AlfalfaGEDB | Msa0289960

M. sativa cultivar zhongmu-4 / Msa0289960

KEGG: -
GO: GO:0005575 GO:0006810 GO:0006869 GO:0008150 GO:0010876 GO:0016020 GO:0033036 GO:0051179 GO:0051234 GO:0071702
PFAM: PF00234.25

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
Msa0289960	XP_039686545.1	93.860	114	4	1	1	111	1	114	7.10e-65	202

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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
Msa0289960	sp\|Q9ZPW9\|NLTP8_ARATH	53.211	109	48	1	6	111	7	115	6.32e-34	116

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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
Msa0289960	G7IQQ8	93.860	114	4	1	1	111	1	114	3.39e-65	202

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TFs/TRs:

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Gene ID	Type	Classification
No data available in table

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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
Msa0008440	Msa0289960	0.813011	3.175395e-51	-8.615850e-47
Msa0015950	Msa0289960	0.814102	1.827343e-51	-8.615850e-47
Msa0015960	Msa0289960	0.810975	8.823836e-51	-8.615850e-47
Msa0016070	Msa0289960	0.806694	7.263635e-50	-8.615850e-47
Msa0016080	Msa0289960	0.821821	3.293482e-53	-8.615850e-47
Msa0057110	Msa0289960	0.835127	2.010217e-56	-8.615850e-47
Msa0057170	Msa0289960	0.840088	1.073179e-57	-8.615850e-47
Msa0060670	Msa0289960	0.842946	1.895136e-58	-8.615850e-47
Msa0168750	Msa0289960	0.806321	8.707395e-50	-8.615850e-47
Msa0189680	Msa0289960	0.819912	9.050478e-53	-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
Msa0289960	MtrunA17_Chr2g0309241	93.860	114	4	1	1	111	1	114	6.53e-69	202
Msa0289960	MtrunA17_Chr4g0012951	43.478	115	60	3	1	111	1	114	7.10e-24	88.2
Msa0289960	MtrunA17_Chr4g0013001	40.000	115	64	3	1	111	1	114	9.85e-21	80.1
Msa0289960	MtrunA17_Chr4g0012961	40.000	115	64	3	1	111	1	114	1.13e-20	80.1
Msa0289960	MtrunA17_Chr4g0012991	40.000	115	64	3	1	111	56	169	4.86e-20	80.1
Msa0289960	MtrunA17_Chr4g0012891	35.537	121	69	3	1	112	6	126	9.33e-19	75.5
Msa0289960	MtrunA17_Chr4g0013261	37.931	116	66	4	1	111	1	115	5.53e-18	73.2
Msa0289960	MtrunA17_Chr4g0013251	38.793	116	65	4	1	111	1	115	1.76e-17	72.0
Msa0289960	MtrunA17_Chr4g0013211	36.283	113	63	5	6	111	4	114	4.76e-16	68.2
Msa0289960	MtrunA17_Chr7g0244841	33.333	105	67	1	10	111	13	117	1.29e-15	67.4

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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
Msa0289960	AT2G18370.1	53.211	109	48	1	6	111	7	115	6.43e-35	116
Msa0289960	AT5G59320.1	40.870	115	63	3	1	111	1	114	2.30e-21	82.0
Msa0289960	AT5G59310.1	35.965	114	67	3	1	111	1	111	2.59e-19	77.0
Msa0289960	AT3G51590.1	37.143	105	61	3	11	111	12	115	9.58e-17	70.5
Msa0289960	AT5G01870.1	39.806	103	54	4	15	111	15	115	3.09e-16	68.9
Msa0289960	AT3G08770.1	37.500	96	53	3	22	111	18	112	1.18e-14	65.1
Msa0289960	AT3G08770.2	38.710	93	50	3	22	108	18	109	2.09e-14	64.3
Msa0289960	AT2G38540.1	36.458	96	55	3	21	111	23	117	2.08e-13	62.0
Msa0289960	AT2G15050.3	31.481	108	65	4	3	101	2	109	3.58e-13	61.2
Msa0289960	AT2G15050.2	31.481	108	65	4	3	101	2	109	3.96e-13	61.2

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Find 22 sgRNAs with CRISPR-Local

