AlfalfaGEDB | Msa0199090

M. sativa cultivar zhongmu-4 / Msa0199090

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
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Protein Kinases:

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Network:

Co-expression Network

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Gene1	Gene2	correlation coefficient	p_value	FDR
Msa0093850	Msa0199090	0.802250	6.132730e-49	-8.615850e-47
Msa0138360	Msa0199090	0.814253	1.692832e-51	-8.615850e-47
Msa0147980	Msa0199090	0.807590	4.692127e-50	-8.615850e-47
Msa0188350	Msa0199090	0.802480	5.498700e-49	-8.615850e-47
Msa0199090	Msa0204960	0.810476	1.131234e-50	-8.615850e-47
Msa0199090	Msa0206690	0.826799	2.225346e-54	-8.615850e-47
Msa0199090	Msa0207700	0.819725	9.986882e-53	-8.615850e-47
Msa0199090	Msa0214550	0.800902	1.158904e-48	-8.615850e-47
Msa0199090	Msa0257490	0.807532	4.826891e-50	-8.615850e-47
Msa0199090	Msa0257520	0.809055	2.286496e-50	-8.615850e-47

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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
Msa0199090	MtrunA17_Chr4g0019701	33.566	143	64	4	1	128	303	429	1.35e-13	66.2

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Find 60 sgRNAs with CRISPR-Local

Find 713 sgRNAs with CRISPR-GE

CRISPR-Local

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CRISPR-Local
sgRNA_sequence	on_target_score	Position	Region
AAACATTGAACAGCAGTTAC+TGG	0.360556	2_1:-17967634	Msa0199090:intron
AAAGGCTGTAGAGGTTGGGA+AGG	0.624057	2_1:-17968015	Msa0199090:CDS
AAATCACATATGCTCATTAT+TGG	0.253348	2_1:+17957190	None:intergenic
AACAGATAGTACAGCGAGAG+TGG	0.587937	2_1:-17965553	Msa0199090:intron
AACAGGTAGTACGGCGAGAA+TGG	0.487422	2_1:-17958890	Msa0199090:intron
AACATTGAACAGCAGTTACT+GGG	0.518054	2_1:-17967633	Msa0199090:intron
AACCATTGAACCACTTGATC+TGG	0.414296	2_1:+17965522	None:intergenic
ACAATGAACAGAAGTTGCTG+AGG	0.649089	2_1:-17968048	Msa0199090:intron
ACAATGAACAGAAGTTGCTG+AGG	0.661744	2_1:-17959569	Msa0199090:intron
ACAATGAACAGAAGTTGCTG+AGG	0.661744	2_1:-17960007	Msa0199090:intron

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CRISPR-GE

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sgRNA_sequence	Strand	Position	Region	GC_content
AGAACAAAGCAAAAATTTCC+AGG	-	chr2_1:17957176-17957195	Msa0199090:three_prime_UTR	30.0%
ACAAAGCTCAAAAACGAAAT+AGG	+	chr2_1:17957257-17957276	None:intergenic	30.0%
TACTTCTCTTTCCTATAACA+TGG	+	chr2_1:17957620-17957639	None:intergenic	30.0%
TTTAAGTCTGTTTCGGTATA+GGG	-	chr2_1:17957828-17957847	Msa0199090:intron	30.0%
AAAAAAGAAGCCCCAATTAA+AGG	+	chr2_1:17957861-17957880	None:intergenic	30.0%
AAAAAAAAGCTTCCCCAAAA+AGG	+	chr2_1:17958190-17958209	None:intergenic	30.0%
ACACTCAAATCTTTATGGTT+TGG	-	chr2_1:17958250-17958269	Msa0199090:intron	30.0%
CACTCAAATCTTTATGGTTT+GGG	-	chr2_1:17958251-17958270	Msa0199090:intron	30.0%
ACTCAAATCTTTATGGTTTG+GGG	-	chr2_1:17958252-17958271	Msa0199090:intron	30.0%
GATAATATTCAGTGTGATTG+AGG	+	chr2_1:17958364-17958383	None:intergenic	30.0%

