AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar XinJiangDaYe / MS.gene55837

Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene55837.t1 MTR_8g099965 94.118 85 2 1 1 82 1 85 1.87e-50 153
MS.gene55837.t1 MTR_8g027380 61.905 42 16 0 3 44 8 49 5.60e-13 58.9
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene55837.t1 AT4G10810 62.500 48 18 0 4 51 16 63 2.84e-13 59.3

Find 32 sgRNAs with CRISPR-Local

Find 34 sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
CCAACTTCTCTTTAGATATC+AGG 0.264418 4.3:+4164635 None:intergenic
TTCCGCTTTCTTCTCTTCCT+TGG 0.296008 4.3:-4164578 MS.gene55837:CDS
TCATCGTCTTCGTCGTTATC+AGG 0.344564 4.3:+4164517 None:intergenic
GGAGGTTGGTGATATCGTTT+GGG 0.357316 4.3:+4164431 None:intergenic
GGGAGGTTGGTGATATCGTT+TGG 0.364836 4.3:+4164430 None:intergenic
GATCAGATGGCAACCTGGGT+GGG 0.426814 4.3:-4164613 MS.gene55837:CDS
GGGGTCTTAACGGAGGGATC+AGG 0.428723 4.3:+4164451 None:intergenic
GGTGGTGGTGGTGACGGAGT+CGG 0.448510 4.3:+4164489 None:intergenic
ATCAGATGGCAACCTGGGTG+GGG 0.454986 4.3:-4164612 MS.gene55837:CDS
CCTGATATCTAAAGAGAAGT+TGG 0.455522 4.3:-4164635 MS.gene55837:CDS
GTTGACGGTGGTGGTGGTGG+TGG 0.455838 4.3:+4164477 None:intergenic
ATTGTTGACGGTGGTGGTGG+TGG 0.457641 4.3:+4164474 None:intergenic
ATCAGGATTGTTGACGGTGG+TGG 0.467123 4.3:+4164468 None:intergenic
GATATCGTTTGGGGTCTTAA+CGG 0.478557 4.3:+4164441 None:intergenic
AGGATTGTTGACGGTGGTGG+TGG 0.495328 4.3:+4164471 None:intergenic
TAAAGAGAAGTTGGATCAGA+TGG 0.515604 4.3:-4164626 MS.gene55837:CDS
AGAGAAGAAAGCGGAAGAGA+CGG 0.533991 4.3:+4164585 None:intergenic
AGTTGGATCAGATGGCAACC+TGG 0.543370 4.3:-4164618 MS.gene55837:CDS
GACGCAAGAAAAGCGTTCCA+AGG 0.548791 4.3:+4164561 None:intergenic
GGATCAGATGGCAACCTGGG+TGG 0.570514 4.3:-4164614 MS.gene55837:CDS
GAAGAAAGCGGAAGAGACGG+TGG 0.578991 4.3:+4164588 None:intergenic
GTTGGATCAGATGGCAACCT+GGG 0.581479 4.3:-4164617 MS.gene55837:CDS
GGAGGGATCAGGATTGTTGA+CGG 0.583608 4.3:+4164462 None:intergenic
TCGTTTGGGGTCTTAACGGA+GGG 0.589276 4.3:+4164445 None:intergenic
ATCGTTTGGGGTCTTAACGG+AGG 0.613773 4.3:+4164444 None:intergenic
AGAGACGGTGGACCCCACCC+AGG 0.649497 4.3:+4164600 None:intergenic
TCGTCTTCGTCGTTATCAGG+AGG 0.685685 4.3:+4164520 None:intergenic
TTCCAAGGAAGAGAAGAAAG+CGG 0.690072 4.3:+4164576 None:intergenic
GTTATCAGGAGGATCAGAAG+TGG 0.695959 4.3:+4164531 None:intergenic
GAGGTTGGTGATATCGTTTG+GGG 0.715129 4.3:+4164432 None:intergenic
GGGATCAGGATTGTTGACGG+TGG 0.721497 4.3:+4164465 None:intergenic
TCGACCACGATGGAGAACAA+CGG 0.739992 4.3:-4164661 None:intergenic

