SustainPineDB

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Assembly info
Unigenes
SNPs
SSRs
Descriptions
GOs
ECs
KEGGs
InterPros
miRNAs

Assembly Name: uagpf v2.0

UniGene Name: uagpf_v2_unigene28970

Length: 491 nt

UniGene Fasta

>uagpf_v2_unigene28970
TGTGGGGTGGATGCACTGGGGCCCGAGCGTCCATGGATGGAGAAGACTTTGAAGAAGACATGGGGAGGAGGCAATGGTTGGTAGCAACATCCGTCGTTTCCTTGGCTGTCATTCAAATCTCGGCCAAGAAATTGCCAGGGCAGAAGACGTTGGTCTCTCTGAGTGGGAGCGAGTTCCTCTTCCAATCGACCCCGGAGTTGTCCTTCTTGATATTGCTTTTGTTCCAGGCGAGCCTACCCATGGTTTTCTCCTTGGTACAAGGCAAACTCTTTTGGAAACAAAGGATGGGGGGGCCTCCTGGGTTCCCCGCTCAATCCCTGCAGCAGAAGATGAGGACTTCAATTACAGATTCAATTCCATAAGTTTTAAGGGAAAGGAGGGTTGGATAGTTGGAAAGCCAGCTATTTACTGCACACTTCTGATGCTGGAGAAAACTGGGAGCGTATACCTCTAAGTTCTCAACTTCCTGGGGATCTGGTTTATATCCAAGC

Ace file of the UniGene uagpf_v2_unigene28970

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Annotations

Parent Assembly	Parent UniGene	Reads (related/total)
SustainPine v2.0	sp_v2.0_unigene137	3/3

Source	Descriptions	Term	Type	Identity
AutoFact	photosystem II stability/assembly factor HCF136 [Arabidopsis thaliana] sp\|O82660.1\|P2SAF_ARATH RecName: Full=Photosystem II stability/assembly factor HCF136, chloroplastic; Flags: Precursor emb\|CAA75723.1\| HCF136 protein [Arabidopsis thaliana] dbj\|BAB0982	-	-	77%
FL-Next	sp=Photosystem II stability/assembly factor HCF136, chloroplastic; Arabidopsis thaliana (Mouse-ear cress).	-	-	84%
Blast2go	protein	-	-	86%

Source	GOs	Term	Type	Identity
Blast2go	protein complex assembly	GO:0006461	Biological Process	86%
Blast2go	response to cadmium ion	GO:0046686	Biological Process	86%
Blast2go	plastid organization	GO:0009657	Biological Process	86%
Blast2go	chloroplast stromal thylakoid	GO:0009533	Cellular Component	86%
Blast2go	chloroplast photosystem II	GO:0030095	Cellular Component	86%
Blast2go	chloroplast thylakoid lumen	GO:0009543	Cellular Component	86%

Source	InterPros	Term	Type	e value	Identity
Sma3	Photosystem II HCF136, stability/assembly factor	IPR016705	-	0.0	-

Full-Lengther Next Prediction

Fln status: Internal

Fln database: sp_plants

Fln subject: O82660

Fln msg: Overlapping hits, possible frame ERROR between 406 and 364, Unexpected stop codon in the beginning of your sequence, Distance to subject end: 209 aas, your sequence is shorter than subject: 163 - 403

Fln protein: VGWMHWGPSVHGWRRL*RRHGEEAMVGSNIRRFLGCHSNLGQEIARAEDVGLSEWERVPLPIDPGVVLLDIAFVPGEPTHGFLLGTRQTLLETKDGGASWVPRSIPAAEDEDFNYRFNSIxxxxxxxxxxxxxxxxLHTSDAGENWERIPLSSQLPGDLVYIQ

Protein Length: 164

Fln nts: TGTGGGGTGGATGCACTGGGGCCCGAGCGTCCATGGATGGAGAAGACTTTGAAGAAGACATGGGGAGGAGGCAATGGTTGGTAGCAACATCCGTCGTTTCCTTGGCTGTCATTCAAATCTCGGCCAAGAAATTGCCAGGGCAGAAGACGTTGGTCTCTCTGAGTGGGAGCGAGTTCCTCTTCCAATCGACCCCGGAGTTGTCCTTCTTGATATTGCTTTTGTTCCAGGCGAGCCTACCCATGGTTTTCTCCTTGGTACAAGGCAAACTCTTTTGGAAACAAAGGATGGGGGGGCCTCCTGGGTTCCCCGCTCAATCCCTGCAGCAGAAGATGAGGACTTCAATTACAGATTCAATTCCATAxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxCTGCACACTTCTGATGCTGGAGAAAACTGGGAGCGTATACCTCTAAGTTCTCAACTTCCTGGGGATCTGGTTTATATCCAAGC

Fln Alignment:

uagpf_mira_c9518___ARAEDVGLSEWERVPLPIDPGVVLLDIAFVPGEPTHGFLLGTRQTLLETKDGGASWVPRSIPAAEDEDFNYRFNSISxxxxxxxxxxxxxxLLHTSDAGENWERIPLSSQLPGDLVYIQ
O82660________________ARADEQ-LSEWERVFLPIDPGVVLLDIAFVPDEPSRGFLLGTRQTLLETKDGGSTWNPRSIPSAEEEDFNYRFNSISxxxxxxxxxxxxxxLLYTADAGENWDRIPLSSQLPGDMVFIK

SNPs (tot: 4)

Position	A %	C %	G %	T %	Probability
107		33		66	0.997458
112		33	33	33	0.997752
114		66	33		0.997458
117	66	33			0.997464

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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