AlfalfaGEDB | Msa0286370

M. sativa cultivar zhongmu-4 / Msa0286370

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
Msa0286370	XP_004488206.1	75.969	129	12	2	1	128	1	111	3.12e-57	186

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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
Msa0286370	sp\|Q6ASS2\|LOL3_ORYSJ	53.906	128	42	2	1	127	1	112	1.24e-36	127

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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
Msa0286370	A0A1S2XEQ1	75.969	129	12	2	1	128	1	111	1.49e-57	186

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TFs/TRs:

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Gene ID	Type	Classification
Msa0286370	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
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
Msa0286370	MtrunA17_Chr2g0303181	71.970	132	15	3	1	128	1	114	1.44e-57	176
Msa0286370	MtrunA17_Chr8g0381011	61.765	136	33	2	1	135	1	118	1.43e-50	159
Msa0286370	MtrunA17_Chr4g0054701	49.194	124	45	1	2	125	31	136	3.65e-37	124
Msa0286370	MtrunA17_Chr4g0054701	45.679	81	43	1	60	139	32	112	3.38e-15	68.2
Msa0286370	MtrunA17_Chr4g0047341	46.269	67	36	0	59	125	40	106	8.44e-17	72.0

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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
Msa0286370	AT4G20380.9	51.724	145	44	4	1	135	1	129	1.03e-37	125
Msa0286370	AT4G20380.2	50.694	144	45	4	1	134	6	133	1.37e-36	124
Msa0286370	AT4G20380.7	50.694	144	45	4	1	134	6	133	1.37e-36	124
Msa0286370	AT4G20380.6	52.083	144	43	4	1	134	1	128	2.29e-36	123
Msa0286370	AT4G20380.3	52.083	144	43	4	1	134	1	128	2.29e-36	123
Msa0286370	AT4G20380.4	52.083	144	43	4	1	134	1	128	2.29e-36	123
Msa0286370	AT4G20380.1	52.083	144	43	4	1	134	1	128	2.29e-36	123
Msa0286370	AT4G20380.5	52.083	144	43	4	1	134	1	128	2.29e-36	123
Msa0286370	AT1G32540.1	48.387	124	46	1	2	125	65	170	3.16e-36	123
Msa0286370	AT1G32540.1	45.679	81	43	1	60	139	66	146	3.81e-15	68.9

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Find 35 sgRNAs with CRISPR-Local

Find 264 sgRNAs with CRISPR-GE

CRISPR-Local

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CRISPR-Local
sgRNA_sequence	on_target_score	Position	Region
AAAACATTGCTTGCTCCTCT+AGG	0.458230	2_3:-27463171	None:intergenic
AAAAGTTAAACACCACCCTT+AGG	0.526780	2_3:-27463095	None:intergenic
AAACATTGCTTGCTCCTCTA+GGG	0.521654	2_3:-27463170	None:intergenic
AAATGAGCCATATACATTGC+GGG	0.465147	2_3:+27468163	Msa0286370:CDS
AACACTATAAATCCTGTACC+AGG	0.634087	2_3:+27468052	Msa0286370:CDS
AACATCTTGCTTTACCCTAG+AGG	0.603716	2_3:+27463156	Msa0286370:CDS
AAGGAAACATATATATCGGG+AGG	0.646794	2_3:-27463228	None:intergenic
ACAAATTGCACATTTGACTG+AGG	0.644783	2_3:-27468223	None:intergenic
ACAACACTCATGTGTCCTCA+TGG	0.541151	2_3:+27468195	Msa0286370:CDS
ACATTATGTGTACGGGGTGT+AGG	0.559046	2_3:+27463133	Msa0286370:CDS

