AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar XinJiangDaYe / MS.gene056408


Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene056408.t1 MTR_4g068220 100.000 82 0 0 1 82 1 82 1.36e-57 171
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score

Find 18 sgRNAs with CRISPR-Local

Find 16 sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
CCAAATTGTCATTGTGTTCT+TGG 0.122953 4.1:+33803081 None:intergenic
TGGCTTCAACGTTTGCCTTC+TGG 0.241911 4.1:-33803061 MS.gene056408:CDS
CCAAGAACACAATGACAATT+TGG 0.298701 4.1:-33803081 MS.gene056408:CDS
AATCAATGACCAGGGCCTTT+AGG 0.348519 4.1:+33803031 None:intergenic
TAGTAAGGTTGAAGCAAGTA+GGG 0.403558 4.1:-33803173 MS.gene056408:CDS
TGACCAGGGCCTTTAGGACT+TGG 0.419851 4.1:+33803037 None:intergenic
CACAATTGTTATGATCTGTT+TGG 0.429281 4.1:-33803221 MS.gene056408:CDS
CAATTGTGATCAAATTCAAA+AGG 0.442589 4.1:+33803236 None:intergenic
GTTCATAAGCTGATGTTTGA+AGG 0.456602 4.1:+33803107 None:intergenic
CCTTCTGGACCAAGTCCTAA+AGG 0.456913 4.1:-33803046 MS.gene056408:CDS
GAGTGAAAGTCAAAGTAGTA+AGG 0.478900 4.1:-33803188 MS.gene056408:CDS
TCAAACATCAGCTTATGAAC+AGG 0.483154 4.1:-33803104 MS.gene056408:CDS
AATTGTGATCAAATTCAAAA+GGG 0.519874 4.1:+33803237 None:intergenic
GGACCAAGTCCTAAAGGCCC+TGG 0.533081 4.1:-33803040 MS.gene056408:CDS
GTAGTAAGGTTGAAGCAAGT+AGG 0.549665 4.1:-33803174 MS.gene056408:CDS
CCTTTAGGACTTGGTCCAGA+AGG 0.562731 4.1:+33803046 None:intergenic
TGGATATGGAATCAATGACC+AGG 0.587866 4.1:+33803022 None:intergenic
GGATATGGAATCAATGACCA+GGG 0.650404 4.1:+33803023 None:intergenic

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
!! AATTGTGATCAAATTCAAAA+GGG + chr4.1:33803058-33803077 None:intergenic 20.0%
! CAATTGTGATCAAATTCAAA+AGG + chr4.1:33803059-33803078 None:intergenic 25.0%
CACAATTGTTATGATCTGTT+TGG - chr4.1:33803071-33803090 MS.gene056408:CDS 30.0%
CCAAATTGTCATTGTGTTCT+TGG + chr4.1:33803214-33803233 None:intergenic 35.0%
CCAAGAACACAATGACAATT+TGG - chr4.1:33803211-33803230 MS.gene056408:CDS 35.0%
GAGTGAAAGTCAAAGTAGTA+AGG - chr4.1:33803104-33803123 MS.gene056408:CDS 35.0%
GTTCATAAGCTGATGTTTGA+AGG + chr4.1:33803188-33803207 None:intergenic 35.0%
TAGTAAGGTTGAAGCAAGTA+GGG - chr4.1:33803119-33803138 MS.gene056408:CDS 35.0%
TCAAACATCAGCTTATGAAC+AGG - chr4.1:33803188-33803207 MS.gene056408:CDS 35.0%
! TTGAAGCAAGTAGGGTTTTA+AGG - chr4.1:33803127-33803146 MS.gene056408:CDS 35.0%
GTAGTAAGGTTGAAGCAAGT+AGG - chr4.1:33803118-33803137 MS.gene056408:CDS 40.0%
CCTTCTGGACCAAGTCCTAA+AGG - chr4.1:33803246-33803265 MS.gene056408:CDS 50.0%
TGGCTTCAACGTTTGCCTTC+TGG - chr4.1:33803231-33803250 MS.gene056408:CDS 50.0%
!! CCTTTAGGACTTGGTCCAGA+AGG + chr4.1:33803249-33803268 None:intergenic 50.0%
!! TGACCAGGGCCTTTAGGACT+TGG + chr4.1:33803258-33803277 None:intergenic 55.0%
GGACCAAGTCCTAAAGGCCC+TGG - chr4.1:33803252-33803271 MS.gene056408:CDS 60.0%


Chromosome Type Strat End Strand Name
chr4.1 gene 33803033 33803281 33803033 ID=MS.gene056408
chr4.1 mRNA 33803033 33803281 33803033 ID=MS.gene056408.t1;Parent=MS.gene056408
chr4.1 exon 33803033 33803281 33803033 ID=MS.gene056408.t1.exon1;Parent=MS.gene056408.t1
chr4.1 CDS 33803033 33803281 33803033 ID=cds.MS.gene056408.t1;Parent=MS.gene056408.t1
Gene Sequence

>MS.gene056408

ATGAGTTATGTAAAGGCATGCACCCTTTTGAATTTGATCACAATTGTTATGATCTGTTTGGCTATTTTGATGAGTGAAAGTCAAAGTAGTAAGGTTGAAGCAAGTAGGGTTTTAAGGAATTCACAAGAGTTTGCATTTGCAAGAGCTAATCACCTTCAAACATCAGCTTATGAACAGGCCAAGAACACAATGACAATTTGGCTTCAACGTTTGCCTTCTGGACCAAGTCCTAAAGGCCCTGGTCATTGA

Protein sequence

>MS.gene056408.t1

MSYVKACTLLNLITIVMICLAILMSESQSSKVEASRVLRNSQEFAFARANHLQTSAYEQAKNTMTIWLQRLPSGPSPKGPGH