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Chromosome	Type	Strat	End	Strand	Name
chr2_1	gene	17957155	17970595	17957155	ID=Msa0199090;Name=Msa0199090
chr2_1	mRNA	17957155	17970595	17957155	ID=Msa0199090-mRNA-1;Parent=Msa0199090;Name=Msa0199090-mRNA-1;_AED=0.04;_eAED=0.04;_QI=68\|0.87\|1\|1\|0\|0\|9\|423\|130
chr2_1	exon	17957155	17957585	17957155	ID=Msa0199090-mRNA-1:exon:7627;Parent=Msa0199090-mRNA-1
chr2_1	exon	17958833	17958907	17958833	ID=Msa0199090-mRNA-1:exon:7626;Parent=Msa0199090-mRNA-1
chr2_1	exon	17959515	17959580	17959515	ID=Msa0199090-mRNA-1:exon:7625;Parent=Msa0199090-mRNA-1
chr2_1	exon	17959983	17960018	17959983	ID=Msa0199090-mRNA-1:exon:7624;Parent=Msa0199090-mRNA-1
chr2_1	exon	17965499	17965570	17965499	ID=Msa0199090-mRNA-1:exon:7623;Parent=Msa0199090-mRNA-1
chr2_1	exon	17967596	17967643	17967596	ID=Msa0199090-mRNA-1:exon:7622;Parent=Msa0199090-mRNA-1
chr2_1	exon	17968012	17968059	17968012	ID=Msa0199090-mRNA-1:exon:7621;Parent=Msa0199090-mRNA-1
chr2_1	exon	17969249	17969313	17969249	ID=Msa0199090-mRNA-1:exon:7620;Parent=Msa0199090-mRNA-1
chr2_1	exon	17970553	17970595	17970553	ID=Msa0199090-mRNA-1:exon:7619;Parent=Msa0199090-mRNA-1
chr2_1	five_prime_UTR	17970553	17970595	17970553	ID=Msa0199090-mRNA-1:five_prime_utr;Parent=Msa0199090-mRNA-1
chr2_1	five_prime_UTR	17969289	17969313	17969289	ID=Msa0199090-mRNA-1:five_prime_utr;Parent=Msa0199090-mRNA-1
chr2_1	CDS	17969249	17969288	17969249	ID=Msa0199090-mRNA-1:cds;Parent=Msa0199090-mRNA-1
chr2_1	CDS	17968012	17968059	17968012	ID=Msa0199090-mRNA-1:cds;Parent=Msa0199090-mRNA-1
chr2_1	CDS	17967596	17967643	17967596	ID=Msa0199090-mRNA-1:cds;Parent=Msa0199090-mRNA-1
chr2_1	CDS	17965499	17965570	17965499	ID=Msa0199090-mRNA-1:cds;Parent=Msa0199090-mRNA-1
chr2_1	CDS	17959983	17960018	17959983	ID=Msa0199090-mRNA-1:cds;Parent=Msa0199090-mRNA-1
chr2_1	CDS	17959515	17959580	17959515	ID=Msa0199090-mRNA-1:cds;Parent=Msa0199090-mRNA-1
chr2_1	CDS	17958833	17958907	17958833	ID=Msa0199090-mRNA-1:cds;Parent=Msa0199090-mRNA-1
chr2_1	CDS	17957578	17957585	17957578	ID=Msa0199090-mRNA-1:cds;Parent=Msa0199090-mRNA-1
chr2_1	three_prime_UTR	17957155	17957577	17957155	ID=Msa0199090-mRNA-1:three_prime_utr;Parent=Msa0199090-mRNA-1

Gene Sequence

>Msa0199090

ATGGCTCAACAGTTTAATGCTATGATGAAAGAAAAAGAAAAAGTTGCTGAGGAGCCAAGAGTAAAGGCTGTAGAGGTTGGGAAGGATCCAGTTACTGGGAAGCCAATCTTCAAGGGTGTAGTGGTTGGGAAGGATCATAGTACAGCGAGAGTGGCTGATACGCCAGATCAAGTGGTTCAATGGTTTAATGATATCATTAAAGAAGAAAAAGTTGCTGAGGAGGCACAACTAAAGGGCGGAAACCAAGTTGCTGAGGAGGCACAACTAAAGGGCGGAGTGTTTATCAACCCGTACATGACTGGGAAGGACCGTAGTACGGCGAGAATGGTTGATTGGACGGATCAGTTGGATCAACATTATAATGCTTTCCTTAAAGAAAAAGAAACCAGCTGA

Protein sequence

>Msa0199090

MAQQFNAMMKEKEKVAEEPRVKAVEVGKDPVTGKPIFKGVVVGKDHSTARVADTPDQVVQWFNDIIKEEKVAEEAQLKGGNQVAEEAQLKGGVFINPYMTGKDRSTARMVDWTDQLDQHYNAFLKEKETS*