AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar zhongmu-4 / Msa0523150


Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score

Find 26 sgRNAs with CRISPR-Local

Find 23 sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
CATAGCAGGGACACATTTCT+TGG 0.264407 3_4:-76480385 None:intergenic
GGTGGTTTGGTTGGCATAGC+AGG 0.303830 3_4:-76480399 None:intergenic
GGCACTTGCGTCTGCCTCCA+TGG 0.330551 3_4:-76480421 None:intergenic
TGCGTGCCACCAGGAACTTC+TGG 0.331803 3_4:+76480359 Msa0523150:CDS
CACGGCCGCGCCTCTGCCAC+AGG 0.395156 3_4:+76480306 Msa0523150:CDS
TCTTGGTTACCAGAAGTTCC+TGG 0.400394 3_4:-76480368 None:intergenic
GTCTGCCTCCATGGGTGGTT+TGG 0.427775 3_4:-76480412 None:intergenic
GCCTCCATGGGTGGTTTGGT+TGG 0.435015 3_4:-76480408 None:intergenic
TTCCACATGCCCTGTGGCAG+AGG 0.454808 3_4:-76480316 None:intergenic
GGCGCGGCCGTGATGATAAA+CGG 0.465640 3_4:-76480295 None:intergenic
CGCCTCTGCCACAGGGCATG+TGG 0.480960 3_4:+76480314 Msa0523150:CDS
GCACTTGCGTCTGCCTCCAT+GGG 0.498020 3_4:-76480420 None:intergenic
CTTGCGTCTGCCTCCATGGG+TGG 0.501890 3_4:-76480417 None:intergenic
TGATGATTCAACTCAATTCA+AGG 0.508747 3_4:-76480443 None:intergenic
CGGTGCAACTGCGTGCCACC+AGG 0.530335 3_4:+76480350 Msa0523150:CDS
GTGGTTTGGTTGGCATAGCA+GGG 0.546195 3_4:-76480398 None:intergenic
GCAATGGAGCATGTGCTGCT+AGG 0.562822 3_4:+76480270 None:intergenic
GATGATTCAACTCAATTCAA+GGG 0.567646 3_4:-76480442 None:intergenic
CATGCCCTGTGGCAGAGGCG+CGG 0.598879 3_4:-76480311 None:intergenic
CATGTGGAACTTGCTGCAGT+CGG 0.613537 3_4:+76480330 Msa0523150:CDS
ACGGCCGCGCCTCTGCCACA+GGG 0.616011 3_4:+76480307 Msa0523150:CDS
CTAGGTGCCGTTTATCATCA+CGG 0.637583 3_4:+76480288 Msa0523150:CDS
TATGCCAACCAAACCACCCA+TGG 0.640986 3_4:+76480404 Msa0523150:CDS
TGGTTACCAGAAGTTCCTGG+TGG 0.663688 3_4:-76480365 None:intergenic
GCCAACCAAACCACCCATGG+AGG 0.699460 3_4:+76480407 Msa0523150:CDS
AGCAAGTTCCACATGCCCTG+TGG 0.700479 3_4:-76480322 None:intergenic

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
!! CTAGGTGCCGTTTATCATCA+CGG + chr3_4:76480288-76480307 Msa0523150:CDS 45.0%
TCTTGGTTACCAGAAGTTCC+TGG - chr3_4:76480371-76480390 None:intergenic 45.0%
CATAGCAGGGACACATTTCT+TGG - chr3_4:76480388-76480407 None:intergenic 45.0%
!! CATGTGGAACTTGCTGCAGT+CGG + chr3_4:76480330-76480349 Msa0523150:CDS 50.0%
TGGTTACCAGAAGTTCCTGG+TGG - chr3_4:76480368-76480387 None:intergenic 50.0%
!! GTGGTTTGGTTGGCATAGCA+GGG - chr3_4:76480401-76480420 None:intergenic 50.0%
TATGCCAACCAAACCACCCA+TGG + chr3_4:76480404-76480423 Msa0523150:CDS 50.0%
AGCAAGTTCCACATGCCCTG+TGG - chr3_4:76480325-76480344 None:intergenic 55.0%
!! GGTGGTTTGGTTGGCATAGC+AGG - chr3_4:76480402-76480421 None:intergenic 55.0%
GGCGCGGCCGTGATGATAAA+CGG - chr3_4:76480298-76480317 None:intergenic 60.0%
TTCCACATGCCCTGTGGCAG+AGG - chr3_4:76480319-76480338 None:intergenic 60.0%
TGCGTGCCACCAGGAACTTC+TGG + chr3_4:76480359-76480378 Msa0523150:CDS 60.0%
GCCAACCAAACCACCCATGG+AGG + chr3_4:76480407-76480426 Msa0523150:CDS 60.0%
!! GCCTCCATGGGTGGTTTGGT+TGG - chr3_4:76480411-76480430 None:intergenic 60.0%
GTCTGCCTCCATGGGTGGTT+TGG - chr3_4:76480415-76480434 None:intergenic 60.0%
GCACTTGCGTCTGCCTCCAT+GGG - chr3_4:76480423-76480442 None:intergenic 60.0%
CTTGCGTCTGCCTCCATGGG+TGG - chr3_4:76480420-76480439 None:intergenic 65.0%
GGCACTTGCGTCTGCCTCCA+TGG - chr3_4:76480424-76480443 None:intergenic 65.0%
CATGCCCTGTGGCAGAGGCG+CGG - chr3_4:76480314-76480333 None:intergenic 70.0%
CGCCTCTGCCACAGGGCATG+TGG + chr3_4:76480314-76480333 Msa0523150:CDS 70.0%
CGGTGCAACTGCGTGCCACC+AGG + chr3_4:76480350-76480369 Msa0523150:CDS 70.0%
ACGGCCGCGCCTCTGCCACA+GGG + chr3_4:76480307-76480326 Msa0523150:CDS 75.0%
! CACGGCCGCGCCTCTGCCAC+AGG + chr3_4:76480306-76480325 Msa0523150:CDS 80.0%
Chromosome Type Strat End Strand Name
chr3_4 gene 76480273 76480458 76480273 ID=Msa0523150;Name=Msa0523150
chr3_4 mRNA 76480273 76480458 76480273 ID=Msa0523150-mRNA-1;Parent=Msa0523150;Name=Msa0523150-mRNA-1;_AED=0.46;_eAED=1.00;_QI=0|-1|0|1|-1|1|1|0|61
chr3_4 exon 76480273 76480458 76480273 ID=Msa0523150-mRNA-1:exon:22159;Parent=Msa0523150-mRNA-1
chr3_4 CDS 76480273 76480458 76480273 ID=Msa0523150-mRNA-1:cds;Parent=Msa0523150-mRNA-1
Gene Sequence

>Msa0523150

ATGGAGCATGTGCTGCTAGGTGCCGTTTATCATCACGGCCGCGCCTCTGCCACAGGGCATGTGGAACTTGCTGCAGTCGGTGCAACTGCGTGCCACCAGGAACTTCTGGTAACCAAGAAATGTGTCCCTGCTATGCCAACCAAACCACCCATGGAGGCAGACGCAAGTGCCCTTGAATTGAGTTGA

Protein sequence

>Msa0523150

MEHVLLGAVYHHGRASATGHVELAAVGATACHQELLVTKKCVPAMPTKPPMEADASALELS*