SustainPineDB

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Assembly info
Unigenes
SNPs
SSRs
Descriptions
GOs
ECs
KEGGs
InterPros
miRNAs

Assembly Name: biogeco2 v2.0

UniGene Name: biog2_v2.0_unigene10522

Length: 510 nt

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

UniGene Fasta (sense)

>biog2_v2.0_unigene10522
GTCGATGGGGGACGTTCCCAAGCCCGTTAAAAGTTTTCGTGACGCAGGTTTTCCAGAGTATGTTCTTGAAGAGGTTGTAAAGGCAGGCTTTACGGAGCCAACACCTATTCAAGCTCAAGGATGGCCTATGGCTTTGAAAGGGCGGGATTTAATTGGTATTGCTGAGACAGGCTCTGGGAAGACACTGGCATATCTTTTACCTGCTATTGTTCATGTTAATGCTCAACCTTATTTAGCTCCAGGAGATGGGCCTATTGTCTTAGTGTTAGCACCTACACGTGAGCTTGCTGTACAGATCCAGCAAGAGGCAACTAAATTTGGGGCATCGTCAAAATCAAGAATACGTGTATATATGGAGGTGCTCCCAAAGGTCCACAAGTACGAGATCTTTCGAAAGGGGTTGAGATTGTCATTGCAACTCCGGGCCGGTTAATCGATATGTTGGAGTCACAAAATACAAACTTGCGAAGAGTGACATATCTTGTGTTAGATGAAGCTGATCGTATGTAC

Ace file of the UniGene biog2_v2.0_unigene10522 (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_unigene21088	3/3

Source	Descriptions	Term	Type	Identity
AutoFact	RecName: Full=DEAD-box ATP-dependent RNA helicase 20	-	-	72%
FL-Next	tr=Putative uncharacterized protein; Picea sitchensis (Sitka spruce) (Pinus sitchensis).	-	-	79%
Blast2go	dead-box atp-dependent rna helicase	-	-	86%

Source	InterPros	Term	Type	Identity
Sma3	Helicase, superfamily 1/2, ATP-binding domain	IPR014001	-	-
Sma3	Helicase, C-terminal	IPR001650	-	-
Sma3	DNA/RNA helicase, DEAD/DEAH box type, N-terminal	IPR011545	-	-
Sma3		IPR014021	-	-
Sma3	RNA helicase, ATP-dependent, DEAD-box, conserved site	IPR000629	-	-
Sma3	RNA helicase, DEAD-box type, Q motif	IPR014014	-	-

Full-Lengther Next Prediction

Fln status: Internal

Fln database: coniferopsida.fasta

Fln subject: B8LKZ7

Fln msg: Overlapping hits, possible frame ERROR between 409 and 331, Distance to subject end: 245 aas, your sequence is shorter than subject: 170 - 504

Fln protein: SMGDVPKPVKSFRDAGFPEYVLEEVVKAGFTEPTPIQAQGWPMALKGRDLIGIAETGSGKTLAYLLPAIVHVNAQPYLAPGDGPIVLVLAPTRELAVQIQQEATKFGASxxxxxxxxxxxxxxxxxxxxxxxxxxxxIATPGRLIDMLESQNTNLRRVTYLVLDEADRMY

Protein Length: 171

Fln nts: GTCGATGGGGGACGTTCCCAAGCCCGTTAAAAGTTTTCGTGACGCAGGTTTTCCAGAGTATGTTCTTGAAGAGGTTGTAAAGGCAGGCTTTACGGAGCCAACACCTATTCAAGCTCAAGGATGGCCTATGGCTTTGAAAGGGCGGGATTTAATTGGTATTGCTGAGACAGGCTCTGGGAAGACACTGGCATATCTTTTACCTGCTATTGTTCATGTTAATGCTCAACCTTATTTAGCTCCAGGAGATGGGCCTATTGTCTTAGTGTTAGCACCTACACGTGAGCTTGCTGTACAGATCCAGCAAGAGGCAACTAAATTTGGGGCATCGxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxATTGCAACTCCGGGCCGGTTAATCGATATGTTGGAGTCACAAAATACAAACTTGCGAAGAGTGACATATCTTGTGTTAGATGAAGCTGATCGTATGTAC

Fln Alignment:

biogeco2_mira_c6754___DVPKPVKSFRDAGFPEYVLEEVVKAGFTEPTPIQAQGWPMALKGRDLIGIAETGSGKTLAYLLPAIVHVNAQPYLAPGDGPIVLVLAPTRELAVQIQQEATKFGASSxxxxxxxxxxxxxxxxxxxxxxxxxxVIATPGRLIDMLESQNTNLRRVTYLVLDEADRM
B8LKZ7__________________DVPKPVKNFGDAGFPDYVIEEIVKAGFTEPTPIQAQGWPMALKGRDLIGIAETGSGKTLAYLLPAIVHVNAQPYLAPGDGPIVLVLAPTRELAVQIQQEAAKFGASSxxxxxxxxxxxxxxxxxxxxxxxxxxVIATPGRLIDMLESQHTNLRRVTYLVLDEADRM

SNPs (tot: 4)

Position	A %	C %	G %	T %	Probability
220			33	66	0.997452
244		33		66	0.997452
332		33		66	0.997452
484	66		33		0.997456

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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