AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar XinJiangDaYe / MS.gene066813

Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene066813.t1 MTR_3g085510 98.925 93 1 0 1 93 1 93 2.23e-64 189
MS.gene066813.t1 MTR_8g080380 78.495 93 20 0 1 93 92 184 3.90e-52 161
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene066813.t1 AT4G40042 79.747 79 16 0 1 79 1 79 1.26e-43 137
MS.gene066813.t1 AT2G22425 71.591 88 25 0 1 88 1 88 1.76e-41 131
MS.gene066813.t1 AT2G22425 71.591 88 25 0 1 88 1 88 1.76e-41 131

Find 24 sgRNAs with CRISPR-Local

Find 24 sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
GAGAGGATGGCGGTTGAAAA+AGG 0.272451 3.2:+73374191 None:intergenic
CATTGGTGACTGTCCCAAAT+TGG 0.297025 3.2:-73374215 MS.gene066813:CDS
GCATTTGCTGTGGTTGCATT+TGG 0.308000 3.2:-73374306 MS.gene066813:CDS
TTCTTCTTTGAATTCACAAT+AGG 0.417935 3.2:+73374117 None:intergenic
GAAGAAACCCATTAAGAAGT+AGG 0.438658 3.2:-73374100 None:intergenic
TCTGCATTAGCTTCTCTGCT+AGG 0.440951 3.2:+73374340 None:intergenic
ATAGGAGATAGCTGTGGCTT+CGG 0.450784 3.2:+73374135 None:intergenic
GCTGTGGTTGCATTTGGAAC+GGG 0.459654 3.2:-73374300 MS.gene066813:CDS
TGCTGTGGTTGCATTTGGAA+CGG 0.510809 3.2:-73374301 MS.gene066813:CDS
AAGAAACCCATTAAGAAGTA+GGG 0.531311 3.2:-73374099 None:intergenic
TTCATCAGATGGATTGGCAA+GGG 0.536217 3.2:-73374368 None:intergenic
CCGCCATCCTCTCAAGTGGT+TGG 0.536748 3.2:-73374181 MS.gene066813:CDS
TCAACCGCCATCCTCTCAAG+TGG 0.553865 3.2:-73374185 MS.gene066813:CDS
GATCCAACCACTTGAGAGGA+TGG 0.566183 3.2:+73374178 None:intergenic
CTTCATCAGATGGATTGGCA+AGG 0.566563 3.2:-73374369 None:intergenic
CTTGGATCCAACCACTTGAG+AGG 0.567895 3.2:+73374174 None:intergenic
AATGTTGCTTGCATTTGCTG+TGG 0.601891 3.2:-73374316 MS.gene066813:CDS
ACGATGATGCTCATATATGC+TGG 0.624836 3.2:-73374255 MS.gene066813:CDS
TGGTGTTGTTCTCACCACAT+TGG 0.662379 3.2:-73374232 MS.gene066813:CDS
CAAGTGGTTGGATCCAAGTG+AGG 0.664517 3.2:-73374169 MS.gene066813:CDS
ATGATGCTCATATATGCTGG+TGG 0.699379 3.2:-73374252 MS.gene066813:CDS
CCAACCACTTGAGAGGATGG+CGG 0.730520 3.2:+73374181 None:intergenic
ATTTGGGACAGTCACCAATG+TGG 0.730637 3.2:+73374218 None:intergenic
TTCACAATAGGAGATAGCTG+TGG 0.732645 3.2:+73374129 None:intergenic

