AlfalfaGEDB | Msa0539080

M. sativa cultivar zhongmu-4 / Msa0539080

KEGG: K09260
GO: GO:0000003 GO:0003006 GO:0003674 GO:0003676 GO:0003677 GO:0003700 GO:0005488 GO:0005575 GO:0005622 GO:0005623 GO:0005634 GO:0006355 GO:0007275 GO:0008150 GO:0009790 GO:0009791 GO:0009793 GO:0009889 GO:0010154 GO:0010468 GO:0010556 GO:0019219 GO:0019222 GO:0022414 GO:0031323 GO:0031326 GO:0032501 GO:0032502 GO:0042995 GO:0043076 GO:0043078 GO:0043226 GO:0043227 GO:0043229 GO:0043231 GO:0043565 GO:0044424 GO:0044464 GO:0048316 GO:0048608 GO:0048731 GO:0048856 GO:0050789 GO:0050794 GO:0051171 GO:0051252 GO:0060255 GO:0061458 GO:0065007 GO:0080090 GO:0090406 GO:0097159 GO:0120025 GO:0140110 GO:1901363 GO:1903506 GO:2000112 GO:2001141
PFAM: PF00319.21

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
Msa0539080	XP_003605494.2	84.422	199	30	1	4	201	3	201	1.29e-107	318

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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
Msa0539080	sp\|Q9FJK3\|AGL80_ARATH	46.734	199	99	2	4	199	3	197	2.18e-45	155

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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
Msa0539080	G7JN54	84.422	199	30	1	4	201	3	201	6.14e-108	318

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TFs/TRs:

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Gene ID	Type	Classification
Msa0539080	TF	MADS-M-type

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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
Msa0539080	MtrunA17_Chr4g0014131	84.422	199	30	1	4	201	3	201	1.18e-111	318
Msa0539080	MtrunA17_Chr4g0014031	88.202	178	20	1	4	180	3	180	5.40e-107	306
Msa0539080	MtrunA17_Chr8g0351751	64.319	213	65	5	4	211	3	209	1.70e-85	253
Msa0539080	MtrunA17_Chr4g0014321	58.962	212	72	5	1	211	1	198	2.07e-79	237
Msa0539080	MtrunA17_Chr4g0014121	79.870	154	30	1	4	156	31	184	8.11e-78	231
Msa0539080	MtrunA17_Chr4g0013041	56.522	207	59	4	6	211	5	181	1.92e-74	223
Msa0539080	MtrunA17_Chr3g0110131	61.146	157	61	0	4	160	3	159	3.82e-58	183
Msa0539080	MtrunA17_Chr3g0107381	53.289	152	71	0	4	155	3	154	4.29e-57	180
Msa0539080	MtrunA17_Chr2g0296831	71.667	120	34	0	4	123	3	122	6.99e-49	155
Msa0539080	MtrunA17_Chr3g0107331	43.750	160	90	0	4	163	2	161	2.84e-44	145

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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
Msa0539080	AT5G48670.1	46.734	199	99	2	4	199	3	197	2.22e-46	155
Msa0539080	AT1G65300.1	39.344	183	98	1	4	186	2	171	1.84e-41	142
Msa0539080	AT1G65330.1	40.217	184	97	1	4	187	2	172	1.45e-40	139
Msa0539080	AT5G26630.1	49.342	152	77	0	4	155	3	154	5.06e-40	136
Msa0539080	AT5G26650.1	39.264	163	99	0	6	168	3	165	4.98e-36	130
Msa0539080	AT5G27960.1	38.650	163	100	0	6	168	3	165	2.95e-35	127
Msa0539080	AT1G31630.1	34.254	181	105	2	4	184	2	168	3.29e-34	124
Msa0539080	AT1G31640.1	31.579	209	134	3	4	204	2	209	7.53e-32	120
Msa0539080	AT3G05860.2	38.095	147	91	0	4	150	3	149	8.81e-30	110
Msa0539080	AT5G27810.1	52.632	95	45	0	30	124	1	95	2.54e-29	106

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Find 52 sgRNAs with CRISPR-Local

Find 52 sgRNAs with CRISPR-GE

CRISPR-Local

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CRISPR-Local
sgRNA_sequence	on_target_score	Position	Region
AAACCAAGTCCAACTCGAAA+TGG	0.452175	4_1:+19432736	Msa0539080:CDS
AAAGGCTTCAATGCCACAGA+GGG	0.618725	4_1:-19432342	None:intergenic
AACGAAGGGTCTATTGAAAA+AGG	0.335070	4_1:+19432304	Msa0539080:CDS
AACTATGGGTAGAAGAAGTA+AGG	0.492866	4_1:+19432226	None:intergenic
AAGAGACTTTCTTGACGCAA+AGG	0.588013	4_1:+19432489	Msa0539080:CDS
AGAAACAAAGAAAAGAAAAT+AGG	0.231520	4_1:+19432537	Msa0539080:CDS
AGAGACTTTCTTGACGCAAA+GGG	0.522386	4_1:+19432490	Msa0539080:CDS
AGAGGCCAAATCTCAGGTTG+AGG	0.620704	4_1:-19432389	None:intergenic
AGCATAGATTGGACACCCTC+TGG	0.468177	4_1:-19432413	None:intergenic
AGCATCTAGGAGTGAAGAAA+TGG	0.457574	4_1:+19432787	Msa0539080:CDS

