AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar ZhongmuNo.1 / MsG0480023221.01


Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsG0480023221.01.T01 MTR_8g089640 100.000 64 0 0 1 64 1 64 5.89e-42 130
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsG0480023221.01.T01 AT1G67785 77.419 62 13 1 1 62 1 61 2.32e-30 101

Find 19 sgRNAs with CRISPR-Local

Find 33 sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
GGGTCAGAGAACAATTAATT+CGG 0.374447 4:-82313418 MsG0480023221.01.T01:CDS
CGCTCTTCATCAGGACGAAA+AGG 0.423832 4:-82313806 MsG0480023221.01.T01:intron
GTGAAGGTTGCAACGTACTT+TGG 0.431142 4:-82313886 MsG0480023221.01.T01:CDS
CCATGGACAAAGTCCATGTC+TGG 0.443394 4:-82313831 MsG0480023221.01.T01:CDS
TGTCTGGATCGCTCTTCATC+AGG 0.451814 4:-82313815 MsG0480023221.01.T01:CDS
GGTCAGAGAACAATTAATTC+GGG 0.478951 4:-82313417 MsG0480023221.01.T01:CDS
AACGTACTTTGGAATGTCCT+TGG 0.500806 4:-82313875 MsG0480023221.01.T01:CDS
AGAAGGAAGCGGAGATCAGA+AGG 0.504547 4:-82313439 MsG0480023221.01.T01:CDS
CCAGACATGGACTTTGTCCA+TGG 0.515687 4:+82313831 None:intergenic
TGTGTTGCAGCAAGAGAGGT+TGG 0.535566 4:-82313462 MsG0480023221.01.T01:intron
AGAGAGGTTGGAGAAGGAAG+CGG 0.542879 4:-82313450 MsG0480023221.01.T01:CDS
CCAGAAAACGAATGCTGCCA+AGG 0.569490 4:+82313858 None:intergenic
ATATGAAGAATCCTTCTGAC+TGG 0.574630 4:+82313388 None:intergenic
ATAAAGATTCAAAATGGTGA+AGG 0.596896 4:-82313902 None:intergenic
GCAGCAAGAGAGGTTGGAGA+AGG 0.597767 4:-82313456 MsG0480023221.01.T01:intron
GATGAAGAGCGATCCAGACA+TGG 0.613241 4:+82313818 None:intergenic
TCGGGAGCAAGCCAGTCAGA+AGG 0.625525 4:-82313399 MsG0480023221.01.T01:CDS
GAAGGAAGCGGAGATCAGAA+GGG 0.632205 4:-82313438 MsG0480023221.01.T01:CDS
GTAATGTGTTGCAGCAAGAG+AGG 0.669103 4:-82313466 MsG0480023221.01.T01:intron

