AlfalfaGEDB | Msa0336380

M. sativa cultivar zhongmu-4 / Msa0336380

KEGG: -
GO: -
PFAM: PF07714.20

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
Msa0336380	XP_003596919.2	100.000	299	0	0	1	299	1	299	0.0	615

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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
Msa0336380	sp\|Q9FX99\|Y1497_ARATH	35.294	306	165	8	16	295	305	603	1.09e-48	174

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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
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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
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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
Msa0336380	MtrunA17_Chr2g0322191	100.000	299	0	0	1	299	1	299	0.0	615
Msa0336380	MtrunA17_Chr4g0044691	33.766	308	166	6	15	295	302	598	1.16e-56	193
Msa0336380	MtrunA17_Chr7g0262521	32.394	284	155	12	23	275	327	604	1.53e-35	135
Msa0336380	MtrunA17_Chr4g0048951	28.846	312	183	6	13	298	91	389	6.19e-34	128
Msa0336380	MtrunA17_Chr2g0288121	32.292	288	141	11	27	274	27	300	2.63e-33	125
Msa0336380	MtrunA17_Chr1g0183041	31.915	282	155	11	23	273	332	607	5.63e-33	128
Msa0336380	MtrunA17_Chr5g0443691	35.391	243	120	10	61	273	122	357	7.74e-33	124
Msa0336380	MtrunA17_Chr2g0299301	31.894	301	167	12	28	295	1046	1341	1.23e-32	127
Msa0336380	MtrunA17_Chr3g0134321	30.137	292	170	10	28	292	392	676	2.28e-32	126
Msa0336380	MtrunA17_Chr7g0251771	31.985	272	154	10	31	274	40	308	8.55e-32	122

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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
Msa0336380	AT5G22050.2	55.410	305	120	5	4	297	7	306	1.15e-112	328
Msa0336380	AT5G22050.1	55.892	297	123	4	4	297	7	298	2.21e-111	325
Msa0336380	AT3G19300.1	35.786	299	160	7	22	295	308	599	2.35e-53	184
Msa0336380	AT1G49730.1	35.294	306	165	8	16	295	335	633	1.70e-49	174
Msa0336380	AT1G49730.4	36.719	256	135	6	16	249	305	555	9.71e-43	155
Msa0336380	AT1G68690.4	31.935	310	166	11	17	290	351	651	2.08e-34	132
Msa0336380	AT1G68690.1	31.715	309	168	10	17	291	351	650	7.18e-34	130
Msa0336380	AT1G68690.3	31.715	309	168	10	17	291	351	650	7.18e-34	130
Msa0336380	AT1G68690.2	31.715	309	168	10	17	291	351	650	7.18e-34	130
Msa0336380	AT4G20450.1	32.130	277	163	6	19	273	570	843	3.86e-33	129

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Find 83 sgRNAs with CRISPR-Local

Find 169 sgRNAs with CRISPR-GE

CRISPR-Local

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CRISPR-Local
sgRNA_sequence	on_target_score	Position	Region
AAAATTATGTATCAAATCAT+GGG	0.526549	2_4:-55755595	Msa0336380:CDS
AACAGGTCAATCTTCGGAGA+TGG	0.556111	2_4:-55755742	Msa0336380:CDS
AACCTTGTCCTCCAATTTAA+GGG	0.387177	2_4:+55756805	None:intergenic
AACTGAAGAATTGTATATGA+AGG	0.500854	2_4:+55755567	None:intergenic
AAGAAATAACGGAGTTTGTT+AGG	0.303023	2_4:+55758135	None:intergenic
AAGATGTTAGACCCTGATCT+TGG	0.460015	2_4:-55755663	Msa0336380:CDS
AAGGTTCTGATTTAATTGAA+TGG	0.444642	2_4:-55755719	Msa0336380:CDS
AAGTAACATACCTAATCTTG+GGG	0.617017	2_4:+55755513	None:intergenic
AATATAATCTTGCAACTTTC+CGG	0.178130	2_4:+55755795	None:intergenic
AATTTAAGGGAGTCTTCAAG+GGG	0.650367	2_4:+55756818	None:intergenic

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CRISPR-GE

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sgRNA_sequence	Strand	Position	Region	GC_content
AAGATGAGATTGTATGCTTT+AGG	-	chr2_4:55756427-55756446	Msa0336380:intron	30.0%
GTTAGAGTTTATTTGGTATG+AGG	-	chr2_4:55756475-55756494	Msa0336380:intron	30.0%
TGAAAGGAAAAAAAGTTTGG+AGG	-	chr2_4:55756610-55756629	Msa0336380:intron	30.0%
CACATCCATAATCAATGTAT+AGG	+	chr2_4:55756856-55756875	None:intergenic	30.0%
CAAAATCAGTTAAACATGGT+TGG	+	chr2_4:55757268-55757287	None:intergenic	30.0%
GAGAATCAACATATGTAAGA+AGG	+	chr2_4:55757294-55757313	None:intergenic	30.0%
AAAATCAGAAAGCTGTAACA+AGG	+	chr2_4:55757535-55757554	None:intergenic	30.0%
TGCAAGATTATATTCCAACT+TGG	-	chr2_4:55757724-55757743	Msa0336380:CDS	30.0%
TGGAAACAGTTATGAGTATA+CGG	-	chr2_4:55757867-55757886	Msa0336380:intron	30.0%
GTTATTTAGGTATCTCCAAA+AGG	-	chr2_4:55757963-55757982	Msa0336380:intron	30.0%

