SustainPineDB

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Assembly info
Unigenes
SNPs
SSRs
Descriptions
GOs
ECs
KEGGs
InterPros
miRNAs

Assembly Name: SustainPine v2.0

UniGene Name: sp_v2.0_unigene33834

Length: 479 nt

Origin of reads: Biogeco1 v2 Biogeco2 v2 Uma v2

UniGene Fasta

>sp_v2.0_unigene33834
TTTTGAGCCGGCTCCTCCAGGTAAAAGAAAAGTGGTTGTGGCCACCAATATCGCGTGAGCTTCTTTGACCATTGATGGAATCTACTATGTTGTTGATCCTGGCTTTGCTAAGCAGAATGTATACAATCCAAAACTTGGTCTGGATTCGCTGGTCATTACACCAATTTCTCAAGCATCGGCTAAGCAACGTGCTGGACGTGCTGGTCGTACCGGTCCTGGTAAGTGCTATCGGCTATACACAGAAAGTGCATATCGCAATGAGATGCTGCCCACCACTGTGCCAGAAATACAGAGGATTAATCTTGGAGTCACGACACTTAACATGAAAGCCATGGGGATCAATGACCTCCTCTCCTTTGATTTTATGGACCCCCCTCCTCCTCAAGCACTCATATCTGCAATGGAACAGCTGTACAGTTTAGGAGCTTTGGATGAGGAGGGTCTTCTAACCAAATTGGGGAGGAAAATGGCTGAATTTC

Ace file of the UniGene sp_v2.0_unigene33834

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Annotations

Source	Descriptions	Term	Type	Identity
AutoFact	ATP-dependent RNA helicase, putative n=1 Tax=Ricinus communis RepID=B9R8Y0_RICCO	-	-	93%
FL-Next	tr=Putative uncharacterized protein; Picea sitchensis (Sitka spruce) (Pinus sitchensis).	-	-	59%
Blast2go	probable pre-mrna-splicing factor atp-dependent rna helicase-like	-	-	95%

Source	GOs	Term	Type	Identity
Blast2go	binding	GO:0005488	Molecular Function	95%
Blast2go	helicase activity	GO:0004386	Molecular Function	95%
Blast2go	cytosol	GO:0005829	Cellular Component	95%
Blast2go	mitochondrion	GO:0005739	Cellular Component	95%

Source	InterPros	Term	Type	Identity
Sma3	Fumarate lyase	IPR000362	-	-
Sma3	Adenylate kinase	IPR000850	-	-
Sma3	von Willebrand factor, type C	IPR001007	-	-
Sma3	Integrase, catalytic core	IPR001584	-	-
Sma3	Helicase, C-terminal	IPR001650	-	-
Sma3	Zinc finger, RING-type	IPR001841	-	-
Sma3	Zinc finger, CCHC-type	IPR001878	-	-
Sma3	DNA/RNA helicase, ATP-dependent, DEAH-box type, conserved site	IPR002464	-	-
Sma3	Zinc finger, C6HC-type	IPR002867	-	-
Sma3	Pentatricopeptide repeat	IPR002885	-	-
Sma3	Ribosomal protein S1, RNA-binding domain	IPR003029	-	-
Sma3	AAA+ ATPase domain	IPR003593	-	-
Sma3	K Homology domain	IPR004087	-	-
Sma3	Adenylate kinase, subfamily	IPR006259	-	-
Sma3	Zinc finger, C2H2	IPR007087	-	-
Sma3	Helicase-associated domain	IPR007502	-	-
Sma3	Adenylate kinase, active site lid domain	IPR007862	-	-
Sma3	RNA helicase, ATP-dependent DEAH box, HrpB-type	IPR010225	-	-
Sma3	TonB box, conserved site	IPR010916	-	-
Sma3	DNA/RNA helicase, DEAD/DEAH box type, N-terminal	IPR011545	-	-
Sma3	Domain of unknown function DUF1605	IPR011709	-	-
Sma3	Nucleic acid-binding, OB-fold	IPR012340	-	-
Sma3	Reverse transcriptase, RNA-dependent DNA polymerase	IPR013103	-	-
Sma3	RNA helicase, ATP-dependent, HrpB type, C-terminal	IPR013689	-	-
Sma3	Helicase, superfamily 1/2, ATP-binding domain	IPR014001	-	-
Sma3		IPR014021	-	-
Sma3	Zinc finger, C2H2-like	IPR015880	-	-
Sma3	Zinc finger, RING-type, conserved site	IPR017907	-	-
Sma3	Rubredoxin, iron-binding site	IPR018527	-	-
Sma3	Zinc finger, C3HC4 RING-type	IPR018957	-	-

Full-Lengther Next Prediction

Fln status: N-terminus

Fln database: coniferopsida.fasta

Fln subject: D5ADJ5

Fln msg: Distance to subject end: 276 aas, your sequence is shorter than subject: 72 - 348

Fln protein: MLPTTVPEIQRINLGVTTLNMKAMGINDLLSFDFMDPPPPQALISAMEQLYSLGALDEEGLLTKLGRKMAEF

Protein Length: 73

Fln nts: TTTTGAGCCGGCTCCTCCAGGTAAAAGAAAAGTGGTTGTGGCCACCAATATCGCGTGAGCTTCTTTGACCATTGATGGAATCTACTATGTTGTTGATCCTGGCTTTGCTAAGCAGAATGTATACAATCCAAAACTTGGTCTGGATTCGCTGGTCATTACACCAATTTCTCAAGCATCGGCTAAGCAACGTGCTGGACGTGCTGGTCGTACCGGTCCTGGTAAGTGCTATCGGCTATACACAGAAAGTGCATATCGCAATGAG_-_ATGCTGCCCACCACTGTGCCAGAAATACAGAGGATTAATCTTGGAGTCACGACACTTAACATGAAAGCCATGGGGATCAATGACCTCCTCTCCTTTGATTTTATGGACCCCCCTCCTCCTCAAGCACTCATATCTGCAATGGAACAGCTGTACAGTTTAGGAGCTTTGGATGAGGAGGGTCTTCTAACCAAATTGGGGAGGAAAATGGCTGAATTTC

Fln Alignment:

AllPineV4_c22099___MLPTTVPEIQRINLGVTTLNMKAMGINDLLSFDFMDPPPPQALISAMEQLYSLGALDEEGLLTKLGRKMAEF
D5ADJ5_______________MLPNPVPEIQRTNLGNVVLLLKSLNIENLLDFDFMDPPPQDNILNSMYQLWVLGALDNVGRLTALGRKMVEF

SNPs (tot: 3)

Position	A %	C %	G %	T %	Probability
273		14		85	0.993533
274	14		85		0.993533
275		85		14	0.993533

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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