AlfalfaGEDB | Msa0402540

M. sativa cultivar zhongmu-4 / Msa0402540

KEGG: -
GO: -
PFAM: PF02042.18

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
Msa0402540	KEH33319.1	90.306	196	15	2	1	196	1	192	1.10e-124	360

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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
Msa0402540	sp\|Q9M9U9\|RKD1_ARATH	62.500	128	41	2	48	168	112	239	8.03e-50	165

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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
Msa0402540	A0A072UU07	90.306	196	15	2	1	196	1	192	5.25e-125	360

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TFs/TRs:

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Gene ID	Type	Classification
Msa0402540	TF	RWP-RK

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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
No data available in table

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PPI

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Gene1	Gene2	Type
No data available in table

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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
Msa0402540	MtrunA17_Chr3g0092141	90.306	196	15	2	1	196	1	192	1.01e-128	360
Msa0402540	MtrunA17_Chr4g0060761	53.933	178	69	5	5	175	101	272	1.49e-54	174
Msa0402540	MtrunA17_Chr3g0127001	49.107	112	51	1	61	172	154	259	7.01e-31	113
Msa0402540	MtrunA17_Chr1g0182631	47.321	112	53	1	61	172	127	232	8.05e-29	107
Msa0402540	MtrunA17_Chr5g0406901	36.719	128	73	2	47	167	188	314	1.96e-22	92.4

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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
Msa0402540	AT1G18790.1	62.500	128	41	2	48	168	112	239	8.17e-51	165
Msa0402540	AT1G74480.1	59.130	115	43	1	54	164	128	242	3.40e-43	146
Msa0402540	AT5G66990.1	50.746	134	59	2	42	170	142	273	8.21e-42	142
Msa0402540	AT5G53040.1	55.340	103	40	2	66	168	153	249	2.01e-31	115
Msa0402540	AT4G35590.2	37.313	134	72	2	61	187	192	320	1.99e-19	84.7
Msa0402540	AT4G35590.1	38.060	134	71	3	61	187	242	370	2.95e-19	84.7

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Find 35 sgRNAs with CRISPR-Local

Find 118 sgRNAs with CRISPR-GE

CRISPR-Local

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CRISPR-Local
sgRNA_sequence	on_target_score	Position	Region
AACTTGATGAAAACACAAAA+AGG	0.320323	3_2:-30814225	Msa0402540:CDS
AAGAAAAGGTGTAGGGATCT+TGG	0.330015	3_2:-30815182	Msa0402540:CDS
AATGTGTAAGCCCAACATTA+AGG	0.530566	3_2:+30815207	None:intergenic
AATTATTCAATGACAGACTA+TGG	0.286299	3_2:-30815455	None:intergenic
ACATTTGAAGAAAAGGTGTA+GGG	0.575896	3_2:-30815189	Msa0402540:CDS
ACTTGATGCTGGAAATTATT+CGG	0.365304	3_2:-30815393	Msa0402540:CDS
AGAGAAGGCTCATGGTTATG+AGG	0.522137	3_2:-30814168	Msa0402540:CDS
AGGCTAATTACAAGAAGAGA+AGG	0.568624	3_2:-30814183	Msa0402540:CDS
AGGCTCATTAATTTCCTATG+TGG	0.543250	3_2:+30815146	None:intergenic
ATGAATGTGATGAGAAGATA+AGG	0.493501	3_2:-30814306	Msa0402540:CDS

