AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar XinJiangDaYe / MS.gene045263

Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene045263.t1 MTR_3g085510 98.925 93 1 0 1 93 1 93 2.23e-64 189
MS.gene045263.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.gene045263.t1 AT4G40042 79.747 79 16 0 1 79 1 79 1.26e-43 137
MS.gene045263.t1 AT2G22425 71.591 88 25 0 1 88 1 88 1.76e-41 131
MS.gene045263.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:-73458259 None:intergenic
CATTGGTGACTGTCCCAAAT+TGG 0.297025 3.2:+73458235 MS.gene045263:CDS
GCATTTGCTGTGGTTGCATT+TGG 0.308000 3.2:+73458144 MS.gene045263:CDS
TTCTTCTTTGAATTCACAAT+AGG 0.417935 3.2:-73458333 None:intergenic
GAAGAAACCCATTAAGAAGT+AGG 0.438658 3.2:+73458350 MS.gene045263:CDS
TCTGCATTAGCTTCTCTGCT+AGG 0.440951 3.2:-73458110 None:intergenic
ATAGGAGATAGCTGTGGCTT+CGG 0.450784 3.2:-73458315 None:intergenic
GCTGTGGTTGCATTTGGAAC+GGG 0.459654 3.2:+73458150 MS.gene045263:CDS
TGCTGTGGTTGCATTTGGAA+CGG 0.510809 3.2:+73458149 MS.gene045263:CDS
AAGAAACCCATTAAGAAGTA+GGG 0.531311 3.2:+73458351 MS.gene045263:CDS
TTCATCAGATGGATTGGCAA+GGG 0.536217 3.2:+73458082 None:intergenic
CCGCCATCCTCTCAAGTGGT+TGG 0.536748 3.2:+73458269 MS.gene045263:CDS
TCAACCGCCATCCTCTCAAG+TGG 0.553865 3.2:+73458265 MS.gene045263:CDS
GATCCAACCACTTGAGAGGA+TGG 0.566183 3.2:-73458272 None:intergenic
CTTCATCAGATGGATTGGCA+AGG 0.566563 3.2:+73458081 None:intergenic
CTTGGATCCAACCACTTGAG+AGG 0.567895 3.2:-73458276 None:intergenic
AATGTTGCTTGCATTTGCTG+TGG 0.601891 3.2:+73458134 MS.gene045263:CDS
ACGATGATGCTCATATATGC+TGG 0.624836 3.2:+73458195 MS.gene045263:CDS
TGGTGTTGTTCTCACCACAT+TGG 0.662379 3.2:+73458218 MS.gene045263:CDS
CAAGTGGTTGGATCCAAGTG+AGG 0.664517 3.2:+73458281 MS.gene045263:CDS
ATGATGCTCATATATGCTGG+TGG 0.699379 3.2:+73458198 MS.gene045263:CDS
CCAACCACTTGAGAGGATGG+CGG 0.730520 3.2:-73458269 None:intergenic
ATTTGGGACAGTCACCAATG+TGG 0.730637 3.2:-73458232 None:intergenic
TTCACAATAGGAGATAGCTG+TGG 0.732645 3.2:-73458321 None:intergenic

