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_unigene206440

Length: 490 nt

UniGene Fasta

>sp_v3.0_unigene206440
TCTTGCCGCCAGCCGAAACTACCCCGCCCGTCTGCCGTACTACCTCGCATCACATCAACATGTCTGACGGAGAGTTCGAGAATGCCTCGTCGGGAGCCGCCTTGACCGTCCCCTCGCAGGCCTCTGGCATCAAGAAGAACGGCTACATGATCATCAAGGGCCGTCCCTGCAAGGTCGTTGATTGCTCGACCTCGAAGACCGGCAAGCACGGCTCGGCCAAGGTGCACTTCACCGCCATCGATATCTTCAACGGCAAGAAGTACGAGGAGATCTCGCCCTCGACCCACAACCTTCAGGTGCCCATCATCAACCGTACTGAGTGGACCCTCGTCGACGTCAGCGAGGACGGCTACGTCTCGCTCATGTCCGCTGATGGCTCTGCCACCAAGGAGGACATCAAGCTCCCCGCTGATGAGCCTGAGATTTCTCAGAAGATCAGGGATGCCGTCGACAACGGTACCGACATGATCGTCGCTGTCCTCTCCGCCAT

Ace file of the UniGene sp_v3.0_unigene206440

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Annotations

Source	Descriptions	Term	Type	e value	Identity
AutoFact	Eukaryotic translation initiation factor 5A-1 n=5 Tax=core eudicotyledons RepID=IF5A1_ARATH	-	-	8.00001e-41	57%
FL-Next	tr=Putative uncharacterized protein; Picea sitchensis (Sitka spruce) (Pinus sitchensis).	-	-	0.0	57%
Sma3	Eukaryotic translation initiation factor 5A	-	-	4.954e-28	-

Source	Gene names
Sma3	At1g13950; At1g26630; At1g69410; CHLREDRAFT_126557; EIF-5A1; EIF-5A2; EIF5A; EIF5A1; EIF5A2; EIF5A3; EIF5A4; EIF5A5; EIFSV1; F10D13.8; F16A14.17; F23O10.2; F7A19.4; GSVIVT00004748001; GSVIVT00016285001; GSVIVT00032771001; LOC_Os03g55150; LOC_Os12g32240; M

Source	GOs	Term	Type	Identity
Sma3	nucleus	GO:0005634	Cellular Component	-
Sma3	translation initiation factor activity	GO:0003743	Molecular Function	-
Sma3	translational initiation	GO:0006413	Biological Process	-
Sma3	response to wounding	GO:0009611	Biological Process	-
Sma3	xylem development	GO:0010089	Biological Process	-
Sma3	host programmed cell death induced by symbiont	GO:0034050	Biological Process	-
Sma3	defense response to bacterium	GO:0042742	Biological Process	-
Sma3	response to cadmium ion	GO:0046686	Biological Process	-

Source	InterPros	Term	Type	Identity
Sma3	WD40 repeat	IPR001680	-	-
Sma3	Translation elongation factor IF5A	IPR001884	-	-
Sma3	KOW	IPR005824	-	-
Sma3	Nucleic acid-binding, OB-fold	IPR012340	-	-
Sma3	Translation protein SH3-like, subgroup	IPR014722	-	-
Sma3	WD40/YVTN repeat-like-containing domain	IPR015943	-	-
Sma3	WD40-repeat-containing domain	IPR017986	-	-
Sma3	Translation elongation factor, IF5A, hypusine site	IPR019769	-	-
Sma3	WD40 repeat, conserved site	IPR019775	-	-
Sma3		IPR019782	-	-

Source	Species	ID	Description	Identity
ATG	Arabidoptis thaliana	AT1G13950.1	EIF-5A, ELF5A-1, ATELF5A-1, EIF5A eukaryotic elongation factor 5A-1 chr1:4773631-4774668 FORWARD LENGTH=158	57%
RefSeq	Arabidopsis thaliana	NP_172848.1	translation initiation factor eIF-5A [Arabidopsis thaliana]	57%
RefSeq	Populus trichocarpa	XP_002312268.1	predicted protein [Populus trichocarpa]	56%

Full-Lengther Next Prediction

Fln status: Putative Complete

Fln database: coniferopsida.fasta

Fln subject: A9NNB5

Fln msg: STOP codon was not found. Distance to subject end: 14 aas, your sequence is shorter than subject: 143 - 159

Fln protein: MSDGEFENASSGAALTVPSQASGIKKNGYMIIKGRPCKVVDCSTSKTGKHGSAKVHFTAIDIFNGKKYEEISPSTHNLQVPIINRTEWTLVDVSEDGYVSLMSADGSATKEDIKLPADEPEISQKIRDAVDNGTDMIVAVLSA

Protein Length: 144

Fln nts: TCTTGCCGCCAGCCGAAACTACCCCGCCCGTCTGCCGTACTACCTCGCATCACATCAAC_-_ATGTCTGACGGAGAGTTCGAGAATGCCTCGTCGGGAGCCGCCTTGACCGTCCCCTCGCAGGCCTCTGGCATCAAGAAGAACGGCTACATGATCATCAAGGGCCGTCCCTGCAAGGTCGTTGATTGCTCGACCTCGAAGACCGGCAAGCACGGCTCGGCCAAGGTGCACTTCACCGCCATCGATATCTTCAACGGCAAGAAGTACGAGGAGATCTCGCCCTCGACCCACAACCTTCAGGTGCCCATCATCAACCGTACTGAGTGGACCCTCGTCGACGTCAGCGAGGACGGCTACGTCTCGCTCATGTCCGCTGATGGCTCTGCCACCAAGGAGGACATCAAGCTCCCCGCTGATGAGCCTGAGATTTCTCAGAAGATCAGGGATGCCGTCGACAACGGTACCGACATGATCGTCGCTGTCCTCTCCGCCAT

Fln Alignment:

AllPine_b_rep_c65569___DGEFEN-ASSGAALTVPSQASGIKKNGYMIIKGRPCKVVDCSTSKTGKHGSAKVHFTAIDIFNGKKYEEISPSTHNLQVPIINRTEWTLVDVSEDGYVSLMSADGSATKEDIKLPADEPEISQKIRDAVDNGTDMIVAVLSA
A9NNB5________________DNHFESKADAGASKTFPQQAGTIRKNGYIVIKARPCKVVEVSTSKTGKHGHAKCHFVAIDIFNGKKLEDIVPSSHNCDVPHVTRTDFQLIDISEDGFVSLL-ADNGNTKDDLRLPSDEQLLTQ-IKDGFGEGKDLVVTVMSA

SNPs (tot: 3)

Position	C %	G %	T %	Probability
89	66	33		0.997461
105	33		66	0.997471
113	66	33		0.997459

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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