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CRISPR-GE

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sgRNA_sequence	Strand	Position	Region	GC_content
ACTTGATGCTGGAAATTATT+CGG	-	chr3_2:30814134-30814153	Msa0402540:CDS	30.0%
CATTCTTTATAAGGGTTTGA+AGG	+	chr3_2:30814404-30814423	None:intergenic	30.0%
AAAAATCACATTGTGTAGTG+AGG	-	chr3_2:30814533-30814552	Msa0402540:intron	30.0%
ATGTTTGCGCAAGTAAATTA+TGG	+	chr3_2:30815094-30815113	None:intergenic	30.0%
ATGAATGTGATGAGAAGATA+AGG	-	chr3_2:30815221-30815240	Msa0402540:CDS	30.0%
ATTGCAGAAAGAAATGAAGA+AGG	-	chr3_2:30815258-30815277	Msa0402540:CDS	30.0%
ACTTGATGCTGGAAATTATT+CGG	-	chr3_2:30814134-30814153	Msa0402540:CDS	30.0%
CATTCTTTATAAGGGTTTGA+AGG	+	chr3_2:30814404-30814423	None:intergenic	30.0%
AAAAATCACATTGTGTAGTG+AGG	-	chr3_2:30814533-30814552	Msa0402540:intron	30.0%
ATGTTTGCGCAAGTAAATTA+TGG	+	chr3_2:30815094-30815113	None:intergenic	30.0%

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Chromosome	Type	Strat	End	Strand	Name
chr3_2	gene	30814081	30815468	30814081	ID=Msa0402540;Name=Msa0402540
chr3_2	mRNA	30814081	30815468	30814081	ID=Msa0402540-mRNA-1;Parent=Msa0402540;Name=Msa0402540-mRNA-1;_AED=0.02;_eAED=0.02;_QI=0\|0\|0\|1\|1\|1\|2\|0\|201
chr3_2	exon	30815121	30815468	30815121	ID=Msa0402540-mRNA-1:exon:6164;Parent=Msa0402540-mRNA-1
chr3_2	exon	30814081	30814338	30814081	ID=Msa0402540-mRNA-1:exon:6163;Parent=Msa0402540-mRNA-1
chr3_2	CDS	30815121	30815468	30815121	ID=Msa0402540-mRNA-1:cds;Parent=Msa0402540-mRNA-1
chr3_2	CDS	30814081	30814338	30814081	ID=Msa0402540-mRNA-1:cds;Parent=Msa0402540-mRNA-1

Gene Sequence

>Msa0402540

ATGACAGACTATGGTTATGGTGATGCTAAAAATGTGGTTCCAATGTGGAATGAACTTGATGCTGGAAATTATTCGGATAAACATATCTTTTCGATTAGCAACATTACTGGAGAAAATGTTGCAAAGGAAATTGTGAAGGGTAAGAGATGTAGAGAAGAGAATACTAATAGTGCAAGAATGCTAACAAAAGAAACAATTTCTGAGTACTTCTATGTGCCAATATCTCAAGCTGCTAGAGACCTTAATGTTGGGCTTACACATTTGAAGAAAAGGTGTAGGGATCTTGGAATTCAAAGGTGGCCACATAGGAAATTAATGAGCCTTCAAACCCTTATAAAGAATGTACAAGAGCAAGGTAATGAATGTGATGAGAAGATAAGGAATGCTGTGGAAGTATTGCAGAAAGAAATGAAGAAGGTAGAGGAAAAGCCAGATTTGCAACTTGATGAAAACACAAAAAGGCTTAGACAAGCATGTTTCAAGGCTAATTACAAGAAGAGAAGGCTCATGGTTATGAGGTTAATGGAACAACAGGAGTCTTCTCTCAGTGAAAGTGCAAGTGTTGATGATCACAAAAAGTCAAATTTCTTCTTAACATCATGTTAA

Protein sequence

>Msa0402540

MTDYGYGDAKNVVPMWNELDAGNYSDKHIFSISNITGENVAKEIVKGKRCREENTNSARMLTKETISEYFYVPISQAARDLNVGLTHLKKRCRDLGIQRWPHRKLMSLQTLIKNVQEQGNECDEKIRNAVEVLQKEMKKVEEKPDLQLDENTKRLRQACFKANYKKRRLMVMRLMEQQESSLSESASVDDHKKSNFFLTSC*