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_unigene56000

Length: 347 nt

This UniGene was originaly assembled in antisense
ACE File: antisense
Fasta: sense

UniGene Fasta (sense)

>uagpf_v2_unigene56000
CGTCGTGACCTTGGCTGTCACTCATCTCCCCTGTTGCCAAAATGAACTCTATCTGCCTTGTTCTTCCCCTTGCTGCCTCTTTCAAATGGGAAGCCCATTAGATGGATGTTAATTTGCCTTCTTGCATGGGGATTTGCATGAAGAAATCTATATGGAACAACCTCATGGCTTTATACAAATTGACTCCAGCCTTGTATGTCGGCTTAAGAAATACCTTTATGGTCTCAAGTAAGCCCCTCGGGTTTGGTATGCCAAAATGGATAGCTTTCTTTTAGATATTGGCTTTTCCAAGTGCCATTCTGACAGTATTGTCTACACTAAGATGAGTGACAGCCAAGGTCACGACG

Ace file of the UniGene uagpf_v2_unigene56000 (antisense)

If you push the Download ace button, you will download an ace file of this UniGene.

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Annotations

Parent Assembly	Parent UniGene	Reads (related/total)
SustainPine v2.0	sp_v2.0_unigene83368	1/3
SustainPine v2.0	sp_v2.0_unigene83382	2/3

Source	Descriptions	Term	Type	e value	Identity
AutoFact	Reverse transcriptase (Fragment) n=1 Tax=Ginkgo biloba RepID=Q4JQ43_GINBI	-	-	1.0e-18	56%
FL-Next	tr=Reverse transcriptase; Picea glauca (White spruce) (Pinus glauca).	-	-	0.0	43%
Blast2go	reverse transcriptase	-	-	1.01554e-23	71%

Source	InterPros	Term	Type	Identity
Sma3	Toll/interleukin-1 receptor homology (TIR) domain	IPR000157	-	-
Sma3	Peptidase, cysteine peptidase active site	IPR000169	-	-
Sma3	Integrase, catalytic core	IPR001584	-	-
Sma3	Leucine-rich repeat	IPR001611	-	-
Sma3	F-box domain, cyclin-like	IPR001810	-	-
Sma3	Pleckstrin homology domain	IPR001849	-	-
Sma3	Zinc finger, CCHC-type	IPR001878	-	-
Sma3	Germin	IPR001929	-	-
Sma3	NB-ARC	IPR002182	-	-
Sma3	Protein of unknown function DUF247, plant	IPR004158	-	-
Sma3	Putative 5-3 exonuclease	IPR004859	-	-
Sma3	Protein of unknown function DUF295	IPR005174	-	-
Sma3	Cupin 1	IPR006045	-	-
Sma3	Leucine-rich repeat 3	IPR011713	-	-
Sma3		IPR013084	-	-
Sma3	Reverse transcriptase, RNA-dependent DNA polymerase	IPR013103	-	-
Sma3	RmlC-like jelly roll fold	IPR014710	-	-
Sma3	F-box associated interaction domain	IPR017451	-	-
Sma3	Peptidase A2A, retrovirus RVP subgroup	IPR018061	-	-
Sma3	Germin, manganese binding site	IPR019780	-	-

Full-Lengther Next Prediction

Fln status: Internal

Fln database: coniferopsida.fasta

Fln subject: Q9M5J7

Fln msg: Separated hits, possible frame ERROR between 110 and 119, Unexpected stop codon in the beginning of your sequence, Distance to subject end: 279 aas, your sequence is shorter than subject: 115 - 542

Fln protein: S*PWLSLISPVAKMNSICLVLPLAASFKWEAH*MDxxxxFLHGDLHEEIYMEQPHGFIQIDSSLVCRLKKYLYGLK*APRVWYAKMDSFLLDIGFSKCHSDSIVYTKMSDSQGHD

Protein Length: 116

Fln nts: CGTCGTGACCTTGGCTGTCACTCATCTCCCCTGTTGCCAAAATGAACTCTATCTGCCTTGTTCTTCCCCTTGCTGCCTCTTTCAAATGGGAAGCCCATTAGATGGATGTxxxxxxxxxCTTCTTGCATGGGGATTTGCATGAAGAAATCTATATGGAACAACCTCATGGCTTTATACAAATTGACTCCAGCCTTGTATGTCGGCTTAAGAAATACCTTTATGGTCTCAAGTAAGCCCCTCGGGTTTGGTATGCCAAAATGGATAGCTTTCTTTTAGATATTGGCTTTTCCAAGTGCCATTCTGACAGTATTGTCTACACTAAGATGAGTGACAGCCAAGGTCACGACG

Fln Alignment:

uagpf_mira_rep_c93749___LISPVAKMNSICLVLPLAASFKWEAH*MDVxxxFLHGDLHEEIYMEQPHGFI-QIDSSLVCRLKKYLYGLK*APRVWYAKMDSFLLDIGFSKCHSDSIVYTK
Q9M5J7________________IFSPVAKLTSIRFLLSIVVAFDLEVEQMDVxxxFLHGDLEEEIYMKQPEGFVVKGNKELVCKINKSLCGVKQSPRMWYQKFDTYILRLGFVISRADHCVYSK

SNPs (tot: 5)

Position	A %	C %	G %	T %	Probability
147		66		33	0.997459
159		66		33	0.997467
167	66			33	0.997454
168	66		33		0.997467
180		66	33		0.997454

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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