AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar ZhongmuNo.1 / MsG0080049069.01


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 16 sgRNAs with CRISPR-Local

Find 19 sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
AAATAATCGCTTCAAATAAA+TGG 0.272873 contig647end:+10117 None:intergenic
CTTGTAGCTCTGCTTCTGTT+AGG 0.288048 contig647end:+10499 None:intergenic
TTGAAGGCAGCATTGGAATT+CGG 0.397519 contig647end:-10158 MsG0080049069.01.T01:CDS
TTGTAGCTCTGCTTCTGTTA+GGG 0.423721 contig647end:+10500 None:intergenic
AGCCATGTTGAAGGCAGCAT+TGG 0.507098 contig647end:-10165 MsG0080049069.01.T01:CDS
TTCTTATTGCTGGTCACCTG+TGG 0.537234 contig647end:-10211 MsG0080049069.01.T01:CDS
CCATGGTGGAGCCATGTTGA+AGG 0.548793 contig647end:-10174 MsG0080049069.01.T01:CDS
CTCTATGGAATCTGCAGAAG+CGG 0.551488 contig647end:-10530 None:intergenic
GGCATGAGGTGCACTGCCAC+AGG 0.552805 contig647end:+10195 None:intergenic
GTCGTTAGCTAGTAATGAAG+AGG 0.557550 contig647end:-10446 MsG0080049069.01.T01:intron
TGGCAGTGCACCTCATGCCA+TGG 0.558798 contig647end:-10191 MsG0080049069.01.T01:CDS
CAGTGCACCTCATGCCATGG+TGG 0.589732 contig647end:-10188 MsG0080049069.01.T01:CDS
TTCCAATGCTGCCTTCAACA+TGG 0.612096 contig647end:+10163 None:intergenic
CCTTCAACATGGCTCCACCA+TGG 0.629439 contig647end:+10174 None:intergenic
CATGGCTCCACCATGGCATG+AGG 0.633481 contig647end:+10181 None:intergenic
AGTACTGCTTCAAGAAGTCG+AGG 0.646449 contig647end:-10478 MsG0080049069.01.T01:CDS

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
!! GATGTATGAATATATAATTT+AGG - contig647end:10416-10435 MsG0080049069.01.T01:intron 15.0%
!! AACCGAAAACATAATATATA+TGG - contig647end:10285-10304 MsG0080049069.01.T01:intron 20.0%
!!! GTCCATATATATTATGTTTT+CGG + contig647end:10290-10309 None:intergenic 20.0%
!!! TCATTAGAGTTATTTTCATA+TGG + contig647end:10398-10417 None:intergenic 20.0%
!! TTTAGGACTTTTCTTATTGC+TGG - contig647end:10433-10452 MsG0080049069.01.T01:intron 30.0%
GTCGTTAGCTAGTAATGAAG+AGG - contig647end:10208-10227 MsG0080049069.01.T01:CDS 40.0%
! TTGAAGGCAGCATTGGAATT+CGG - contig647end:10496-10515 MsG0080049069.01.T01:CDS 40.0%
! TTGTAGCTCTGCTTCTGTTA+GGG + contig647end:10157-10176 None:intergenic 40.0%
AGTACTGCTTCAAGAAGTCG+AGG - contig647end:10176-10195 MsG0080049069.01.T01:CDS 45.0%
TTCCAATGCTGCCTTCAACA+TGG + contig647end:10494-10513 None:intergenic 45.0%
TTCTTATTGCTGGTCACCTG+TGG - contig647end:10443-10462 MsG0080049069.01.T01:intron 45.0%
! CTTGTAGCTCTGCTTCTGTT+AGG + contig647end:10158-10177 None:intergenic 45.0%
AGCCATGTTGAAGGCAGCAT+TGG - contig647end:10489-10508 MsG0080049069.01.T01:CDS 50.0%
CCTTCAACATGGCTCCACCA+TGG + contig647end:10483-10502 None:intergenic 55.0%
! CCATGGTGGAGCCATGTTGA+AGG - contig647end:10480-10499 MsG0080049069.01.T01:CDS 55.0%
CAGTGCACCTCATGCCATGG+TGG - contig647end:10466-10485 MsG0080049069.01.T01:CDS 60.0%
CATGGCTCCACCATGGCATG+AGG + contig647end:10476-10495 None:intergenic 60.0%
TGGCAGTGCACCTCATGCCA+TGG - contig647end:10463-10482 MsG0080049069.01.T01:CDS 60.0%
GGCATGAGGTGCACTGCCAC+AGG + contig647end:10462-10481 None:intergenic 65.0%
Chromosome Type Strat End Strand Name
contig647end gene 10128 10548 10128 ID=MsG0080049069.01;Name=MsG0080049069.01
contig647end mRNA 10128 10548 10128 ID=MsG0080049069.01.T01;Parent=MsG0080049069.01;Name=MsG0080049069.01.T01;_AED=0.50;_eAED=1.00;_QI=0|0|0|1|1|0.5|2|0|70
contig647end exon 10447 10548 10447 ID=MsG0080049069.01.T01:exon:58867;Parent=MsG0080049069.01.T01
contig647end exon 10128 10238 10128 ID=MsG0080049069.01.T01:exon:58868;Parent=MsG0080049069.01.T01
contig647end CDS 10447 10548 10447 ID=MsG0080049069.01.T01:cds;Parent=MsG0080049069.01.T01
contig647end CDS 10128 10238 10128 ID=MsG0080049069.01.T01:cds;Parent=MsG0080049069.01.T01
Gene Sequence

>MsG0080049069.01.T01

ATGGAATCTGCAGAAGCGGTTAGAGTCCCTAACAGAAGCAGAGCTACAAGTACTGCTTCAAGAAGTCGAGGAAGAGAAGAGTCGTTAGCTAGTAATGAAGAGGACTTTTCTTATTGCTGGTCACCTGTGGCAGTGCACCTCATGCCATGGTGGAGCCATGTTGAAGGCAGCATTGGAATTCGGCAATATGTTCATGCACTGCCATTTATTTGA

Protein sequence

>MsG0080049069.01.T01

MESAEAVRVPNRSRATSTASRSRGREESLASNEEDFSYCWSPVAVHLMPWWSHVEGSIGIRQYVHALPFI*