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Chromosome	Type	Strat	End	Strand	Name
chr2_4	gene	55755250	55758282	55755250	ID=Msa0336380;Name=Msa0336380
chr2_4	mRNA	55755250	55758282	55755250	ID=Msa0336380-mRNA-1;Parent=Msa0336380;Name=Msa0336380-mRNA-1;_AED=0.12;_eAED=0.12;_QI=193\|1\|1\|1\|1\|1\|7\|274\|299
chr2_4	exon	55755250	55755828	55755250	ID=Msa0336380-mRNA-1:exon:16949;Parent=Msa0336380-mRNA-1
chr2_4	exon	55755941	55755989	55755941	ID=Msa0336380-mRNA-1:exon:16948;Parent=Msa0336380-mRNA-1
chr2_4	exon	55756122	55756211	55756122	ID=Msa0336380-mRNA-1:exon:16947;Parent=Msa0336380-mRNA-1
chr2_4	exon	55756774	55756841	55756774	ID=Msa0336380-mRNA-1:exon:16946;Parent=Msa0336380-mRNA-1
chr2_4	exon	55756931	55756983	55756931	ID=Msa0336380-mRNA-1:exon:16945;Parent=Msa0336380-mRNA-1
chr2_4	exon	55757596	55757866	55757596	ID=Msa0336380-mRNA-1:exon:16944;Parent=Msa0336380-mRNA-1
chr2_4	exon	55758026	55758282	55758026	ID=Msa0336380-mRNA-1:exon:16943;Parent=Msa0336380-mRNA-1
chr2_4	five_prime_UTR	55758090	55758282	55758090	ID=Msa0336380-mRNA-1:five_prime_utr;Parent=Msa0336380-mRNA-1
chr2_4	CDS	55758026	55758089	55758026	ID=Msa0336380-mRNA-1:cds;Parent=Msa0336380-mRNA-1
chr2_4	CDS	55757596	55757866	55757596	ID=Msa0336380-mRNA-1:cds;Parent=Msa0336380-mRNA-1
chr2_4	CDS	55756931	55756983	55756931	ID=Msa0336380-mRNA-1:cds;Parent=Msa0336380-mRNA-1
chr2_4	CDS	55756774	55756841	55756774	ID=Msa0336380-mRNA-1:cds;Parent=Msa0336380-mRNA-1
chr2_4	CDS	55756122	55756211	55756122	ID=Msa0336380-mRNA-1:cds;Parent=Msa0336380-mRNA-1
chr2_4	CDS	55755941	55755989	55755941	ID=Msa0336380-mRNA-1:cds;Parent=Msa0336380-mRNA-1
chr2_4	CDS	55755524	55755828	55755524	ID=Msa0336380-mRNA-1:cds;Parent=Msa0336380-mRNA-1
chr2_4	three_prime_UTR	55755250	55755523	55755250	ID=Msa0336380-mRNA-1:three_prime_utr;Parent=Msa0336380-mRNA-1

Gene Sequence

>Msa0336380

ATGGATCCCTTGATCCGCAAGTTCCGCCGCCACATTCTCCATTGGCTTCACCGATCTCGCTCCGGATCGGTGTTTTTTGTGAGGAGAATTTCGTACAAGGAAGTAAGAAAAGCAACTGATAGTTTTCAAAGAATAGTTTATAGCAATTCTGAAGTTTCTGCATATGCTGCGAATTTTGGTGATAGTGGTGTTTGTTTGGTGAAAGAATTGAAAGATTTTGATAAAGGAAATGATGAGAATTTTCATAGACAAGTTCAGTTGTTGGGACGTTTGCATCATCGACATCTTCTTTCGCTTAAAGGCTTTTCTTTGGGACATGATCGCAAGAGCAAGAGACTGCTTATATTTGACAACATAGATAATGGAAGCTTAAAGGAGCATCTGAATGACCCCTTGAAGACTCCCTTAAATTGGAGGACAAGGTTGCAGATAGCTAATGGTGTTGTGGCTGCACTGGAATACTTGTTTCTCTTCAGTGAACCACCAATAAGTCATGTCTCTATCAGCTCTAGCAATATTATGTTAGATGAGAACTTCACCCCTAAACTTTCTGATTTTGGCCTTACGGGTGGAAGTTCGTCGCCATATTCACAAGATTGCATGGGGCCGGAAAGTTGCAAGATTATATTCCAACTTGGAGTGCTCATACTGGAACTTGTAACAGGTCAATCTTCGGAGATGGAAGGTTCTGATTTAATTGAATGGATACAAGAATCCAGATTTTTTAGTTCCATAGATAAGATGTTAGACCCTGATCTTGGAAACAGTTATGAGTATACGGAGCTTAAAAGTCTTCTAGCTGTGGCAAAATTATGTATCAAATCATGGGACAAGCCTTCATATACAATTCTTCAGTTATTTAGGTATCTCCAAAAGGAGACTGATATTCCCCAAGATTAG

Protein sequence

>Msa0336380

MDPLIRKFRRHILHWLHRSRSGSVFFVRRISYKEVRKATDSFQRIVYSNSEVSAYAANFGDSGVCLVKELKDFDKGNDENFHRQVQLLGRLHHRHLLSLKGFSLGHDRKSKRLLIFDNIDNGSLKEHLNDPLKTPLNWRTRLQIANGVVAALEYLFLFSEPPISHVSISSSNIMLDENFTPKLSDFGLTGGSSSPYSQDCMGPESCKIIFQLGVLILELVTGQSSEMEGSDLIEWIQESRFFSSIDKMLDPDLGNSYEYTELKSLLAVAKLCIKSWDKPSYTILQLFRYLQKETDIPQD*