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_unigene28439

Length: 578 nt

UniGene Fasta

>sp_v3.0_unigene28439
CAGTACAACCTTTAACCGCCTGATGCGCTTTGCACATCCACAGGTCAAGTTGATAGATTTTTCTCCTGGTGAAAAATTTCTGGTTACTTACAGCAGCCACGAGCCAAGCAATCCTCGAGATTACACAGAGGGTTACCCTTAACATTTTTGAAGTGTAGGACCGGTAAAGTATTGAGAGAGTTCAAAGGAAGTGCTGATGATTTTGCAACTGGCGGAACTGGTGGTGTTGCTGGTGTGTCTTGGCCTGTATTCAGATGGGTTGGTGGCAGAGATGACAAATACTTTGCCCGTATTGGGAAAAATGCTATCAGTGTTTATGAAACTGAAACTATGACTCTCCTAGATAAGAAGTCCATCAAAGTTGAAAATGTAATGGATTTCAGTTGGTCTCCAACAGATCCAATACTAGCCTTGTTTGTGCCAGAGGGAGGTGGGGGTAACCAACCTGCAAAAGTGAGTCTTGTACAAATCCCTGGAAGGGAAGAACTGAGACAAAAAATCTCTTCAGTGTAAGTGATTGCAAAATGTACTGGCAAAGCAATGGAGACTACTTGGCAGTCAAAGTGGATCGCTATACC

Ace file of the UniGene sp_v3.0_unigene28439

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Annotations

Source	Descriptions	Term	Type	e value	Identity
AutoFact	RecName: Full=Eukaryotic translation initiation factor 3 subunit B; Short=eIF3b; AltName: Full=eIF-3-eta; AltName: Full=eIF3 p110 emb\|CAA72721.1\| PRT1 protein [Nicotiana tabacum]	-	-	0.0	74%
FL-Next	tr=Putative uncharacterized protein; Picea sitchensis (Sitka spruce) (Pinus sitchensis).	-	-	0.0	97%
Sma3	eIF3b	-	-	7.232e-09	-

Source	Gene names
Sma3	At5g25780; At5g27640; CHLREDRAFT_128636; EIF; EIF3B; GSVIVT00032816001; LOC_Os10g41960; MICPUCDRAFT_59878; MICPUN_96672; OSJNBa0095C07.3; OSTLU_51414; Os10g0569200; OsI_34716; OsJ_32527; Ot15g01870; PHYPADRAFT_216554; PHYPADRAFT_58978; POPTRDRAFT_562024;

Source	GOs	Term	Type	Identity
Sma3	cytoplasm	GO:0005737	Cellular Component	-
Sma3	nucleotide binding	GO:0000166	Molecular Function	-
Sma3	RNA binding	GO:0003723	Molecular Function	-
Sma3	translation initiation factor activity	GO:0003743	Molecular Function	-
Sma3	protein binding	GO:0005515	Molecular Function	-
Sma3	translational initiation	GO:0006413	Biological Process	-

Source	InterPros	Term	Type	Identity
Sma3	RNA recognition motif domain	IPR000504	-	-
Sma3	Six-bladed beta-propeller, TolB-like	IPR011042	-	-
Sma3	Translation initiation factor eIF-3b	IPR011400	-	-
Sma3	Nucleotide-binding, alpha-beta plait	IPR012677	-	-
Sma3	Translation initiation factor 2A, beta propellor-like domain	IPR013979	-	-
Sma3	WD40/YVTN repeat-like-containing domain	IPR015943	-	-

Source	Species	ID	Description	Identity
ATG	Arabidoptis thaliana	AT5G27640.2	TIF3B1, EIF3B, ATEIF3B-1, EIF3B-1, ATTIF3B1 translation initiation factor 3B1 chr5:9781207-9784759 REVERSE LENGTH=738	73%
RefSeq	Arabidopsis thaliana	NP_001031954.1	translation initiation factor 3 subunit B [Arabidopsis thaliana]	73%
RefSeq	Populus trichocarpa	XP_002308719.1	predicted protein [Populus trichocarpa]	80%

Full-Lengther Next Prediction

Fln status: Internal

Fln database: coniferopsida.fasta

Fln subject: A9NWV8

Fln msg: Separated hits, possible frame ERROR between 121 and 123, and overlapping frame ERROR between 155 and 139, and overlapping frame ERROR between 498 and 471, Distance to subject end: 287 aas, your sequence is shorter than subject: 194 - 724

Fln protein: STTFNRLMRFAHPQVKLIDFSPGEKFLVTYSSHEPSNPRxxTQRVxxxxxxxxRTGKVLREFKGSADDFATGGTGGVAGVSWPVFRWVGGRDDKYFARIGKNAISVYETETMTLLDKKSIKVENVMDFSWSPTDPILALFVPEGGGGNQPAKVSLxxxxxxxxxxxxNLFSVSDCKMYWQSNGDYLAVKVDRYT

Protein Length: 195

Fln nts: CAGTACAACCTTTAACCGCCTGATGCGCTTTGCACATCCACAGGTCAAGTTGATAGATTTTTCTCCTGGTGAAAAATTTCTGGTTACTTACAGCAGCCACGAGCCAAGCAATCCTCGAGAxxxTACACAGAGGGTTAxxxxxxxxxxxxxxxxxxxxxGTAGGACCGGTAAAGTATTGAGAGAGTTCAAAGGAAGTGCTGATGATTTTGCAACTGGCGGAACTGGTGGTGTTGCTGGTGTGTCTTGGCCTGTATTCAGATGGGTTGGTGGCAGAGATGACAAATACTTTGCCCGTATTGGGAAAAATGCTATCAGTGTTTATGAAACTGAAACTATGACTCTCCTAGATAAGAAGTCCATCAAAGTTGAAAATGTAATGGATTTCAGTTGGTCTCCAACAGATCCAATACTAGCCTTGTTTGTGCCAGAGGGAGGTGGGGGTAACCAACCTGCAAAAGTGAGTCTTGTxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxAAATCTCTTCAGTGTAAGTGATTGCAAAATGTACTGGCAAAGCAATGGAGACTACTTGGCAGTCAAAGTGGATCGCTATACC

Fln Alignment:

Contig28439___TTFNRLMRFAHPQVKLIDFSPGEKFLVTYSSHEPSNPRDxTQRVTxxxxxxRTGKVLREFKGSADDFXXXXXXXXXXXSWPVFRWVGGRDDKYFARIGKNAISVYETETMTLLDKKSIKVENVMDFSWSPTDPILALFVPEGGGGNQPAKVSLVQIxxxxxxxxxNLFSVSDCKMYWQSNGDYLAVKVDRYT
A9NWV8_______________TTFNRLMRFAHPQVKLIDFSPGENFLVTYSSHEPSNPRDxTQRVTxxxxxxRTGKVLREFKGSADDFATGGTGGVAGVSWPVFRWAGGRDDKYFARIGKNAISVYETDTMTLLDKKSLKVDNVMDFSWSPTDPILALFVPEGGGGNQPAKVSLVQIxxxxxxxxxNLFSVSDCKMYWQSNGDYLAVKVDRYT

SNPs (tot: 10)

Position	A %	C %	G %	T %	Probability
306		33		66	0.997452
324	33			66	0.997452
327	66			33	0.997452
330		33		66	0.997452
335		66	33		0.997452
351	33		66		0.997452
355	66	33			0.997452
366	66	33			0.997452
382	66			33	0.997452
390	33			66	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