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
!!! AATATTTTGTGTTATTTAAT+TGG - Chr4:82313784-82313803 MsG0480023221.01.T01:intron 10.0%
!! AGTGAAATTGAACTTAAATA+TGG + Chr4:82313570-82313589 None:intergenic 20.0%
!! ATTAATTTCACTCATTTAAG+AGG - Chr4:82313607-82313626 MsG0480023221.01.T01:intron 20.0%
! AATATGGAAATTATCCGAAA+AGG + Chr4:82313554-82313573 None:intergenic 25.0%
! TCGTTATAAGATGAAATCTA+GGG + Chr4:82313649-82313668 None:intergenic 25.0%
! TTCGTTATAAGATGAAATCT+AGG + Chr4:82313650-82313669 None:intergenic 25.0%
ATGAAGAATTCGAAGAAGTA+AGG + Chr4:82313502-82313521 None:intergenic 30.0%
TGAAGAATTCGAAGAAGTAA+GGG + Chr4:82313501-82313520 None:intergenic 30.0%
! TGTGGTGAATTTGTTCTTTA+AGG - Chr4:82313713-82313732 MsG0480023221.01.T01:intron 30.0%
!!! CAATTCTTGCTATTCCTTTT+CGG - Chr4:82313537-82313556 MsG0480023221.01.T01:intron 30.0%
ATATGAAGAATCCTTCTGAC+TGG + Chr4:82313889-82313908 None:intergenic 35.0%
GAAGAATTCGAAGAAGTAAG+GGG + Chr4:82313500-82313519 None:intergenic 35.0%
GGGTCAGAGAACAATTAATT+CGG - Chr4:82313856-82313875 MsG0480023221.01.T01:CDS 35.0%
GGTCAGAGAACAATTAATTC+GGG - Chr4:82313857-82313876 MsG0480023221.01.T01:CDS 35.0%
TACTTATGTGTGCAATGTTG+AGG - Chr4:82313674-82313693 MsG0480023221.01.T01:intron 35.0%
! GGTAACTGAGTTATTGACTG+TGG - Chr4:82313695-82313714 MsG0480023221.01.T01:intron 40.0%
!! AACGTACTTTGGAATGTCCT+TGG - Chr4:82313399-82313418 MsG0480023221.01.T01:CDS 40.0%
!! ATTCGTTTTCTGGCAATCCA+TGG - Chr4:82313426-82313445 MsG0480023221.01.T01:CDS 40.0%
GTAATGTGTTGCAGCAAGAG+AGG - Chr4:82313808-82313827 MsG0480023221.01.T01:CDS 45.0%
GTGAAGGTTGCAACGTACTT+TGG - Chr4:82313388-82313407 MsG0480023221.01.T01:CDS 45.0%
AGAAGGAAGCGGAGATCAGA+AGG - Chr4:82313835-82313854 MsG0480023221.01.T01:CDS 50.0%
AGAGAGGTTGGAGAAGGAAG+CGG - Chr4:82313824-82313843 MsG0480023221.01.T01:CDS 50.0%
CCAGAAAACGAATGCTGCCA+AGG + Chr4:82313419-82313438 None:intergenic 50.0%
CCAGACATGGACTTTGTCCA+TGG + Chr4:82313446-82313465 None:intergenic 50.0%
CCATGGACAAAGTCCATGTC+TGG - Chr4:82313443-82313462 MsG0480023221.01.T01:CDS 50.0%
CGCTCTTCATCAGGACGAAA+AGG - Chr4:82313468-82313487 MsG0480023221.01.T01:intron 50.0%
GAAGGAAGCGGAGATCAGAA+GGG - Chr4:82313836-82313855 MsG0480023221.01.T01:CDS 50.0%
GATGAAGAGCGATCCAGACA+TGG + Chr4:82313459-82313478 None:intergenic 50.0%
TGTCTGGATCGCTCTTCATC+AGG - Chr4:82313459-82313478 MsG0480023221.01.T01:intron 50.0%
TGTGTTGCAGCAAGAGAGGT+TGG - Chr4:82313812-82313831 MsG0480023221.01.T01:CDS 50.0%
! CCTTGGCAGCATTCGTTTTC+TGG - Chr4:82313416-82313435 MsG0480023221.01.T01:CDS 50.0%
GCAGCAAGAGAGGTTGGAGA+AGG - Chr4:82313818-82313837 MsG0480023221.01.T01:CDS 55.0%
TCGGGAGCAAGCCAGTCAGA+AGG - Chr4:82313875-82313894 MsG0480023221.01.T01:CDS 60.0%
Chromosome Type Strat End Strand Name
Chr4 gene 82313385 82313911 82313385 ID=MsG0480023221.01;Name=MsG0480023221.01
Chr4 mRNA 82313385 82313911 82313385 ID=MsG0480023221.01.T01;Parent=MsG0480023221.01;Name=MsG0480023221.01.T01;_AED=0.50;_eAED=0.51;_QI=0|0|0|1|0|0|2|0|64
Chr4 exon 82313385 82313474 82313385 ID=MsG0480023221.01.T01:exon:2611;Parent=MsG0480023221.01.T01
Chr4 exon 82313807 82313911 82313807 ID=MsG0480023221.01.T01:exon:2610;Parent=MsG0480023221.01.T01
Chr4 CDS 82313807 82313911 82313807 ID=MsG0480023221.01.T01:cds;Parent=MsG0480023221.01.T01
Chr4 CDS 82313385 82313474 82313385 ID=MsG0480023221.01.T01:cds;Parent=MsG0480023221.01.T01
Gene Sequence

>MsG0480023221.01.T01

ATGGTGAAGGTTGCAACGTACTTTGGAATGTCCTTGGCAGCATTCGTTTTCTGGCAATCCATGGACAAAGTCCATGTCTGGATCGCTCTTCATCAGGACGAAAAGCAAGAGAGGTTGGAGAAGGAAGCGGAGATCAGAAGGGTCAGAGAACAATTAATTCGGGAGCAAGCCAGTCAGAAGGATTCTTCATATTGA

Protein sequence

>MsG0480023221.01.T01

MVKVATYFGMSLAAFVFWQSMDKVHVWIALHQDEKQERLEKEAEIRRVREQLIREQASQKDSSY*