AlfalfaGEDB | Msa0205060

M. sativa cultivar zhongmu-4 / Msa0205060

KEGG: -
GO: GO:0008150 GO:0010941 GO:0043067 GO:0043069 GO:0048519 GO:0048523 GO:0050789 GO:0050794 GO:0060548 GO:0065007
PFAM: PF06943.15

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
Msa0205060	AFK36417.1	94.964	139	7	0	9	147	35	173	3.14e-90	270

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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
Msa0205060	sp\|P94077\|LSD1_ARATH	62.937	143	41	3	17	147	47	189	1.50e-48	157

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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
Msa0205060	I3S825	94.964	139	7	0	9	147	35	173	1.50e-90	270

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TFs/TRs:

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Gene ID	Type	Classification
Msa0205060	TF	C2C2-LSD

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Protein Kinases:

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Gene ID	Type	Classification
No data available in table

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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
Msa0205060	MtrunA17_Chr2g0303181	94.964	139	7	0	9	147	35	173	3.22e-94	270
Msa0205060	MtrunA17_Chr8g0381011	73.050	141	32	1	13	147	36	176	3.52e-69	206
Msa0205060	MtrunA17_Chr4g0054701	62.338	77	29	0	13	89	65	141	3.03e-31	109
Msa0205060	MtrunA17_Chr4g0047341	44.737	76	42	0	18	93	40	115	1.07e-22	87.4

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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
Msa0205060	AT4G20380.2	62.937	143	41	3	17	147	47	189	1.53e-49	157
Msa0205060	AT4G20380.7	62.937	143	41	3	17	147	47	189	1.53e-49	157
Msa0205060	AT4G20380.6	62.937	143	41	3	17	147	42	184	1.90e-49	157
Msa0205060	AT4G20380.3	62.937	143	41	3	17	147	42	184	1.90e-49	157
Msa0205060	AT4G20380.4	62.937	143	41	3	17	147	42	184	1.90e-49	157
Msa0205060	AT4G20380.1	62.937	143	41	3	17	147	42	184	1.90e-49	157
Msa0205060	AT4G20380.5	62.937	143	41	3	17	147	42	184	1.90e-49	157
Msa0205060	AT4G20380.8	53.254	169	41	3	17	147	42	210	7.53e-46	149
Msa0205060	AT4G20380.8	58.209	67	25	1	20	83	4	70	8.07e-18	76.6
Msa0205060	AT1G32540.1	61.842	76	29	0	13	88	99	174	3.03e-30	108

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Find 74 sgRNAs with CRISPR-Local

Find 322 sgRNAs with CRISPR-GE

CRISPR-Local

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CRISPR-Local
sgRNA_sequence	on_target_score	Position	Region
AAACAATTATAGATATTCAA+TGG	0.445337	2_1:+31308288	Msa0205060:three_prime_UTR
AAACTAAATGGTTACATCCA+GGG	0.578261	2_1:+31304064	Msa0205060:exon
AAACTCCTTCTTGGAATAAT+CGG	0.332582	2_1:+31303773	Msa0205060:five_prime_UTR
AAATCAATTTAAACCTTGAA+CGG	0.528512	2_1:-31308018	None:intergenic
AAATGAACCATATCCGTTGT+GGG	0.521367	2_1:+31306388	Msa0205060:CDS
AAATTTCCTGATGTGCCTGC+AGG	0.517994	2_1:+31304092	Msa0205060:CDS
AACACTATAAATCTTGTGCC+AGG	0.563885	2_1:+31304203	Msa0205060:CDS
AAGATTTATAGTGTTACAGC+AGG	0.559794	2_1:-31304195	None:intergenic
ACAACACTCATGTATCCTCA+TGG	0.578970	2_1:+31306420	Msa0205060:CDS
ACAGGTAAGCAATGTTGTTG+TGG	0.554197	2_1:+31307895	Msa0205060:intron