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
! TTCTTCTTTGAATTCACAAT+AGG + chr3.2:73374347-73374366 None:intergenic 25.0%
ACGATGATGCTCATATATGC+TGG - chr3.2:73374206-73374225 MS.gene066813:CDS 40.0%
ATGATGCTCATATATGCTGG+TGG - chr3.2:73374209-73374228 MS.gene066813:CDS 40.0%
GGTTGAAAAAGGGCCAATTT+GGG + chr3.2:73374262-73374281 None:intergenic 40.0%
TTCACAATAGGAGATAGCTG+TGG + chr3.2:73374335-73374354 None:intergenic 40.0%
! AATGTTGCTTGCATTTGCTG+TGG - chr3.2:73374145-73374164 MS.gene066813:CDS 40.0%
ATAGGAGATAGCTGTGGCTT+CGG + chr3.2:73374329-73374348 None:intergenic 45.0%
CGGTTGAAAAAGGGCCAATT+TGG + chr3.2:73374263-73374282 None:intergenic 45.0%
TGCTGTGGTTGCATTTGGAA+CGG - chr3.2:73374160-73374179 MS.gene066813:CDS 45.0%
! AGAGGATGGCGGTTGAAAAA+GGG + chr3.2:73374272-73374291 None:intergenic 45.0%
! ATTTGGGACAGTCACCAATG+TGG + chr3.2:73374246-73374265 None:intergenic 45.0%
! CATTGGTGACTGTCCCAAAT+TGG - chr3.2:73374246-73374265 MS.gene066813:CDS 45.0%
! GGATGCTTTTCTACCTCACT+TGG + chr3.2:73374308-73374327 None:intergenic 45.0%
! TCTGCATTAGCTTCTCTGCT+AGG + chr3.2:73374124-73374143 None:intergenic 45.0%
!! GCATTTGCTGTGGTTGCATT+TGG - chr3.2:73374155-73374174 MS.gene066813:CDS 45.0%
!! TGGTGTTGTTCTCACCACAT+TGG - chr3.2:73374229-73374248 MS.gene066813:CDS 45.0%
CAAGTGGTTGGATCCAAGTG+AGG - chr3.2:73374292-73374311 MS.gene066813:CDS 50.0%
CTTGGATCCAACCACTTGAG+AGG + chr3.2:73374290-73374309 None:intergenic 50.0%
GATCCAACCACTTGAGAGGA+TGG + chr3.2:73374286-73374305 None:intergenic 50.0%
! GAGAGGATGGCGGTTGAAAA+AGG + chr3.2:73374273-73374292 None:intergenic 50.0%
! GCTGTGGTTGCATTTGGAAC+GGG - chr3.2:73374161-73374180 MS.gene066813:CDS 50.0%
CCAACCACTTGAGAGGATGG+CGG + chr3.2:73374283-73374302 None:intergenic 55.0%
TCAACCGCCATCCTCTCAAG+TGG - chr3.2:73374276-73374295 MS.gene066813:CDS 55.0%
CCGCCATCCTCTCAAGTGGT+TGG - chr3.2:73374280-73374299 MS.gene066813:CDS 60.0%


Chromosome Type Strat End Strand Name
chr3.2 gene 73374101 73374382 73374101 ID=MS.gene066813
chr3.2 mRNA 73374101 73374382 73374101 ID=MS.gene066813.t1;Parent=MS.gene066813
chr3.2 exon 73374101 73374382 73374101 ID=MS.gene066813.t1.exon1;Parent=MS.gene066813.t1
chr3.2 CDS 73374101 73374382 73374101 ID=cds.MS.gene066813.t1;Parent=MS.gene066813.t1
Gene Sequence

>MS.gene066813

ATGGATTGGCAAGGGCAAAACCTAGCAGAGAAGCTAATGCAGATAATGTTGCTTGCATTTGCTGTGGTTGCATTTGGAACGGGATATCTTACAGCTTCTTTCAAGACGATGATGCTCATATATGCTGGTGGTGTTGTTCTCACCACATTGGTGACTGTCCCAAATTGGCCCTTTTTCAACCGCCATCCTCTCAAGTGGTTGGATCCAAGTGAGGTAGAAAAGCATCCGAAGCCACAGCTATCTCCTATTGTGAATTCAAAGAAGAAACCCATTAAGAAGTAG
Protein sequence

>MS.gene066813.t1

MDWQGQNLAEKLMQIMLLAFAVVAFGTGYLTASFKTMMLIYAGGVVLTTLVTVPNWPFFNRHPLKWLDPSEVEKHPKPQLSPIVNSKKKPIKK