SustainPineDB

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Assembly info
Unigenes
SNPs
SSRs
Descriptions
GOs
ECs
KEGGs
InterPros
miRNAs

Assembly Name: biogeco3 v1.0

UniGene Name: biog3_v1.0_unigene26177

Length: 542 nt

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

UniGene Fasta (sense)

>biog3_v1.0_unigene26177
GATATGATTCTTCGTTTATTTGATGTCACTGCTGTGCGACTTGTGCGCATATTTGTTGGGCACATGGACCGTGTCACTGATTTGTGTTTTAGTGGAGATGGAAAGTGGCTATTGTCATCTAGTATGGATGGGACCATAAGAGTTTGGGATGTAATTTCATCCAGGCAACTCAATGCAATGCACATGGATTCAGCTGTAACAGCTTTGTCATTGTCACCGGGTATGGATATGCTGGCAACGACTCATGTTGGTCACAATGGCATCTATCTCTGGGCAAATCGGATGATATATTCAAGGCTACTGACATTGAGCCCTTTGTAAGTGGGAAGCAAGTTGTGAAGGTTTCTATGCCAACTGTCTCATCCAAAAGAGAATTGGAGGAAGGGGATGAGAGAAGAACAATTGTTGCAGAATCAAATGTCAATAAGTCTGATGTTTCTGGTAGCTTGATTGGGGATTCATATTCAGCTCAACTTACGCCTGAACTTGTGACGCTTGCACTGCTGCCTAAAGCTCAGTGGCAAAGTCTTGTCAATTACATT

Ace file of the UniGene biog3_v1.0_unigene26177 (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_unigene9935	1/3
SustainPine v2.0	sp_v2.0_unigene21197	2/3

Source	Descriptions	Term	Type	e value	Identity
AutoFact	[R] COG2319 FOG: WD40 repeat	-	-	2.0e-27	38%
FL-Next	tr=Putative uncharacterized protein; Picea sitchensis (Sitka spruce) (Pinus sitchensis).	-	-	0.0	32%
Blast2go	protein	-	-	0.0	72%

Source	InterPros	Term	Type	Identity
Sma3	WD40 repeat	IPR001680	-	-
Sma3	Small-subunit processome, Utp21	IPR007319	-	-
Sma3	WD40/YVTN repeat-like-containing domain	IPR015943	-	-
Sma3	Homeobox, conserved site	IPR017970	-	-
Sma3	WD40-repeat-containing domain	IPR017986	-	-
Sma3	WD40 repeat, conserved site	IPR019775	-	-
Sma3		IPR019782	-	-

Full-Lengther Next Prediction

Fln status: Putative C-terminus

Fln database: coniferopsida.fasta

Fln subject: D5AA90

Fln msg: query STOP codon too far from subject stop. Distance to subject end: 76 aas, putative chimeric sequence, your sequence is shorter than subject: 107 - 205

Fln protein: DMILRLFDVTAVRLVRIFVGHMDRVTDLCFSGDGKWLLSSSMDGTIRVWDVISSRQLNAMHMDSAVTALSLSPGMDMLATTHVGHNGIYLWANRMIYSRLLTLSPL*

Protein Length: 108

Fln nts: GATATGATTCTTCGTTTATTTGATGTCACTGCTGTGCGACTTGTGCGCATATTTGTTGGGCACATGGACCGTGTCACTGATTTGTGTTTTAGTGGAGATGGAAAGTGGCTATTGTCATCTAGTATGGATGGGACCATAAGAGTTTGGGATGTAATTTCATCCAGGCAACTCAATGCAATGCACATGGATTCAGCTGTAACAGCTTTGTCATTGTCACCGGGTATGGATATGCTGGCAACGACTCATGTTGGTCACAATGGCATCTATCTCTGGGCAAATCGGATGATATATTCAAGGCTACTGACATTGAGCCCTTTGTAA___GTGGGAAGCAAGTTGTGAAGGTTTCTATGCCAACTGTCTCATCCAAAAGAGAATTGGAGGAAGGGGATGAGAGAAGAACAATTGTTGCAGAATCAAATGTCAATAAGTCTGATGTTTCTGGTAGCTTGATTGGGGATTCATATTCAGCTCAACTTACGCCTGAACTTGTGACGCTTGCACTGCTGCCTAAAGCTCAGTGGCAAAGTCTTGTCAATTACATT

Fln Alignment:

biogeco3_mira_rep_c30065___DMILRLFDVTAVRLVRIFVGHMDRVTDLCFSGDGKWLLSSSMDGTIRVWDVISSRQLNAMHMDS--AVTALSLSP-GMDMLATT
D5AA90__________________DETLRVWDVKTGKCLKMIPAHTDPITAVHFNRDGSLIVSSSRDGSCKIWDLSTGACLKTLIDDKTPVVSFVEFSPNGRFILAAT

SNPs (tot: 4)

Position	A %	C %	G %	T %	Probability
266	33			66	0.997467
267	33			66	0.997467
270		66		33	0.997467
301	66		33		0.997464

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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