AlfalfaGEDB | Msa0026470

M. sativa cultivar zhongmu-4 / Msa0026470

KEGG: -
GO: GO:0003674 GO:0005488 GO:0005509 GO:0043167 GO:0043169 GO:0046872
PFAM: PF13202.9

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
Msa0026470	Msa0026490	0.807288	5.439177e-50	-8.615850e-47
Msa0026470	Msa0145280	0.854102	1.539475e-61	-8.615850e-47
Msa0026470	Msa0145410	0.801800	7.590391e-49	-8.615850e-47
Msa0026470	Msa0165540	0.923372	2.895730e-89	-8.615850e-47
Msa0026470	Msa1043790	0.815033	1.137181e-51	-8.615850e-47
Msa0026470	Msa1043810	0.877516	5.902678e-69	-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
Msa0026470	MtrunA17_Chr1g0153601	92.632	95	7	0	1	95	1	95	3.61e-61	181
Msa0026470	MtrunA17_Chr1g0153581	89.474	95	10	0	1	95	1	95	2.80e-58	174
Msa0026470	MtrunA17_Chr1g0153561	84.211	95	15	0	1	95	1	95	1.20e-54	164
Msa0026470	MtrunA17_Chr1g0153611	65.957	94	31	1	1	94	1	93	2.38e-39	125
Msa0026470	MtrunA17_Chr1g0153551	46.000	100	49	1	1	95	1	100	6.52e-20	77.0
Msa0026470	MtrunA17_Chr1g0153541	40.777	103	53	1	1	95	1	103	3.39e-17	70.1

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Find 27 sgRNAs with CRISPR-Local

Find 29 sgRNAs with CRISPR-GE

CRISPR-Local

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CRISPR-Local
sgRNA_sequence	on_target_score	Position	Region
AAAATATGGCTCTCCATCCA+GGG	0.594858	1_1:+50317248	None:intergenic
AAAGCTGATGCCAACAAAGA+CGG	0.620958	1_1:-50317217	Msa0026470:CDS
AACAAAGACGGACAAATCAG+TGG	0.638335	1_1:-50317205	Msa0026470:CDS
AAGGCAGATATCAATAAAGA+CGG	0.625573	1_1:-50317325	Msa0026470:CDS
AATGCCTGTGTTTATCCCTT+CGG	0.462697	1_1:-50317413	Msa0026470:CDS
ACCGGCTTTGGTTTGTCCGA+AGG	0.472684	1_1:+50317397	None:intergenic
ACTGATTTGTCCGTCTTTGT+TGG	0.364609	1_1:+50317207	None:intergenic
AGACGGACAAATCAGTGGCG+AGG	0.670203	1_1:-50317200	Msa0026470:CDS
AGACGGTCGTTACACAAAGG+AGG	0.680084	1_1:-50317308	Msa0026470:CDS
AGCTTTCATGAAACAAAATA+TGG	0.357016	1_1:+50317234	None:intergenic

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CRISPR-GE

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sgRNA_sequence	Strand	Position	Region	GC_content
AAGGCAGATATCAATAAAGA+CGG	-	chr1_1:50317234-50317253	Msa0026470:CDS	30.0%
TGGACCAAATCAACTTCGAA+AGG	-	chr1_1:50317190-50317209	Msa0026470:CDS	40.0%
TAAAGACGGTCGTTACACAA+AGG	-	chr1_1:50317248-50317267	Msa0026470:CDS	40.0%
AAAATATGGCTCTCCATCCA+GGG	+	chr1_1:50317314-50317333	None:intergenic	40.0%
AAAGCTGATGCCAACAAAGA+CGG	-	chr1_1:50317342-50317361	Msa0026470:CDS	40.0%
AACAAAGACGGACAAATCAG+TGG	-	chr1_1:50317354-50317373	Msa0026470:CDS	40.0%
TTGTCCGAAGGGATAAACAC+AGG	+	chr1_1:50317153-50317172	None:intergenic	45.0%
TAGGTTCTTACTACCCTGGA+TGG	-	chr1_1:50317298-50317317	Msa0026470:CDS	45.0%
CAAAATATGGCTCTCCATCC+AGG	+	chr1_1:50317315-50317334	None:intergenic	45.0%
AGACGGTCGTTACACAAAGG+AGG	-	chr1_1:50317251-50317270	Msa0026470:CDS	50.0%

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Chromosome	Type	Strat	End	Strand	Name
chr1_1	gene	50317147	50317434	50317147	ID=Msa0026470;Name=Msa0026470
chr1_1	mRNA	50317147	50317434	50317147	ID=Msa0026470-mRNA-1;Parent=Msa0026470;Name=Msa0026470-mRNA-1;_AED=0.34;_eAED=0.35;_QI=0\|-1\|0\|1\|-1\|1\|1\|0\|95
chr1_1	exon	50317147	50317434	50317147	ID=Msa0026470-mRNA-1:exon:14629;Parent=Msa0026470-mRNA-1
chr1_1	CDS	50317147	50317434	50317147	ID=Msa0026470-mRNA-1:cds;Parent=Msa0026470-mRNA-1

Gene Sequence	>Msa0026470 ATGCCTGTGTTTATCCCTTCGGACAAACCAAAGCCGGTGCCTATGGACCAAATCAACTTCGAAAGGAACATTATCGAAAAATTGGAAAAGGCAGATATCAATAAAGACGGTCGTTACACAAAGGAGGAACTCAAAAAAGCTCTAAAGGATTTAGGTTCTTACTACCCTGGATGGAGAGCCATATTTTGTTTCATGAAAGCTGATGCCAACAAAGACGGACAAATCAGTGGCGAGGAAATCGACACTTTAGCTGATTATCTCCTTAGCCGTGGTTTTGGCAAGAACTAA
Protein sequence	>Msa0026470 MPVFIPSDKPKPVPMDQINFERNIIEKLEKADINKDGRYTKEELKKALKDLGSYYPGWRAIFCFMKADANKDGQISGEEIDTLADYLLSRGFGKN*