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_unigene112341

Length: 394 nt

UniGene Fasta

>sp_v3.0_unigene112341
CGTCGTGACCTTGGCTGTCGCTGGATTTTTGAGGGGAAAAGACTGCATTCATTTGTTTCTAGAGATAGAACACACCCGCGAACAGAGGAGATCTATGCAAAGTTAGATGAATTGATTAGGCAGGCCAAGGCGGAAGGTTATGAACCTGATACAAGCTTTGTCTTGCAAGATGTAGAGCCACATCATCGGGAGCACTTTGTCACATATCATTGTGAAAAGCTGGTTGTTGCTTTTGGGCTTCTTATCACACCACGAGGGACACCTATCCGGATCATTAAAAGCATCTGTGTTTGTGGTGACTGCCACACTTTTACCAAGTTTGTCTCCAAGATTGTCGGGAAAGAATCATTCTGAGAGATGGCAGTTGCTTCCATCATTTCAGGGCTGTTTATTG

Ace file of the UniGene sp_v3.0_unigene112341

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Annotations

Source	Descriptions	Term	Type	Identity
AutoFact	Unassigned protein	-	-	-
FL-Next	tr=Putative uncharacterized protein; Picea sitchensis (Sitka spruce) (Pinus sitchensis).	-	-	56%
Sma3	Pentatricopeptide repeat protein	-	-	-

Source	Gene names
Sma3	At3g61170; At4g33170; F4I10.100; GSVIVT00016683001; GSVIVT00017247001; GSVIVT00021586001; GSVIVT00021587001; GSVIVT00021721001; GSVIVT00025530001; GSVIVT00025891001; GSVIVT00026234001; GSVIVT00028372001; GSVIVT00031076001; GSVIVT00034995001; GSVIVT0003742

Source	GOs	Term	Type	e value	Identity
Sma3	binding	GO:0005488	Molecular Function	0.0	-

Source	InterPros	Term	Type	Identity
Sma3	Pentatricopeptide repeat	IPR002885	-	-
Sma3	Uncharacterised protein family Cys-rich	IPR006461	-	-
Sma3	Tetratricopeptide-like helical	IPR011990	-	-
Sma3	Asp/Glu racemase, active site	IPR018187	-	-

Source	Species	ID	Description	e value	Identity
ATG	Arabidoptis thaliana	AT4G33170.1	Tetratricopeptide repeat (TPR)-like superfamily protein chr4:15995701-15998673 REVERSE LENGTH=990	7.0e-32	48%
RefSeq	Arabidopsis thaliana	NP_195043.1	pentatricopeptide repeat-containing protein [Arabidopsis thaliana]	9.0e-32	48%
RefSeq	Populus trichocarpa	XP_002306231.1	predicted protein [Populus trichocarpa]	8.0e-32	45%

Full-Lengther Next Prediction

Fln status: Putative C-terminus

Fln database: coniferopsida.fasta

Fln subject: D5AAE0

Fln msg: query STOP codon is far from subject stop. Distance to subject end: 20 aas, your sequence is shorter than subject: 118 - 246

Fln protein: RRDLGCRWIFEGKRLHSFVSRDRTHPRTEEIYAKLDELIRQAKAEGYEPDTSFVLQDVEPHHREHFVTYHCEKLVVAFGLLITPRGTPIRIIKSICVCGDCHTFTKFVSKIVGKESF*

Protein Length: 119

Fln nts: CGTCGTGACCTTGGCTGTCGCTGGATTTTTGAGGGGAAAAGACTGCATTCATTTGTTTCTAGAGATAGAACACACCCGCGAACAGAGGAGATCTATGCAAAGTTAGATGAATTGATTAGGCAGGCCAAGGCGGAAGGTTATGAACCTGATACAAGCTTTGTCTTGCAAGATGTAGAGCCACATCATCGGGAGCACTTTGTCACATATCATTGTGAAAAGCTGGTTGTTGCTTTTGGGCTTCTTATCACACCACGAGGGACACCTATCCGGATCATTAAAAGCATCTGTGTTTGTGGTGACTGCCACACTTTTACCAAGTTTGTCTCCAAGATTGTCGGGAAAGAATCATTCTGA___GAGATGGCAGTTGCTTCCATCATTTCAGGGCTGTTTATTG

Fln Alignment:

AllPine_a_c46300___GCRWIFEGKRLHSFVSRDRTHPRTEEIYAKLDELIRQAKAEGYEPDTSFVLQDVEPHHREHFVTYHCEKLVVAFGLLITPRGTPIRIIKSICVCGDCHTFTKFVSKIVGKE
D5AAE0________________GCSWIEVKNKVHTFMVEDKSHPQTEEIYSTLEELARQMEAAGYVPDTNFVLHDVEMEQKEHSLYHHSEKLAIAFGLISTLPGLPVRIIKNLRVCGDCHTATKFISKIVERE

SNPs (tot: 8)

Position	A %	C %	G %	T %	Probability
83		66		33	0.997476
95		33		66	0.997471
137			66	33	0.997476
140			33	66	0.997456
141	66		33		0.997456
153	75		25		0.996476
168		66		33	0.997452
253	66		33		0.997476

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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