCCCTCCGATCAGCCTCAAACCGCCGCCGCAGCCGCCGATGGTTTCCCTTCCTTCTTCTCCGGGATCTACGGTCCTCGATGTCCACAACGGAAGAAACTCGTCGCTGCAAAGTCAGTTTTCTTTGTTCCTGGTAGTCCTGCTGCTGCTGACTCAGCAGATCTTGGTCTTGAATCATTTGGTGGCGATATTATCGCTGCTAATTGA
Protein sequence

>MS.gene35818.t1

MKQRTRPTLPNHFHKFLKPGTLARLRDSKITARSHRLNSLSQISIYRPPASPPPPPSDQPQTAAAAADGFPSFFSGIYGPRCPQRKKLVAAKSVFFVPGSPAAADSADLGLESFGGDIIAAN