SustainPineDB

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

Assembly Name: biogeco3 v1.0

UniGene Name: biog3_v1.0_unigene8550

Length: 396 nt

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

UniGene Fasta (sense)

>biog3_v1.0_unigene8550
CCAGCAGTCTTAAGAGCAGCAAATACCTGGGGTCATAAGCCATTACTTGTGAGGGCTAACAGTGTTGTTGATATTGGACAGGCCGCCTTGGTCAAAAAGGTACAGTTGTTTCTATTTGCGAACAACAAGAGGAATTTGTTCTTAAAAAGTTTCAGAAGCAACTTGGCATTTCCATTAGTTGCTGTGATTTTGTTGGGGGCCAACTTACTATCTGCAAGAAACCTGACGAGAAAATTAAAAATTAAGTACCTTTACAAATGATGGTGGAAGACTTTATAATTGGACTCAAAAATCAAGGGTTCACGTGGCATGGTAGTCAGCTTCTTACATTCATCTTGCTTTCTCAGGGGTATGTGAAACTACTGCATGTAGTAATGTTCTTATTTTCTTTACATT

Ace file of the UniGene biog3_v1.0_unigene8550 (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:

Go to the Tablet ACE viewer Web

Annotations

Parent Assembly	Parent UniGene	Reads (related/total)
SustainPine v2.0	sp_v2.0_unigene140	2/3

Source	Descriptions	Term	Type	Identity
AutoFact	Dead box ATP-dependent RNA helicase, putative n=1 Tax=Ricinus communis RepID=B9RC60_RICCO	-	-	56%
FL-Next	sp=DEAD-box ATP-dependent RNA helicase 47A; Oryza sativa subsp. japonica (Rice).	-	-	54%
Blast2go	atp-dependent rna helicase	-	-	70%

Source	GOs	Term	Type	Identity
Blast2go	embryo development ending in seed dormancy	GO:0009793	Biological Process	70%
Blast2go	plasmodesmata-mediated intercellular transport	GO:0010497	Biological Process	70%
Blast2go	plasmodesma organization	GO:0009663	Biological Process	70%
Blast2go	binding	GO:0005488	Molecular Function	70%
Blast2go	RNA helicase activity	GO:0003724	Molecular Function	70%
Blast2go	plastid	GO:0009536	Cellular Component	70%
Blast2go	mitochondrion	GO:0005739	Cellular Component	70%

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

Full-Lengther Next Prediction

Fln status: C-terminus

Fln database: sp_plants

Fln subject: Q6H874

Fln msg: Unexpected stop codon in the beginning of your sequence, your sequence is shorter than subject: 81 - 573

Fln protein: SSLKSSKYLGS*AITCEG*QCC*YWTGRLGQKGTVVSICEQQEEFVLKKFQKQLGISISCCDFVGGQLTICKKPDEKIKN*

Protein Length: 82

Fln nts: CCAGCAGTCTTAAGAGCAGCAAATACCTGGGGTCATAAGCCATTACTTGTGAGGGCTAACAGTGTTGTTGATATTGGACAGGCCGCCTTGGTCAAAAAGGTACAGTTGTTTCTATTTGCGAACAACAAGAGGAATTTGTTCTTAAAAAGTTTCAGAAGCAACTTGGCATTTCCATTAGTTGCTGTGATTTTGTTGGGGGCCAACTTACTATCTGCAAGAAACCTGACGAGAAAATTAAAAATTAA___GTACCTTTACAAATGATGGTGGAAGACTTTATAATTGGACTCAAAAATCAAGGGTTCACGTGGCATGGTAGTCAGCTTCTTACATTCATCTTGCTTTCTCAGGGGTATGTGAAACTACTGCATGTAGTAATGTTCTTATTTTCTTTACATT

Fln Alignment:

Contig8550___TGRLGQKGTVVSICEQQEEFVLKKFQKQLGISISCCDFVGGQLTICKKPD
Q6H874_________________TGRLGRKGTVVTICEETETFVVRKMRKQLAVPIKPCEFTEGKLLVHKEED

SNPs (tot: 3)

Position	A %	C %	G %	T %	Probability
60			66	33	0.997452
61		66	33		0.997452
62	66			33	0.997452

Back

Biología Molecular y Biotecnología de Plantas, Facultad de Ciencias y Plataforma Andaluza de Bioinformática, Universidad de Málaga, E-29071 Málaga, Spain