AlfalfaGEDB | Msa0555960

M. sativa cultivar zhongmu-4 / Msa0555960

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
Msa0555960	AES90003.1	98.824	85	1	0	1	85	1	85	2.06e-53	171

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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
Msa0555960	G7JHI6	98.824	85	1	0	1	85	1	85	9.85e-54	171

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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
Msa0008850	Msa0555960	0.804738	1.870023e-49	-8.615850e-47
Msa0018470	Msa0555960	0.801777	7.671249e-49	-8.615850e-47
Msa0047470	Msa0555960	0.805785	1.128597e-49	-8.615850e-47
Msa0068410	Msa0555960	0.800929	1.144470e-48	-8.615850e-47
Msa0096020	Msa0555960	0.818207	2.211134e-52	-8.615850e-47
Msa0103060	Msa0555960	0.810060	1.390788e-50	-8.615850e-47
Msa0158610	Msa0555960	0.809396	1.932148e-50	-8.615850e-47
Msa0197730	Msa0555960	0.823207	1.568585e-53	-8.615850e-47
Msa0198440	Msa0555960	0.808925	2.437456e-50	-8.615850e-47
Msa0210880	Msa0555960	0.825589	4.316762e-54	-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
Msa0555960	MtrunA17_Chr4g0043181	98.824	85	1	0	1	85	1	85	1.90e-57	171
Msa0555960	MtrunA17_Chr4g0043191	80.899	89	13	1	1	85	1	89	1.86e-36	118
Msa0555960	MtrunA17_Chr8g0376661	76.136	88	17	1	1	84	1	88	9.45e-36	116
Msa0555960	MtrunA17_Chr5g0434291	73.034	89	20	1	1	85	1	89	3.72e-34	112

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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
Msa0555960	AT1G30260.1	57.447	47	19	1	1	47	1	46	4.53e-14	62.0

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Find 14 sgRNAs with CRISPR-Local

Find 20 sgRNAs with CRISPR-GE

CRISPR-Local

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CRISPR-Local
sgRNA_sequence	on_target_score	Position	Region
AAACAATTACCGAAGATGAT+AGG	0.349387	4_1:+53969833	Msa0555960:CDS
AACAATTACCGAAGATGATA+GGG	0.480270	4_1:+53969834	Msa0555960:CDS
AACAGTTGCATTGGTAGAAG+AGG	0.536442	4_1:-53969920	None:intergenic
AACTTCCTTCAGGAAGTCCC+TGG	0.520126	4_1:-53969947	None:intergenic
ATCACACTTACATACTGTGG+TGG	0.669826	4_1:-53969784	None:intergenic
CAATGCAACTGTTAACACCA+GGG	0.715445	4_1:+53969930	Msa0555960:CDS
CACAGTATGTAAGTGTGATG+AGG	0.628878	4_1:+53969788	Msa0555960:CDS
CCAATGCAACTGTTAACACC+AGG	0.562296	4_1:+53969929	Msa0555960:CDS
CCTGGTGTTAACAGTTGCAT+TGG	0.525174	4_1:-53969929	None:intergenic
CTCATCACACTTACATACTG+TGG	0.654805	4_1:-53969787	None:intergenic

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CRISPR-GE

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sgRNA_sequence	Strand	Position	Region	GC_content
GCATAGAACAACAAAAATGA+TGG	+	chr4_1:53969810-53969829	Msa0555960:CDS	30.0%
AAACAATTACCGAAGATGAT+AGG	+	chr4_1:53969833-53969852	Msa0555960:CDS	30.0%
AACAATTACCGAAGATGATA+GGG	+	chr4_1:53969834-53969853	Msa0555960:CDS	30.0%
ATCACACTTACATACTGTGG+TGG	-	chr4_1:53969787-53969806	None:intergenic	40.0%
CTCATCACACTTACATACTG+TGG	-	chr4_1:53969790-53969809	None:intergenic	40.0%
CACAGTATGTAAGTGTGATG+AGG	+	chr4_1:53969788-53969807	Msa0555960:CDS	40.0%
CAATGCAACTGTTAACACCA+GGG	+	chr4_1:53969930-53969949	Msa0555960:CDS	40.0%
TGGCAAATTCTCGCATTGCA+AGG	+	chr4_1:53969743-53969762	Msa0555960:CDS	45.0%
CCAATGCAACTGTTAACACC+AGG	+	chr4_1:53969929-53969948	Msa0555960:CDS	45.0%
GTGTTCTGTGAACTTCCTTC+AGG	-	chr4_1:53969960-53969979	None:intergenic	45.0%

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Chromosome	Type	Strat	End	Strand	Name
chr4_1	gene	53969742	53969999	53969742	ID=Msa0555960;Name=Msa0555960
chr4_1	mRNA	53969742	53969999	53969742	ID=Msa0555960-mRNA-1;Parent=Msa0555960;Name=Msa0555960-mRNA-1;_AED=0.29;_eAED=0.29;_QI=0\|-1\|0\|1\|-1\|1\|1\|0\|85
chr4_1	exon	53969742	53969999	53969742	ID=Msa0555960-mRNA-1:exon:15777;Parent=Msa0555960-mRNA-1
chr4_1	CDS	53969742	53969999	53969742	ID=Msa0555960-mRNA-1:cds;Parent=Msa0555960-mRNA-1

Gene Sequence	>Msa0555960 ATGGCAAATTCTCGCATTGCAAGGTTTTTCATGGAGGTGGCACCACCACAGTATGTAAGTGTGATGAGGCATAGAACAACAAAAATGATGGAAACAATTACCGAAGATGATAGGGAAATCAACTCAAATGATAGTGTAATTTCACCACCAAAAAGTTCATTAGCTTCATCACTTGCTGCCTCTTCTACCAATGCAACTGTTAACACCAGGGACTTCCTGAAGGAAGTTCACAGAACACTCTCAAGTTTGAATCACTGA
Protein sequence	>Msa0555960 MANSRIARFFMEVAPPQYVSVMRHRTTKMMETITEDDREINSNDSVISPPKSSLASSLAASSTNATVNTRDFLKEVHRTLSSLNH*