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
! TTCTTCTTTGAATTCACAAT+AGG - chr3.2:73458336-73458355 None:intergenic 25.0%
ACGATGATGCTCATATATGC+TGG + chr3.2:73458195-73458214 MS.gene045263:CDS 40.0%
ATGATGCTCATATATGCTGG+TGG + chr3.2:73458198-73458217 MS.gene045263:CDS 40.0%
GGTTGAAAAAGGGCCAATTT+GGG - chr3.2:73458251-73458270 None:intergenic 40.0%
TTCACAATAGGAGATAGCTG+TGG - chr3.2:73458324-73458343 None:intergenic 40.0%
! AATGTTGCTTGCATTTGCTG+TGG + chr3.2:73458134-73458153 MS.gene045263:CDS 40.0%
ATAGGAGATAGCTGTGGCTT+CGG - chr3.2:73458318-73458337 None:intergenic 45.0%
CGGTTGAAAAAGGGCCAATT+TGG - chr3.2:73458252-73458271 None:intergenic 45.0%
TGCTGTGGTTGCATTTGGAA+CGG + chr3.2:73458149-73458168 MS.gene045263:CDS 45.0%
! AGAGGATGGCGGTTGAAAAA+GGG - chr3.2:73458261-73458280 None:intergenic 45.0%
! ATTTGGGACAGTCACCAATG+TGG - chr3.2:73458235-73458254 None:intergenic 45.0%
! CATTGGTGACTGTCCCAAAT+TGG + chr3.2:73458235-73458254 MS.gene045263:CDS 45.0%
! GGATGCTTTTCTACCTCACT+TGG - chr3.2:73458297-73458316 None:intergenic 45.0%
! TCTGCATTAGCTTCTCTGCT+AGG - chr3.2:73458113-73458132 None:intergenic 45.0%
!! GCATTTGCTGTGGTTGCATT+TGG + chr3.2:73458144-73458163 MS.gene045263:CDS 45.0%
!! TGGTGTTGTTCTCACCACAT+TGG + chr3.2:73458218-73458237 MS.gene045263:CDS 45.0%
CAAGTGGTTGGATCCAAGTG+AGG + chr3.2:73458281-73458300 MS.gene045263:CDS 50.0%
CTTGGATCCAACCACTTGAG+AGG - chr3.2:73458279-73458298 None:intergenic 50.0%
GATCCAACCACTTGAGAGGA+TGG - chr3.2:73458275-73458294 None:intergenic 50.0%
! GAGAGGATGGCGGTTGAAAA+AGG - chr3.2:73458262-73458281 None:intergenic 50.0%
! GCTGTGGTTGCATTTGGAAC+GGG + chr3.2:73458150-73458169 MS.gene045263:CDS 50.0%
CCAACCACTTGAGAGGATGG+CGG - chr3.2:73458272-73458291 None:intergenic 55.0%
TCAACCGCCATCCTCTCAAG+TGG + chr3.2:73458265-73458284 MS.gene045263:CDS 55.0%
CCGCCATCCTCTCAAGTGGT+TGG + chr3.2:73458269-73458288 MS.gene045263:CDS 60.0%


Chromosome Type Strat End Strand Name
chr3.2 gene 73458090 73458371 73458090 ID=MS.gene045263
chr3.2 mRNA 73458090 73458371 73458090 ID=MS.gene045263.t1;Parent=MS.gene045263
chr3.2 exon 73458090 73458371 73458090 ID=MS.gene045263.t1.exon1;Parent=MS.gene045263.t1
chr3.2 CDS 73458090 73458371 73458090 ID=cds.MS.gene045263.t1;Parent=MS.gene045263.t1
Gene Sequence

>MS.gene045263

ATGGATTGGCAAGGGCAAAACCTAGCAGAGAAGCTAATGCAGATAATGTTGCTTGCATTTGCTGTGGTTGCATTTGGAACGGGATATCTTACAGCTTCTTTCAAGACGATGATGCTCATATATGCTGGTGGTGTTGTTCTCACCACATTGGTGACTGTCCCAAATTGGCCCTTTTTCAACCGCCATCCTCTCAAGTGGTTGGATCCAAGTGAGGTAGAAAAGCATCCGAAGCCACAGCTATCTCCTATTGTGAATTCAAAGAAGAAACCCATTAAGAAGTAG
Protein sequence

>MS.gene045263.t1

MDWQGQNLAEKLMQIMLLAFAVVAFGTGYLTASFKTMMLIYAGGVVLTTLVTVPNWPFFNRHPLKWLDPSEVEKHPKPQLSPIVNSKKKPIKK