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
CCAACTTCTCTTTAGATATC+AGG + chr4.3:4164449-4164468 None:intergenic 35.0%
CCTGATATCTAAAGAGAAGT+TGG - chr4.3:4164446-4164465 MS.gene55837:CDS 35.0%
TAAAGAGAAGTTGGATCAGA+TGG - chr4.3:4164455-4164474 MS.gene55837:CDS 35.0%
TTCCAAGGAAGAGAAGAAAG+CGG + chr4.3:4164508-4164527 None:intergenic 40.0%
! GATATCGTTTGGGGTCTTAA+CGG + chr4.3:4164643-4164662 None:intergenic 40.0%
AGAGAAGAAAGCGGAAGAGA+CGG + chr4.3:4164499-4164518 None:intergenic 45.0%
GTTATCAGGAGGATCAGAAG+TGG + chr4.3:4164553-4164572 None:intergenic 45.0%
TCATCGTCTTCGTCGTTATC+AGG + chr4.3:4164567-4164586 None:intergenic 45.0%
TTCCGCTTTCTTCTCTTCCT+TGG - chr4.3:4164503-4164522 MS.gene55837:CDS 45.0%
!! GAGGTTGGTGATATCGTTTG+GGG + chr4.3:4164652-4164671 None:intergenic 45.0%
!! GGAGGTTGGTGATATCGTTT+GGG + chr4.3:4164653-4164672 None:intergenic 45.0%
AGTTGGATCAGATGGCAACC+TGG - chr4.3:4164463-4164482 MS.gene55837:CDS 50.0%
ATCAGGATTGTTGACGGTGG+TGG + chr4.3:4164616-4164635 None:intergenic 50.0%
GGAGGGATCAGGATTGTTGA+CGG + chr4.3:4164622-4164641 None:intergenic 50.0%
GTTGGATCAGATGGCAACCT+GGG - chr4.3:4164464-4164483 MS.gene55837:CDS 50.0%
TCGTCTTCGTCGTTATCAGG+AGG + chr4.3:4164564-4164583 None:intergenic 50.0%
! ATCGTTTGGGGTCTTAACGG+AGG + chr4.3:4164640-4164659 None:intergenic 50.0%
! TCGTTTGGGGTCTTAACGGA+GGG + chr4.3:4164639-4164658 None:intergenic 50.0%
!! GACGCAAGAAAAGCGTTCCA+AGG + chr4.3:4164523-4164542 None:intergenic 50.0%
!! GGGAGGTTGGTGATATCGTT+TGG + chr4.3:4164654-4164673 None:intergenic 50.0%
AGGCTGCCGTTGTTCTCCAT+GGG + chr4.3:4164429-4164448 None:intergenic 55.0%
ATCAGATGGCAACCTGGGTG+GGG - chr4.3:4164469-4164488 MS.gene55837:CDS 55.0%
GAAGAAAGCGGAAGAGACGG+TGG + chr4.3:4164496-4164515 None:intergenic 55.0%
GATCAGATGGCAACCTGGGT+GGG - chr4.3:4164468-4164487 MS.gene55837:CDS 55.0%
GGGATCAGGATTGTTGACGG+TGG + chr4.3:4164619-4164638 None:intergenic 55.0%
! AGGATTGTTGACGGTGGTGG+TGG + chr4.3:4164613-4164632 None:intergenic 55.0%
!! ATTGTTGACGGTGGTGGTGG+TGG + chr4.3:4164610-4164629 None:intergenic 55.0%
CAGGCTGCCGTTGTTCTCCA+TGG + chr4.3:4164430-4164449 None:intergenic 60.0%
GGATCAGATGGCAACCTGGG+TGG - chr4.3:4164467-4164486 MS.gene55837:CDS 60.0%
GGGGTCTTAACGGAGGGATC+AGG + chr4.3:4164633-4164652 None:intergenic 60.0%
!! GGTGGTGGTGGTGACGGAGT+CGG + chr4.3:4164595-4164614 None:intergenic 65.0%
!! GGTGGTGGTGGTGGTGGTGA+CGG + chr4.3:4164601-4164620 None:intergenic 65.0%
!! GTTGACGGTGGTGGTGGTGG+TGG + chr4.3:4164607-4164626 None:intergenic 65.0%
AGAGACGGTGGACCCCACCC+AGG + chr4.3:4164484-4164503 None:intergenic 70.0%


Chromosome Type Strat End Strand Name
chr4.3 gene 4164429 4164674 4164429 ID=MS.gene55837
chr4.3 mRNA 4164429 4164674 4164429 ID=MS.gene55837.t1;Parent=MS.gene55837
chr4.3 exon 4164429 4164674 4164429 ID=MS.gene55837.t1.exon1;Parent=MS.gene55837.t1
chr4.3 CDS 4164429 4164674 4164429 ID=cds.MS.gene55837.t1;Parent=MS.gene55837.t1
Gene Sequence

>MS.gene55837

ATGGAGAACAACGGCAGCCTGATATCTAAAGAGAAGTTGGATCAGATGGCAACCTGGGTGGGGTCCACCGTCTCTTCCGCTTTCTTCTCTTCCTTGGAACGCTTTTCTTGCGTCAACGTCACCACTTCTGATCCTCCTGATAACGACGAAGACGATGATTACTCCGACTCCGTCACCACCACCACCACCACCGTCAACAATCCTGATCCCTCCGTTAAGACCCCAAACGATATCACCAACCTCCCC
Protein sequence

>MS.gene55837.t1

MENNGSLISKEKLDQMATWVGSTVSSAFFSSLERFSCVNVTTSDPPDNDEDDDYSDSVTTTTTTVNNPDPSVKTPNDITNLP