Find 104 sgRNAs with CRISPR-GE

CRISPR-Local

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CRISPR-Local
sgRNA_sequence	on_target_score	Position	Region
AATCAACTCACAATTGGCTC+AGG	0.514463	2_3:-36550541	Msa0289960:CDS
AATTGGCTCAGGCTCTTGCA+GGG	0.601314	2_3:-36550530	Msa0289960:CDS
ACTTGGAACAATCAGCATCT+GGG	0.519962	2_3:+36550475	None:intergenic
AGCATCTGGGGAGATACTGA+TGG	0.572323	2_3:+36550488	None:intergenic
AGCTATTTGGTCAGTGGAAG+TGG	0.469665	2_3:-36550678	Msa0289960:CDS
ATCAGCTGTATCAACATCTG+AGG	0.627591	2_3:-36550613	Msa0289960:CDS
ATCTGGGGAGATACTGATGG+GGG	0.675132	2_3:+36550491	None:intergenic
CAATTGGCTCAGGCTCTTGC+AGG	0.325545	2_3:-36550531	Msa0289960:CDS
CAGGCTCTTGCAGGGAACTG+TGG	0.566184	2_3:-36550522	Msa0289960:CDS
CATCTGGGGAGATACTGATG+GGG	0.712150	2_3:+36550490	None:intergenic

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CRISPR-GE

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sgRNA_sequence	Strand	Position	Region	GC_content
CTTCGAGACTAATCTTTAAT+CGG	-	chr2_3:36550429-36550448	Msa0289960:intron	30.0%
CTTCGAGACTAATCTTTAAT+CGG	-	chr2_3:36550429-36550448	Msa0289960:intron	30.0%
TTCATGCAGTGATGTGATTA+AGG	-	chr2_3:36550046-36550065	Msa0289960:intron	35.0%
AGATTGGACTGCTTATCTAT+TGG	-	chr2_3:36550477-36550496	Msa0289960:CDS	35.0%
GATTGGACTGCTTATCTATT+GGG	-	chr2_3:36550478-36550497	Msa0289960:CDS	35.0%
GTTAATTGAGACTTCGAAGT+GGG	-	chr2_3:36550713-36550732	Msa0289960:intron	35.0%
TTCATGCAGTGATGTGATTA+AGG	-	chr2_3:36550046-36550065	Msa0289960:intron	35.0%
AGATTGGACTGCTTATCTAT+TGG	-	chr2_3:36550477-36550496	Msa0289960:CDS	35.0%
GATTGGACTGCTTATCTATT+GGG	-	chr2_3:36550478-36550497	Msa0289960:CDS	35.0%
GTTAATTGAGACTTCGAAGT+GGG	-	chr2_3:36550713-36550732	Msa0289960:intron	35.0%

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Chromosome	Type	Strat	End	Strand	Name
chr2_3	gene	36549972	36550814	36549972	ID=Msa0289960;Name=Msa0289960
chr2_3	mRNA	36549972	36550814	36549972	ID=Msa0289960-mRNA-1;Parent=Msa0289960;Name=Msa0289960-mRNA-1;_AED=0.19;_eAED=0.19;_QI=0\|0\|0\|0.66\|0\|0\|3\|0\|112
chr2_3	exon	36550728	36550814	36550728	ID=Msa0289960-mRNA-1:exon:11975;Parent=Msa0289960-mRNA-1
chr2_3	exon	36550477	36550718	36550477	ID=Msa0289960-mRNA-1:exon:11974;Parent=Msa0289960-mRNA-1
chr2_3	exon	36549972	36549978	36549972	ID=Msa0289960-mRNA-1:exon:11973;Parent=Msa0289960-mRNA-1
chr2_3	CDS	36550728	36550814	36550728	ID=Msa0289960-mRNA-1:cds;Parent=Msa0289960-mRNA-1
chr2_3	CDS	36550477	36550718	36550477	ID=Msa0289960-mRNA-1:cds;Parent=Msa0289960-mRNA-1
chr2_3	CDS	36549972	36549978	36549972	ID=Msa0289960-mRNA-1:cds;Parent=Msa0289960-mRNA-1

Gene Sequence	>Msa0289960 ATGAAATCTTCTTTAATTGCATTTTCTGCTGTTGTGCTTCTCATCTTTGTTGCTTCAAATTCAGAGGCTGCAATTTCATGCAGTGATGACTTGAAACCTTGTGTGAGCTATTTGGTCAGTGGAAGTGGACAACCACCAGCTGCATGTTGCTCTGGAGCTAAAGCTCTAGCATCAGCTGTATCAACATCTGAGGATAAAAAAGCTGCTTGCAACTGCATCAAATCCACTTCCAAGAGTATTAAAATCAACTCACAATTGGCTCAGGCTCTTGCAGGGAACTGTGGAATTAACACCCCCATCAGTATCTCCCCAGATGCTGATTGTTCCAACATGTAT
Protein sequence	>Msa0289960 MKSSLIAFSAVVLLIFVASNSEAAISCSDDLKPCVSYLVSGSGQPPAACCSGAKALASAVSTSEDKKAACNCIKSTSKSIKINSQLAQALAGNCGINTPISISPDADCSNMY