AlfalfaGEDB | Msa0842730

M. sativa cultivar zhongmu-4 / Msa0842730

KEGG: -
GO: -
PFAM: PF02362.24

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
Msa0842730	XP_024639353.1	58.779	131	52	1	74	202	1	131	1.10e-45	157

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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
Msa0842730	A0A2Z6MM48	31.980	197	130	3	2	197	17	210	6.04e-28	114

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TFs/TRs:

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Gene ID	Type	Classification
Msa0842730	TF	B3

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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
Msa0842730	MtrunA17_Chr5g0393501	30.500	200	132	3	2	197	43	239	4.57e-25	98.2
Msa0842730	MtrunA17_Chr4g0044671	31.156	199	126	8	4	198	28	219	3.77e-19	82.0
Msa0842730	MtrunA17_Chr4g0034781	30.653	199	127	8	4	198	22	213	2.71e-18	79.3

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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 48 sgRNAs with CRISPR-Local

Find 52 sgRNAs with CRISPR-GE

CRISPR-Local

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CRISPR-Local
sgRNA_sequence	on_target_score	Position	Region
AAGAAATCATTGAAATCAGG+TGG	0.573987	5_4:-20025189	None:intergenic
AATCATTGAAATCAGGTGGA+AGG	0.583795	5_4:-20025185	None:intergenic
AATGGATGCGAATTCTGAAC+TGG	0.528366	5_4:+20025052	Msa0842730:CDS
AATTCGCATCCATTTGCAAA+GGG	0.485601	5_4:-20025043	None:intergenic
ACAATGTGTCTTTAGGAATT+TGG	0.142567	5_4:+20024702	None:intergenic
ACAATTCAGCTACTCTGCCA+CGG	0.617034	5_4:+20024820	Msa0842730:CDS
ACGACCAGCCAATATCAGGC+TGG	0.644275	5_4:+20025339	Msa0842730:CDS
ACTCACCAGCAAGCTAACGA+AGG	0.624585	5_4:+20025299	Msa0842730:CDS
ACTCTGCCACGGTTAACTAA+TGG	0.484622	5_4:+20024831	Msa0842730:CDS
ACTGATGAATTTGATGACGT+GGG	0.707740	5_4:+20024744	Msa0842730:CDS

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CRISPR-GE

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sgRNA_sequence	Strand	Position	Region	GC_content
CAAATTCATCAGTGAATTTG+GGG	-	chr5_4:20024737-20024756	None:intergenic	30.0%
TTTCATTGTTGTCTAAATGC+AGG	+	chr5_4:20025161-20025180	Msa0842730:intron	30.0%
AAGAAATCATTGAAATCAGG+TGG	-	chr5_4:20025192-20025211	None:intergenic	30.0%
GATTATTTGACCATTGTCAT+TGG	-	chr5_4:20025247-20025266	None:intergenic	30.0%
TGGAATTTAATTGACGCTGA+AGG	+	chr5_4:20024774-20024793	Msa0842730:CDS	35.0%
CTGATTCTGTTTAGCTATGT+TGG	+	chr5_4:20024897-20024916	Msa0842730:CDS	35.0%
AATTCGCATCCATTTGCAAA+GGG	-	chr5_4:20025046-20025065	None:intergenic	35.0%
AATCATTGAAATCAGGTGGA+AGG	-	chr5_4:20025188-20025207	None:intergenic	35.0%
ACTGCTATTCATTACCAAGT+TGG	+	chr5_4:20025270-20025289	Msa0842730:CDS	35.0%
GCGTCAATTAAATTCCAGAC+TGG	-	chr5_4:20024771-20024790	None:intergenic	40.0%

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Chromosome	Type	Strat	End	Strand	Name
chr5_4	gene	20024717	20025434	20024717	ID=Msa0842730;Name=Msa0842730
chr5_4	mRNA	20024717	20025434	20024717	ID=Msa0842730-mRNA-1;Parent=Msa0842730;Name=Msa0842730-mRNA-1;_AED=0.00;_eAED=0.00;_QI=0\|1\|0\|1\|1\|1\|2\|0\|202
chr5_4	exon	20024717	20025073	20024717	ID=Msa0842730-mRNA-1:exon:8271;Parent=Msa0842730-mRNA-1
chr5_4	exon	20025183	20025434	20025183	ID=Msa0842730-mRNA-1:exon:8272;Parent=Msa0842730-mRNA-1
chr5_4	CDS	20024717	20025073	20024717	ID=Msa0842730-mRNA-1:cds;Parent=Msa0842730-mRNA-1
chr5_4	CDS	20025183	20025434	20025183	ID=Msa0842730-mRNA-1:cds;Parent=Msa0842730-mRNA-1

Gene Sequence

>Msa0842730

GAATTTGGAGAAATAAACCCCAAATTCACTGATGAATTTGATGACGTGGGTCCAGTCTGGAATTTAATTGACGCTGAAGGAAATTCTCATGAGGTTACATTCAACAATTCAGCTACTCTGCCACGGTTAACTAATGGCTGGACAGACTTGAGACAATTTTACCAGTTTGAAGGCATGAAGCTGATTCTGTTTAGCTATGTTGGTCAAAGTAGATTTGTTATCACACTTGGGAATACAATTGAGGACACTAATGATATACCTACGTACCATAGCAGAAGCACAAGACTTCAGAATAACAAGTCTTTCTTTTTTGACATCACATTGACCCCTTTGCAAATGGATGCGAATTCTGAACTGGTCCTTCCACCTGATTTCAATGATTTCTTATGGAATGGTGACTTTGATTATTTGTTCCTCTCCAATGACAATGGTCAAATAATCAAGACTGCTATTCATTACCAAGTTGGTGACTCACTCACCAGCAAGCTAACGAAGGGTTGGGAGGAATTCTGCACGACCAGCCAATATCAGGCTGGAGATGTGCTGCGTTTCAAGTTCTTTGATGGGAAACTGAAGAATTTTGTTCATGTCTTTATAAACAATGCTTAG

Protein sequence

>Msa0842730

EFGEINPKFTDEFDDVGPVWNLIDAEGNSHEVTFNNSATLPRLTNGWTDLRQFYQFEGMKLILFSYVGQSRFVITLGNTIEDTNDIPTYHSRSTRLQNNKSFFFDITLTPLQMDANSELVLPPDFNDFLWNGDFDYLFLSNDNGQIIKTAIHYQVGDSLTSKLTKGWEEFCTTSQYQAGDVLRFKFFDGKLKNFVHVFINNA*