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CRISPR-GE

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sgRNA_sequence	Strand	Position	Region	GC_content
ATCATACAAGAAAAGAACGA+AGG	+	chr4_1:19432289-19432308	Msa0539080:CDS	30.0%
TCATACAAGAAAAGAACGAA+GGG	+	chr4_1:19432290-19432309	Msa0539080:CDS	30.0%
CAATGCTCAAAATCAAATCA+TGG	+	chr4_1:19432706-19432725	Msa0539080:CDS	30.0%
AGTGAAGAAATGGCAATTAT+GGG	+	chr4_1:19432797-19432816	Msa0539080:CDS	30.0%
TGCAACATCATTGACAATGA+AGG	-	chr4_1:19432261-19432280	None:intergenic	35.0%
TCATTGTCAATGATGTTGCA+AGG	+	chr4_1:19432261-19432280	Msa0539080:CDS	35.0%
AACGAAGGGTCTATTGAAAA+AGG	+	chr4_1:19432304-19432323	Msa0539080:CDS	35.0%
CTCATGAGTCAATGTCTTAA+TGG	+	chr4_1:19432578-19432597	Msa0539080:CDS	35.0%
GCATGACAATATGTCAACAA+TGG	+	chr4_1:19432610-19432629	Msa0539080:CDS	35.0%
TGGATATGAGTTATCTTGCT+TGG	+	chr4_1:19432630-19432649	Msa0539080:CDS	35.0%

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Chromosome	Type	Strat	End	Strand	Name
chr4_1	gene	19432230	19432865	19432230	ID=Msa0539080;Name=Msa0539080
chr4_1	mRNA	19432230	19432865	19432230	ID=Msa0539080-mRNA-1;Parent=Msa0539080;Name=Msa0539080-mRNA-1;_AED=0.19;_eAED=0.19;_QI=0\|-1\|0\|1\|-1\|1\|1\|0\|211
chr4_1	exon	19432230	19432865	19432230	ID=Msa0539080-mRNA-1:exon:5656;Parent=Msa0539080-mRNA-1
chr4_1	CDS	19432230	19432865	19432230	ID=Msa0539080-mRNA-1:cds;Parent=Msa0539080-mRNA-1

Gene Sequence

>Msa0539080

ATGGGTAGAAGAAGTAAGGTTAAACTTGCCTTCATTGTCAATGATGTTGCAAGGAAAGCATCATACAAGAAAAGAACGAAGGGTCTATTGAAAAAGGTTGCTGAACTTAGCACCCTCTGTGGCATTGAAGCCTTTGCCATAGTGTATGGACCTTATGAGCCTCAACCTGAGATTTGGCCTCTACCAGAGGGTGTCCAATCTATGCTCTCAAAATTCATGACGATGCACGAGTTTCAAAAGTGCAAGAAAATGATGAACCAAGAGACTTTCTTGACGCAAAGGGTCCTGAAGGCTGAAGAGAAATTGAAGAAACAAAGAAAAGAAAATAGGGAGCAAGAGATGACAATACTCATGAGTCAATGTCTTAATGGTAAAGTTGTGCATGACAATATGTCAACAATGGATATGAGTTATCTTGCTTGGTTGATTGACCACAATTTGAAGGACGTTAGTAGACGTTTGGAAGCATGGGATAACAATGCTCAAAATCAAATCATGGCTATTCAAAACCAAGTCCAACTCGAAATGGCGGCAACAATACCACCACCACTTCTAGCAGCATCTAGGAGTGAAGAAATGGCAATTATGGGTCATGGCCATCTTGGGATACCTATTAATGATGATGACATTATATAA

Protein sequence

>Msa0539080

MGRRSKVKLAFIVNDVARKASYKKRTKGLLKKVAELSTLCGIEAFAIVYGPYEPQPEIWPLPEGVQSMLSKFMTMHEFQKCKKMMNQETFLTQRVLKAEEKLKKQRKENREQEMTILMSQCLNGKVVHDNMSTMDMSYLAWLIDHNLKDVSRRLEAWDNNAQNQIMAIQNQVQLEMAATIPPPLLAASRSEEMAIMGHGHLGIPINDDDII*