AlfalfaGEDB | Msa0356480

M. sativa cultivar zhongmu-4 / Msa0356480

KEGG: -
GO: -
PFAM: -

Nr:

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Query id	Subject id	identity %	alignment length	mis matches	gap openings	q. start	q. end	s. start	s. end	e-value	bit score
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Swissprot:

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Query id	Subject id	identity %	alignment length	mis matches	gap openings	q. start	q. end	s. start	s. end	e-value	bit score
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Trembl:

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Query id	Subject id	identity %	alignment length	mis matches	gap openings	q. start	q. end	s. start	s. end	e-value	bit score
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TFs/TRs:

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Gene ID	Type	Classification
Msa0356480	TF	C2H2

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Protein Kinases:

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Gene ID	Type	Classification
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Network:

Co-expression Network

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Gene1	Gene2	correlation coefficient	p_value	FDR
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PPI

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Gene1	Gene2	Type
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Query id	Subject id	identity %	alignment length	mismatches	gap openings	q. start	q. end	s. start	s. end	e-value	bit score
Msa0356480	MtrunA17_Chr4g0019481	42.609	115	46	5	3	115	7	103	8.16e-12	59.3

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Query id	Subject id	identity %	alignment length	mismatches	gap openings	q. start	q. end	s. start	s. end	e-value	bit score
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Find 45 sgRNAs with CRISPR-Local

Find 244 sgRNAs with CRISPR-GE

CRISPR-Local

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CRISPR-Local
sgRNA_sequence	on_target_score	Position	Region
AAATGCATCACCACCACGCG+AGG	0.587449	3_1:+35587667	Msa0356480:CDS
AAATGCATCGCCACCACACG+AGG	0.587606	3_1:+35585658	Msa0356480:CDS
AACAACCAAATTATCATAAT+TGG	0.235678	3_1:+35585552	Msa0356480:CDS
AAGGTCAAAAGTTGAAACAT+TGG	0.496803	3_1:-35587714	None:intergenic
AAGTCGAACTGTCCCTCGCG+TGG	0.618023	3_1:-35587680	None:intergenic
AAGTCGAACTGTCCCTCGTG+TGG	0.616466	3_1:-35585671	None:intergenic
AAGTTAAAACATTGGGAGGT+TGG	0.474064	3_1:-35585697	None:intergenic
AAGTTGAAACATTGGGAGGT+TGG	0.524458	3_1:-35587706	None:intergenic
AATGCATCACCACCACGCGA+GGG	0.676679	3_1:+35587668	Msa0356480:CDS
AATGCATCGCCACCACACGA+GGG	0.726560	3_1:+35585659	Msa0356480:CDS

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CRISPR-GE

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sgRNA_sequence	Strand	Position	Region	GC_content
CTAATACATAATTTGGGTGA+TGG	-	chr3_1:35585430-35585449	None:intergenic	30.0%
AGTTGAGTCTGATTATTTGT+TGG	-	chr3_1:35585494-35585513	None:intergenic	30.0%
TCAAAAGTTAAAACATTGGG+AGG	-	chr3_1:35585704-35585723	None:intergenic	30.0%
ATCCTCTACTATTACACATT+AGG	+	chr3_1:35585879-35585898	Msa0356480:intron	30.0%
AACCTAATGTGTAATAGTAG+AGG	-	chr3_1:35585884-35585903	None:intergenic	30.0%
TAATTGGATTATTACGTGTG+TGG	+	chr3_1:35586149-35586168	Msa0356480:intron	30.0%
GACGAAAATAATTCTTACGA+AGG	+	chr3_1:35586663-35586682	Msa0356480:intron	30.0%
TGTTAAAGAAGTTAGGATGT+CGG	-	chr3_1:35586823-35586842	None:intergenic	30.0%
CTTCTTTAACAAGAGTTAAG+AGG	+	chr3_1:35586832-35586851	Msa0356480:intron	30.0%
AGAGAATGACTAGTGATTTA+GGG	-	chr3_1:35587305-35587324	None:intergenic	30.0%

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Chromosome	Type	Strat	End	Strand	Name
chr3_1	gene	35585356	35587760	35585356	ID=Msa0356480;Name=Msa0356480
chr3_1	mRNA	35585356	35587760	35585356	ID=Msa0356480-mRNA-1;Parent=Msa0356480;Name=Msa0356480-mRNA-1;_AED=0.19;_eAED=0.19;_QI=0\|0\|0\|1\|0\|0\|3\|0\|173
chr3_1	exon	35585356	35585455	35585356	ID=Msa0356480-mRNA-1:exon:6587;Parent=Msa0356480-mRNA-1
chr3_1	exon	35585465	35585709	35585465	ID=Msa0356480-mRNA-1:exon:6588;Parent=Msa0356480-mRNA-1
chr3_1	exon	35587584	35587760	35587584	ID=Msa0356480-mRNA-1:exon:6589;Parent=Msa0356480-mRNA-1
chr3_1	CDS	35585356	35585455	35585356	ID=Msa0356480-mRNA-1:cds;Parent=Msa0356480-mRNA-1
chr3_1	CDS	35585465	35585709	35585465	ID=Msa0356480-mRNA-1:cds;Parent=Msa0356480-mRNA-1
chr3_1	CDS	35587584	35587760	35587584	ID=Msa0356480-mRNA-1:cds;Parent=Msa0356480-mRNA-1

Gene Sequence

>Msa0356480

ATGTCTACATGTGACGAATGCGGCGCACGTTTTCCATCTCAACAACTTATGTGTGAGCATGTTATCTTTGTCCATCACCCAAATTATGTATTAGAATCTAGTCAACCCTCGGAGGCAGTACGTCGTCCAACAAATAATCAGACTCAACTCCGAAATCTGCAATATCAATATCCAAATGCACAACATCAACAACCAAATTATCATAATTGGCGACCAAATGCTCAACAACAACCTCCAAATGCCGCGCCTCCACAAGTGCGACGACGGAGTCCAAATTCTCAATATCAAGATTCAAATGCATCGCCACCACACGAGGGACAGTTCGACTTAAACCAACCTCCCAATCAACCAAATGCTCAACAACAACCTCCAACTGCTGCGCCTCCACAAGTAAGACGACGGAGTCCAAATTCTCAATATCAAGATTCAAATGCATCACCACCACGCGAGGGACAGTTCGACTTAAACCAACCTCCCAATGTTTCAACTTTTGACCTTAATAAACCAGCTACGTCAAAGTAA

Protein sequence

>Msa0356480

MSTCDECGARFPSQQLMCEHVIFVHHPNYVLESSQPSEAVRRPTNNQTQLRNLQYQYPNAQHQQPNYHNWRPNAQQQPPNAAPPQVRRRSPNSQYQDSNASPPHEGQFDLNQPPNQPNAQQQPPTAAPPQVRRRSPNSQYQDSNASPPREGQFDLNQPPNVSTFDLNKPATSK*