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CRISPR-GE

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sgRNA_sequence	Strand	Position	Region	GC_content
ATGATAACAAAAACCGCAAA+AGG	-	chr2_3:27463250-27463269	None:intergenic	30.0%
AGTAAATTTGATTGCACACA+TGG	+	chr2_3:27463625-27463644	Msa0286370:intron	30.0%
AACACTTACAACTTAATCCA+TGG	-	chr2_3:27463651-27463670	None:intergenic	30.0%
ATGCTGATGAATTATGTAGA+TGG	-	chr2_3:27463808-27463827	None:intergenic	30.0%
AGGACTGCAAAATAAACAAA+CGG	+	chr2_3:27463850-27463869	Msa0286370:intron	30.0%
CCCTTCTTGATATAAAATCA+AGG	+	chr2_3:27463957-27463976	Msa0286370:intron	30.0%
CATGAGTCTATACACAATAA+TGG	-	chr2_3:27464026-27464045	None:intergenic	30.0%
TGAAGCTTAAAAAAGGGATT+TGG	+	chr2_3:27464068-27464087	Msa0286370:intron	30.0%
GAAAAACGGTTACAAAACTT+TGG	+	chr2_3:27464270-27464289	Msa0286370:intron	30.0%
AAATTAGAAAAAGGAGTTCC+TGG	+	chr2_3:27464472-27464491	Msa0286370:intron	30.0%

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Chromosome	Type	Strat	End	Strand	Name
chr2_3	gene	27463094	27468305	27463094	ID=Msa0286370;Name=Msa0286370
chr2_3	mRNA	27463094	27468305	27463094	ID=Msa0286370-mRNA-1;Parent=Msa0286370;Name=Msa0286370-mRNA-1;_AED=0.25;_eAED=0.30;_QI=29\|0\|0\|1\|0\|0\|3\|0\|143
chr2_3	exon	27463094	27463288	27463094	ID=Msa0286370-mRNA-1:exon:9858;Parent=Msa0286370-mRNA-1
chr2_3	exon	27467963	27468073	27467963	ID=Msa0286370-mRNA-1:exon:9859;Parent=Msa0286370-mRNA-1
chr2_3	exon	27468154	27468305	27468154	ID=Msa0286370-mRNA-1:exon:9860;Parent=Msa0286370-mRNA-1
chr2_3	five_prime_UTR	27463094	27463122	27463094	ID=Msa0286370-mRNA-1:five_prime_utr;Parent=Msa0286370-mRNA-1
chr2_3	CDS	27463123	27463288	27463123	ID=Msa0286370-mRNA-1:cds;Parent=Msa0286370-mRNA-1
chr2_3	CDS	27467963	27468073	27467963	ID=Msa0286370-mRNA-1:cds;Parent=Msa0286370-mRNA-1
chr2_3	CDS	27468154	27468305	27468154	ID=Msa0286370-mRNA-1:cds;Parent=Msa0286370-mRNA-1

Gene Sequence

>Msa0286370

ATGCGGAACCACATTATGTGTACGGGGTGTAGGAACATCTTGCTTTACCCTAGAGGAGCAAGCAATGTTTTTTGTGGATTGTGCAACACAATTACACCTGTTCTTCCTCCCGATATATATGTTTCCTTTTGCGGTTTTTGTTATCATGAAGTTCATCATCTTCATGGATTGGAATTGTCACAACTTTATTGTGGAGGCTGTAGAACTTTGCTAATGTACACACGTGGAGCTACTAGCGTGAGATGTTCATGTTGTAACACTATAAATCCTGTACCAGATTCTAACCAAATGAGCCATATACATTGCGGGAACTGCCGGACAACACTCATGTGTCCTCATGGAGCTCCCTCAGTCAAATGTGCAATTTGTCATATTACCAATGTTTGTGTAAGTGTACCACGATGGAATTATCTTAATATATATGATCTA

Protein sequence

>Msa0286370

MRNHIMCTGCRNILLYPRGASNVFCGLCNTITPVLPPDIYVSFCGFCYHEVHHLHGLELSQLYCGGCRTLLMYTRGATSVRCSCCNTINPVPDSNQMSHIHCGNCRTTLMCPHGAPSVKCAICHITNVCVSVPRWNYLNIYDL