AlfalfaGEDB | Msa0396230

M. sativa cultivar zhongmu-4 / Msa0396230

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
Msa0396230	AES68802.1	86.885	61	7	1	1	60	1	61	3.32e-27	103

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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
Msa0396230	G7IVW8	86.885	61	7	1	1	60	1	61	1.59e-27	103

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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
Msa0349270	Msa0396230	0.897036	2.074822e-76	-8.615850e-47
Msa0349340	Msa0396230	0.806349	8.589515e-50	-8.615850e-47
Msa0396230	Msa0396280	0.905714	3.206805e-80	-8.615850e-47
Msa0396230	Msa1170500	0.855952	4.465675e-62	-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
Msa0396230	MtrunA17_Chr3g0082821	86.885	61	7	1	1	60	1	61	3.06e-31	103
Msa0396230	MtrunA17_Chr3g0082851	64.151	53	18	1	6	57	5	57	1.78e-18	71.6
Msa0396230	MtrunA17_Chr3g0082801	52.174	69	29	2	1	65	4	72	1.14e-16	67.0
Msa0396230	MtrunA17_Chr3g0082831	50.877	57	26	2	1	57	1	55	3.08e-13	58.2

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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 38 sgRNAs with CRISPR-Local

Find 118 sgRNAs with CRISPR-GE

CRISPR-Local

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CRISPR-Local
sgRNA_sequence	on_target_score	Position	Region
AAGAGTAATACTTACTTGTT+TGG	0.327595	3_2:+14122608	None:intergenic
AAGTTGACAACGAATAATAA+AGG	0.395846	3_2:-14121965	Msa0396230:three_prime_UTR
AATACTTACTTGTTTGGTGA+TGG	0.447759	3_2:+14122614	None:intergenic
AATATTCGGATACAACTCAT+AGG	0.432225	3_2:+14121876	None:intergenic
ACGAGTGTGAGAAGTGAATG+AGG	0.527105	3_2:+14122785	None:intergenic
AGAAGTGAATGAGGATTAGA+TGG	0.430273	3_2:+14122794	None:intergenic
AGTTGACAACGAATAATAAA+GGG	0.503141	3_2:-14121964	Msa0396230:three_prime_UTR
ATACATGCCTTATTTGAAGA+AGG	0.465132	3_2:-14122725	Msa0396230:exon
ATACTTACTTGTTTGGTGAT+GGG	0.468098	3_2:+14122615	None:intergenic
ATTATAACCTTCTTCAAATA+AGG	0.229225	3_2:+14122718	None:intergenic

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CRISPR-GE

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sgRNA_sequence	Strand	Position	Region	GC_content
GTAAATTCTCTTAAATTGGC+AGG	-	chr3_2:14122001-14122020	Msa0396230:three_prime_UTR	30.0%
AATATTCGGATACAACTCAT+AGG	+	chr3_2:14122879-14122898	None:intergenic	30.0%
GTAAATTCTCTTAAATTGGC+AGG	-	chr3_2:14122001-14122020	Msa0396230:three_prime_UTR	30.0%
AATATTCGGATACAACTCAT+AGG	+	chr3_2:14122879-14122898	None:intergenic	30.0%
AGAAGTGAATGAGGATTAGA+TGG	+	chr3_2:14121961-14121980	None:intergenic	35.0%
GTTCGTGATTATCTTGTCAA+TGG	-	chr3_2:14122072-14122091	Msa0396230:CDS	35.0%
GATTATCTTGTCAATGGAAG+TGG	-	chr3_2:14122078-14122097	Msa0396230:CDS	35.0%
TTTCACCATCGTGATAATTC+TGG	+	chr3_2:14122762-14122781	None:intergenic	35.0%
AGAAGTGAATGAGGATTAGA+TGG	+	chr3_2:14121961-14121980	None:intergenic	35.0%
GTTCGTGATTATCTTGTCAA+TGG	-	chr3_2:14122072-14122091	Msa0396230:CDS	35.0%

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Chromosome	Type	Strat	End	Strand	Name
chr3_2	gene	14121850	14122924	14121850	ID=Msa0396230;Name=Msa0396230
chr3_2	mRNA	14121850	14122924	14121850	ID=Msa0396230-mRNA-1;Parent=Msa0396230;Name=Msa0396230-mRNA-1;_AED=0.38;_eAED=0.38;_QI=181\|1\|1\|1\|1\|1\|2\|185\|72
chr3_2	exon	14121850	14122132	14121850	ID=Msa0396230-mRNA-1:exon:3274;Parent=Msa0396230-mRNA-1
chr3_2	exon	14122623	14122924	14122623	ID=Msa0396230-mRNA-1:exon:3273;Parent=Msa0396230-mRNA-1
chr3_2	five_prime_UTR	14122744	14122924	14122744	ID=Msa0396230-mRNA-1:five_prime_utr;Parent=Msa0396230-mRNA-1
chr3_2	CDS	14122623	14122743	14122623	ID=Msa0396230-mRNA-1:cds;Parent=Msa0396230-mRNA-1
chr3_2	CDS	14122035	14122132	14122035	ID=Msa0396230-mRNA-1:cds;Parent=Msa0396230-mRNA-1
chr3_2	three_prime_UTR	14121850	14122034	14121850	ID=Msa0396230-mRNA-1:three_prime_utr;Parent=Msa0396230-mRNA-1

Gene Sequence	>Msa0396230 ATGCCTTATTTGAAGAAGGTTATAATTAACCTGACTTTGCTGTTCGTGATTATCTTGTCAATGGAAGTGGCAACAACAGCAAGGGTACCACCGTGGAAAATTGAGCCCCATCACCAAACAAACGGACGCCTACTTTATATTGTTGATGATGTTCCACACGGCCACCACTATAAGTCTCCTCCTCCTCCTCGTCCGTCTCCTCCTCCTCCTCGTCCATGA
Protein sequence	>Msa0396230 MPYLKKVIINLTLLFVIILSMEVATTARVPPWKIEPHHQTNGRLLYIVDDVPHGHHYKSPPPPRPSPPPPRP*