AlfalfaGEDB | Msa0485850

M. sativa cultivar zhongmu-4 / Msa0485850

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
Msa0485850	XP_003600586.1	98.592	71	1	0	1	71	1	71	2.46e-42	142

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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
Msa0485850	G7J780	98.592	71	1	0	1	71	1	71	1.17e-42	142

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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
Msa0001450	Msa0485850	0.821647	3.612645e-53	-8.615850e-47
Msa0004840	Msa0485850	0.803338	3.657112e-49	-8.615850e-47
Msa0008090	Msa0485850	0.831147	1.968120e-55	-8.615850e-47
Msa0008410	Msa0485850	0.802225	6.206419e-49	-8.615850e-47
Msa0008840	Msa0485850	0.807753	4.333280e-50	-8.615850e-47
Msa0020390	Msa0485850	0.842632	2.296258e-58	-8.615850e-47
Msa0023000	Msa0485850	0.807887	4.057724e-50	-8.615850e-47
Msa0029260	Msa0485850	0.803138	4.021890e-49	-8.615850e-47
Msa0032260	Msa0485850	0.800830	1.199041e-48	-8.615850e-47
Msa0037840	Msa0485850	0.809147	2.184941e-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
Msa0485850	MtrunA17_Chr3g0109351	98.592	71	1	0	1	71	1	71	2.26e-46	142

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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
Msa0485850	AT3G14430.1	65.079	63	21	1	9	71	15	76	1.08e-24	87.8

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Find 36 sgRNAs with CRISPR-Local

Find 180 sgRNAs with CRISPR-GE

CRISPR-Local

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CRISPR-Local
sgRNA_sequence	on_target_score	Position	Region
AAAATATGTGAAATCATCAC+AGG	0.600529	3_4:-3651228	None:intergenic
AAACATCAATTCCTTTAAAA+GGG	0.443719	3_4:-3651163	None:intergenic
AAACTCAGCATTTCTTACGA+AGG	0.638252	3_4:-3650025	None:intergenic
AAAGGAATTGATGTTTGGAC+AGG	0.475928	3_4:+3651170	Msa0485850:exon
ACAAATACTTGATTGTATTC+AGG	0.336136	3_4:-3651109	None:intergenic
AGAGAACAGCGATGGCTAGA+CGG	0.584999	3_4:+3649947	Msa0485850:exon
AGCTTAGGAACAGAAATGCT+CGG	0.563945	3_4:+3651484	Msa0485850:three_prime_UTR
AGGTTGGACGTCATCCATGG+AGG	0.746774	3_4:+3651190	Msa0485850:three_prime_UTR
ATCTCGTTTCGGTTTAGCTT+AGG	0.404307	3_4:+3651469	Msa0485850:three_prime_UTR
ATTAACATCATTCAAATCTG+TGG	0.614330	3_4:-3651343	None:intergenic

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CRISPR-GE

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sgRNA_sequence	Strand	Position	Region	GC_content
TGAAGAAGAAAAGAAAGAAG+AGG	-	chr3_4:3650056-3650075	None:intergenic	30.0%
ATTCTGTTTCCAATTGGAAT+TGG	+	chr3_4:3650316-3650335	Msa0485850:intron	30.0%
ACTGATGAAAACAACTTACA+AGG	-	chr3_4:3650494-3650513	None:intergenic	30.0%
TGAAATTACAAGACAAACAG+AGG	-	chr3_4:3651037-3651056	None:intergenic	30.0%
TCTCATTCTATATCTCGTTT+CGG	+	chr3_4:3651458-3651477	Msa0485850:three_prime_UTR	30.0%
TTGAGAACTGAGTATGAATA+GGG	-	chr3_4:3651511-3651530	None:intergenic	30.0%
TTTGAGAACTGAGTATGAAT+AGG	-	chr3_4:3651512-3651531	None:intergenic	30.0%
TCATACTCAGTTCTCAAATT+TGG	+	chr3_4:3651514-3651533	Msa0485850:three_prime_UTR	30.0%
TGAAGAAGAAAAGAAAGAAG+AGG	-	chr3_4:3650056-3650075	None:intergenic	30.0%
ATTCTGTTTCCAATTGGAAT+TGG	+	chr3_4:3650316-3650335	Msa0485850:intron	30.0%

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Chromosome	Type	Strat	End	Strand	Name
chr3_4	gene	3649890	3651623	3649890	ID=Msa0485850;Name=Msa0485850
chr3_4	mRNA	3649890	3651623	3649890	ID=Msa0485850-mRNA-1;Parent=Msa0485850;Name=Msa0485850-mRNA-1;_AED=0.02;_eAED=0.02;_QI=68\|1\|1\|1\|1\|1\|2\|452\|71
chr3_4	exon	3649890	3650101	3649890	ID=Msa0485850-mRNA-1:exon:1312;Parent=Msa0485850-mRNA-1
chr3_4	exon	3651100	3651623	3651100	ID=Msa0485850-mRNA-1:exon:1313;Parent=Msa0485850-mRNA-1
chr3_4	five_prime_UTR	3649890	3649957	3649890	ID=Msa0485850-mRNA-1:five_prime_utr;Parent=Msa0485850-mRNA-1
chr3_4	CDS	3649958	3650101	3649958	ID=Msa0485850-mRNA-1:cds;Parent=Msa0485850-mRNA-1
chr3_4	CDS	3651100	3651171	3651100	ID=Msa0485850-mRNA-1:cds;Parent=Msa0485850-mRNA-1
chr3_4	three_prime_UTR	3651172	3651623	3651172	ID=Msa0485850-mRNA-1:three_prime_utr;Parent=Msa0485850-mRNA-1

Gene Sequence	>Msa0485850 ATGGCTAGACGGCGAGTCGAGACTCGGAACGAGTCGTTATTGACTCGGATTGTTGATTCCATTTTCGCCTTCGTAAGAAATGCTGAGTTTGAGATCCTCTTCTTTCTTTTCTTCTTCATCGCTTATATTCTCTTCAAAGACATCACATCAAGACCTGAATACAATCAAGTATTTGTGAAGAAGCCTGGTGGTGGACCAGAGCTTTGGCCCTTTTAA
Protein sequence	>Msa0485850 MARRRVETRNESLLTRIVDSIFAFVRNAEFEILFFLFFFIAYILFKDITSRPEYNQVFVKKPGGGPELWPF*