AlfalfaGEDB | Msa0311900

M. sativa cultivar zhongmu-4 / Msa0311900

KEGG: -
GO: -
PFAM: PF12609.11

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
Msa0311900	AFK42939.1	94.667	75	4	0	1	75	15	89	3.22e-44	147

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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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Gene ID	Type	Classification
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Network:

Co-expression Network

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Gene1	Gene2	correlation coefficient	p_value	FDR
Msa0029700	Msa0311900	0.808080	3.692569e-50	-8.615850e-47
Msa0080020	Msa0311900	0.817040	4.052779e-52	-8.615850e-47
Msa0110240	Msa0311900	0.800030	1.744828e-48	-8.615850e-47
Msa0124960	Msa0311900	0.814659	1.376641e-51	-8.615850e-47
Msa0145430	Msa0311900	0.800389	1.474997e-48	-8.615850e-47
Msa0154730	Msa0311900	0.816138	6.454020e-52	-8.615850e-47
Msa0191260	Msa0311900	0.954006	7.791986e-112	-8.615850e-47
Msa0192890	Msa0311900	0.802447	5.586555e-49	-8.615850e-47
Msa0311900	Msa0316140	0.824518	7.729809e-54	-8.615850e-47
Msa0311900	Msa0342590	0.806083	9.771714e-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
Msa0311900	MtrunA17_Chr2g0281091	94.667	75	4	0	1	75	15	89	2.96e-48	147
Msa0311900	MtrunA17_Chr2g0323571	42.105	76	38	3	3	75	19	91	1.00e-11	55.1
Msa0311900	MtrunA17_Chr2g0323671	42.105	76	38	3	3	75	19	91	1.99e-11	54.3
Msa0311900	MtrunA17_Chr2g0323631	42.105	76	38	3	3	75	19	91	2.95e-11	53.9

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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 12 sgRNAs with CRISPR-Local

Find 9 sgRNAs with CRISPR-GE

CRISPR-Local

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CRISPR-Local
sgRNA_sequence	on_target_score	Position	Region
AACGTGCTGAAGAGTCTCTT+AGG	0.527974	2_4:+6862642	Msa0311900:CDS
AACTGCAATGAGAACGCTTC+AGG	0.302945	2_4:+6862466	None:intergenic
AACTTCTTCAAAGCAAGTTA+AGG	0.411883	2_4:+6862544	Msa0311900:CDS
AATTCATCTTCTACTTTCAA+AGG	0.482157	2_4:+6862599	Msa0311900:CDS
ACTGCAATGAGAACGCTTCA+GGG	0.509342	2_4:+6862467	None:intergenic
ATGGATTTCTTAGATCAATT+TGG	0.263324	2_4:-6862692	None:intergenic
CAAAGGTAGCAACAGTGACA+AGG	0.606257	2_4:+6862616	Msa0311900:CDS
CTGTCATGTACTTGAGCTGC+TGG	0.406277	2_4:+6862666	Msa0311900:CDS
CTTCAAAGCAAGTTAAGGCT+AGG	0.439718	2_4:+6862549	Msa0311900:CDS
GTCATGTACTTGAGCTGCTG+GGG	0.565171	2_4:+6862668	Msa0311900:CDS

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CRISPR-GE

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badsite warning	sgRNA_sequence	Strand	Position	Region	GC_content
	AACTTCTTCAAAGCAAGTTA+AGG	+	chr2_4:6862544-6862563	Msa0311900:CDS	30.0%
	TTCAAAGCAAGTTAAGGCTA+GGG	+	chr2_4:6862550-6862569	Msa0311900:CDS	35.0%
	CTTCAAAGCAAGTTAAGGCT+AGG	+	chr2_4:6862549-6862568	Msa0311900:CDS	40.0%
	CAAAGGTAGCAACAGTGACA+AGG	+	chr2_4:6862616-6862635	Msa0311900:CDS	45.0%
	AACGTGCTGAAGAGTCTCTT+AGG	+	chr2_4:6862642-6862661	Msa0311900:CDS	45.0%
	TGTCATGTACTTGAGCTGCT+GGG	+	chr2_4:6862667-6862686	Msa0311900:CDS	45.0%
	CTGTCATGTACTTGAGCTGC+TGG	+	chr2_4:6862666-6862685	Msa0311900:CDS	50.0%
	GTCATGTACTTGAGCTGCTG+GGG	+	chr2_4:6862668-6862687	Msa0311900:CDS	50.0%
!	AATTCATCTTCTACTTTCAA+AGG	+	chr2_4:6862599-6862618	Msa0311900:CDS	25.0%

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Chromosome	Type	Strat	End	Strand	Name
chr2_4	gene	6862473	6862700	6862473	ID=Msa0311900;Name=Msa0311900
chr2_4	mRNA	6862473	6862700	6862473	ID=Msa0311900-mRNA-1;Parent=Msa0311900;Name=Msa0311900-mRNA-1;_AED=0.09;_eAED=0.09;_QI=0\|-1\|0\|1\|-1\|1\|1\|0\|75
chr2_4	exon	6862473	6862700	6862473	ID=Msa0311900-mRNA-1:exon:2615;Parent=Msa0311900-mRNA-1
chr2_4	CDS	6862473	6862700	6862473	ID=Msa0311900-mRNA-1:cds;Parent=Msa0311900-mRNA-1

Gene Sequence	>Msa0311900 ATGAGAACGCTTCAGGGCATGAAAGATCAAAGCTCAAAGTGTGATTCAACAATCAAGTCTATAAGAGATTCAACTTCTTCAAAGCAAGTTAAGGCTAGGGTTTTCTCAAATAATACTACTTTTGAAAATTCATCTTCTACTTTCAAAGGTAGCAACAGTGACAAGGTAAAACGTGCTGAAGAGTCTCTTAGGACTGTCATGTACTTGAGCTGCTGGGGTCCAAATTGA
Protein sequence	>Msa0311900 MRTLQGMKDQSSKCDSTIKSIRDSTSSKQVKARVFSNNTTFENSSSTFKGSNSDKVKRAEESLRTVMYLSCWGPN*