SustainPineDB

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Assembly info
Unigenes
SNPs
SSRs
Descriptions
GOs
ECs
KEGGs
InterPros
miRNAs

Assembly Name: SustainPine v3.0

UniGene Name: sp_v3.0_unigene103473

Length: 214 nt

UniGene Fasta

>sp_v3.0_unigene103473
ATGGGGGATATGCTTCCAGCTATTTGGTTCATCTTCAGTAGGAGAGGTTGCGATGAAGCTGTTAAGTACCTTGAAAATTCCAGACTTCTGAATGATTATGAAGAGTGCAAAGTTGAGGCAGCATTGCAGATATTTCGGGCACAGTATCCAGATGCAGTAAGGGAGGATGCTGTTAAGTATCTTCTCCAAGGGGTTGCTGCTCATCATGCAGGCT

Ace file of the UniGene sp_v3.0_unigene103473

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Annotations

Source	Descriptions	Term	Type	e value	Identity
AutoFact	[L] COG4581 Superfamily II RNA helicase	-	-	3.0e-11	49%
FL-Next	sp=DEAD-box ATP-dependent RNA helicase ISE2, chloroplastic; Arabidopsis thaliana (Mouse-ear cress).	-	-	0.0	68%

Source	Gene names
Sma3	At1g70070; F20P5.20; GSVIVT00028926001; Os02g0739000; OsI_08870; OsJ_08317; P0684F11.16; PHYPADRAFT_141731; PHYPADRAFT_220890; POPTRDRAFT_658366; RCOM_0699620;

Source	GOs	Term	Type	Identity
Sma3	chloroplast stroma	GO:0009570	Cellular Component	-
Sma3	cytoplasmic stress granule	GO:0010494	Cellular Component	-
Sma3	nucleic acid binding	GO:0003676	Molecular Function	-
Sma3	ATP binding	GO:0005524	Molecular Function	-
Sma3	ATP-dependent helicase activity	GO:0008026	Molecular Function	-
Sma3	embryo development ending in seed dormancy	GO:0009793	Biological Process	-
Sma3	plasmodesmata-mediated intercellular transport	GO:0010497	Biological Process	-

Source	InterPros	Term	Type	Identity
Sma3	Helicase, C-terminal	IPR001650	-	-
Sma3	DNA/RNA helicase, DEAD/DEAH box type, N-terminal	IPR011545	-	-
Sma3	DSH, C-terminal	IPR012961	-	-
Sma3	Helicase, superfamily 1/2, ATP-binding domain	IPR014001	-	-
Sma3		IPR014021	-	-

Source	Species	ID	Description	e value	Identity
ATG	Arabidoptis thaliana	AT1G70070.1	EMB25, PDE317, ISE2 DEAD/DEAH box helicase, putative chr1:26390016-26394148 REVERSE LENGTH=1171	3.0e-25	68%
RefSeq	Arabidopsis thaliana	NP_177164.1	DEAD-box ATP-dependent RNA helicase ISE2 [Arabidopsis thaliana]	4.0e-25	68%
RefSeq	Populus trichocarpa	XP_002315703.1	predicted protein [Populus trichocarpa]	2.0e-24	70%

Full-Lengther Next Prediction

Fln status: Internal

Fln database: sp_plants

Fln subject: B9DFG3

Fln msg: Distance to subject end: 667 aas, your sequence is shorter than subject: 71 - 1171

Fln protein: MGDMLPAIWFIFSRRGCDEAVKYLENSRLLNDYEECKVEAALQIFRAQYPDAVREDAVKYLLQGVAAHHAG

Protein Length: 72

Fln nts: ATGGGGGATATGCTTCCAGCTATTTGGTTCATCTTCAGTAGGAGAGGTTGCGATGAAGCTGTTAAGTACCTTGAAAATTCCAGACTTCTGAATGATTATGAAGAGTGCAAAGTTGAGGCAGCATTGCAGATATTTCGGGCACAGTATCCAGATGCAGTAAGGGAGGATGCTGTTAAGTATCTTCTCCAAGGGGTTGCTGCTCATCATGCAGGCT

Fln Alignment:

AllPine_a_c33813___DMLPAIWFIFSRRGCDEAVKYLENSRLLNDYEECKVEAALQIFRAQYPDAVREDAVKYLLQGVAAHHAG
B9DFG3________________NMLPAIWFIFNRRGCDAAVQYVENFQLLDDCEKSEVELALKKFRVLYPDAVRESAEKGLLRGIAAHHAG

SNPs (tot: 2)

Position	A %	C %	G %	T %	Probability
112	66		33		0.997453
157	66			33	0.997452

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Biología Molecular y Biotecnología de Plantas, Facultad de Ciencias y Plataforma Andaluza de Bioinformática, Universidad de Málaga, E-29071 Málaga, Spain