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CRISPR-GE

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sgRNA_sequence	Strand	Position	Region	GC_content
AAACTCCTTCTTGGAATAAT+CGG	+	chr2_1:31303773-31303792	Msa0205060:five_prime_UTR	30.0%
GGACTAATAACGATCAATAT+AGG	-	chr2_1:31303928-31303947	None:intergenic	30.0%
GGCTAAATAGACTATAGATA+TGG	-	chr2_1:31303949-31303968	None:intergenic	30.0%
ATGCATCCCTTGTTAATAAT+TGG	-	chr2_1:31303970-31303989	None:intergenic	30.0%
TAAACTAAATGGTTACATCC+AGG	+	chr2_1:31304063-31304082	Msa0205060:exon	30.0%
AAACTAAATGGTTACATCCA+GGG	+	chr2_1:31304064-31304083	Msa0205060:exon	30.0%
GAAATGTCACAACTTTATTG+TGG	+	chr2_1:31304119-31304138	Msa0205060:CDS	30.0%
AAGATTTATAGTGTTACAGC+AGG	-	chr2_1:31304198-31304217	None:intergenic	30.0%
GAGTATGATGTACATATAGT+TGG	-	chr2_1:31304455-31304474	None:intergenic	30.0%
GCTAAACAGTACAATATTTG+TGG	-	chr2_1:31304516-31304535	None:intergenic	30.0%

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Chromosome	Type	Strat	End	Strand	Name
chr2_1	gene	31303763	31308353	31303763	ID=Msa0205060;Name=Msa0205060
chr2_1	mRNA	31303763	31308353	31303763	ID=Msa0205060-mRNA-1;Parent=Msa0205060;Name=Msa0205060-mRNA-1;_AED=0.17;_eAED=0.17;_QI=308\|1\|1\|1\|1\|1\|5\|413\|147
chr2_1	exon	31303763	31304224	31303763	ID=Msa0205060-mRNA-1:exon:11018;Parent=Msa0205060-mRNA-1
chr2_1	exon	31306379	31306491	31306379	ID=Msa0205060-mRNA-1:exon:11019;Parent=Msa0205060-mRNA-1
chr2_1	exon	31307141	31307203	31307141	ID=Msa0205060-mRNA-1:exon:11020;Parent=Msa0205060-mRNA-1
chr2_1	exon	31307325	31307396	31307325	ID=Msa0205060-mRNA-1:exon:11021;Parent=Msa0205060-mRNA-1
chr2_1	exon	31307899	31308353	31307899	ID=Msa0205060-mRNA-1:exon:11022;Parent=Msa0205060-mRNA-1
chr2_1	five_prime_UTR	31303763	31304070	31303763	ID=Msa0205060-mRNA-1:five_prime_utr;Parent=Msa0205060-mRNA-1
chr2_1	CDS	31304071	31304224	31304071	ID=Msa0205060-mRNA-1:cds;Parent=Msa0205060-mRNA-1
chr2_1	CDS	31306379	31306491	31306379	ID=Msa0205060-mRNA-1:cds;Parent=Msa0205060-mRNA-1
chr2_1	CDS	31307141	31307203	31307141	ID=Msa0205060-mRNA-1:cds;Parent=Msa0205060-mRNA-1
chr2_1	CDS	31307325	31307396	31307325	ID=Msa0205060-mRNA-1:cds;Parent=Msa0205060-mRNA-1
chr2_1	CDS	31307899	31307940	31307899	ID=Msa0205060-mRNA-1:cds;Parent=Msa0205060-mRNA-1
chr2_1	three_prime_UTR	31307941	31308353	31307941	ID=Msa0205060-mRNA-1:three_prime_utr;Parent=Msa0205060-mRNA-1

Gene Sequence

>Msa0205060

ATGGTTACATCCAGGGATCTAAAATTTCCTGATGTGCCTGCAGGAATGGAAATGTCACAACTTTATTGTGGAGGTTGTAGAACATTGCTAATGCACGCACGTGGAGCTACTACCGTGAGATGTTCCTGCTGTAACACTATAAATCTTGTGCCAGATTCTAATCAAATGAACCATATCCGTTGTGGGAACTGCCGGACAACACTCATGTATCCTCATGGAGCTCCTTCAGTCAAATGTGCAGTTTGTCACTATATTACTAATGTCGATATGACCAATGGAAGGCCGCCAACTCCTGTACTGACACCTAATGAAACAACCAGCTCCGAAACGTCAAGACCTCACTTTGAGAGCCAAACTGTAGTAGTAGAAAATCCTATGTCCGTTGATTCAAGTGGGAAATTGGTAAGCAATGTTGTTGTGGGCGTTACAACAGAGAGGAAATGA

Protein sequence

>Msa0205060

MVTSRDLKFPDVPAGMEMSQLYCGGCRTLLMHARGATTVRCSCCNTINLVPDSNQMNHIRCGNCRTTLMYPHGAPSVKCAVCHYITNVDMTNGRPPTPVLTPNETTSSETSRPHFESQTVVVENPMSVDSSGKLVSNVVVGVTTERK*