SustainPineDB

All assemblies
Assembly info
Unigenes
SNPs
SSRs
Descriptions
GOs
ECs
KEGGs
InterPros
miRNAs

Assembly Name: biogeco3 v1.0

UniGene Name: biog3_v1.0_unigene647

Length: 518 nt

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

UniGene Fasta (sense)

>biog3_v1.0_unigene647
AATGTATGATGATGATCATGATGATGATGGATATCGAGATTCAGAACCTGATGGAAGGGTAGAGAAGTACATAGGTGTTAAAGTGAGGGTTTCATTTACGGGGCAAGGTGAGACACAATCAATGAAGCAACTCTCTGGCGGGCAGAATGTAGTTGTAGCATTGACATTGATCTTTGCAATCCAGCGCTGTGATCCTGCTCCATTTTATCTTTTTGATGAAATAGATGCGGCACTTGATCCCCAGTACAGAACTGCTGTTGGTAATATGATTAAGCGCCAGGACAGACACTGCAACCAACACAGTTTATAACAACAACATTCAGGCCAGAGCTCGTAAAAGTTGCAGATAAGATATATGGTGTAACACACAAAACAGAGTCAGTCGTGTTGATGTCATAACAAAAGAAGATGCACTCTACTTCATTGAGCAGGATCAGAGCCACCAACGCGAGTAACAATTTACCTCTTTTGTACAAAGGCCTGTATATTCTTTCAGACATGATATGTATAATTACATT

Ace file of the UniGene biog3_v1.0_unigene647 (antisense)

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

To watch this ACE file you will need an ACE viewer program as Tablet:

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Annotations

Parent Assembly	Parent UniGene	Reads (related/total)
SustainPine v2.0	sp_v2.0_unigene3340	4/4

Source	Descriptions	Term	Type	Identity
AutoFact	pfam02463, SMC_N, RecF/RecN/SMC N terminal domain	-	-	20%
FL-Next	tr=Putative uncharacterized protein; Picea sitchensis (Sitka spruce) (Pinus sitchensis).	-	-	41%
Blast2go	smc3 protein	-	-	83%

Source	GOs	Term	Type	Identity
Blast2go	sister chromatid cohesion	GO:0007062	Biological Process	83%
Blast2go	ATP binding	GO:0005524	Molecular Function	83%
Blast2go	cohesin complex	GO:0008278	Cellular Component	83%
Blast2go	nucleus	GO:0005634	Cellular Component	83%

Source	InterPros	Term	Type	Identity
Sma3	Reverse transcriptase	IPR000477	-	-
Sma3	Ovarian tumour, otubain	IPR003323	-	-
Sma3	RecF/RecN/SMC	IPR003395	-	-
Sma3	Ubiquitin interacting motif	IPR003903	-	-
Sma3	Zinc finger, C2H2	IPR007087	-	-
Sma3	SMCs flexible hinge	IPR010935	-	-
Sma3		IPR015706	-	-
Sma3	ABC transporter, conserved site	IPR017871	-	-

Full-Lengther Next Prediction

Fln status: Putative C-terminus

Fln database: coniferopsida.fasta

Fln subject: D5A9A1

Fln msg: query STOP codon too far from subject stop. Distance to subject end: 40 aas, putative chimeric sequence, your sequence is shorter than subject: 103 - 295

Fln protein: MYDDDHDDDGYRDSEPDGRVEKYIGVKVRVSFTGQGETQSMKQLSGGQNVVVALTLIFAIQRCDPAPFYLFDEIDAALDPQYRTAVGNMIKRQDRHCNQHSL*

Protein Length: 104

Fln nts: AATGTATGATGATGATCATGATGATGATGGATATCGAGATTCAGAACCTGATGGAAGGGTAGAGAAGTACATAGGTGTTAAAGTGAGGGTTTCATTTACGGGGCAAGGTGAGACACAATCAATGAAGCAACTCTCTGGCGGGCAGAATGTAGTTGTAGCATTGACATTGATCTTTGCAATCCAGCGCTGTGATCCTGCTCCATTTTATCTTTTTGATGAAATAGATGCGGCACTTGATCCCCAGTACAGAACTGCTGTTGGTAATATGATTAAGCGCCAGGACAGACACTGCAACCAACACAGTTTATAA___CAACAACATTCAGGCCAGAGCTCGTAAAAGTTGCAGATAAGATATATGGTGTAACACACAAAACAGAGTCAGTCGTGTTGATGTCATAACAAAAGAAGATGCACTCTACTTCATTGAGCAGGATCAGAGCCACCAACGCGAGTAACAATTTACCTCTTTTGTACAAAGGCCTGTATATTCTTTCAGACATGATATGTATAATTACATT

Fln Alignment:

Contig647___QSMKQLSGGQNVVVALTLIFAIQRCDPAPFYLFDEIDAALDPQYRTAVGNMIK
D5A9A1________________KNIANLSGGEKTLSSLALVFALHHYKPTPLYVMDEIDASLDFKNVSIVGHYIK

SNPs (tot: 3)

Position	A %	C %	G %	T %	Probability
369	33		66		0.997452
370		33		66	0.997452
371	33			66	0.997452

SSRs (tot: 1)

Start position	End position	Sequence	Length
490	501	CAT CAT CAT CAT	12

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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