SustainPineDB

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

Assembly Name: biogeco3 v1.0

UniGene Name: biog3_v1.0_unigene2282

Length: 481 nt

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

UniGene Fasta (sense)

>biog3_v1.0_unigene2282
GGCCAAAGTGCTGATAGAGAAAATATTGAGGATGCAACCAGATGTAGGAAAGCTGTTTTTGATCATCAGGGCCAAGGATTCTGCGTCTGCATTAAAGAGATTGAAGAGTGAGGTTATCCAGACCGAGTTATTCAAGGGTTTACGGGAAAAATATGGAAATGAATTCGAGAAATTCATGTTGAAAAGACTGGTTCCGGTAGCTGGTGATATGACGCAAAGTAGGCTTGGATTGGAAGAAGAAATGGCCGGGGTGATCATGAAGGTAAACAGACTTTATTGTCAGTTCGGCAGCCAACACAACATTCGATGAAAGGTATGACGTGGCCCTGGAAACCAACACAAAAGGAGTTTATCGTCTTTTACAGTATGGCAAATGCTGTGAAAAACTCCAACTTTTTATTCATCTGTCTACCGCATATGTAAACGGTCAAAATCAAGGCGGAGCACCAGAGAAGCCTCTTCAGATGGGTTACAGTATAGC

Ace file of the UniGene biog3_v1.0_unigene2282 (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_unigene1962	3/3

Source	Descriptions	Term	Type	Identity
AutoFact	Male sterility-related protein n=1 Tax=Linum usitatissimum RepID=B1PAT2_LINUS	-	-	47%
FL-Next	tr=Putative uncharacterized protein; Picea sitchensis (Sitka spruce) (Pinus sitchensis).	-	-	45%
Blast2go	fatty acyl- reductase 2-like	-	-	64%

Source	GOs	Term	Type	e value	Identity
Blast2go	plastid	GO:0009536	Cellular Component	0.0	64%

Source	InterPros	Term	Type	Identity
Sma3	Regulator of chromosome condensation, RCC1	IPR000408	-	-
Sma3	Male sterility	IPR004262	-	-
Sma3	Male sterility, NAD-binding	IPR013120	-	-
Sma3	NAD(P)-binding domain	IPR016040	-	-
Sma3	Glycoside hydrolase, family 5, conserved site	IPR018087	-	-

Full-Lengther Next Prediction

Fln status: Internal

Fln database: coniferopsida.fasta

Fln subject: B8LRT2

Fln msg: Separated hits, possible frame ERROR between 241 and 270, Distance to subject end: 325 aas, your sequence is shorter than subject: 160 - 510

Fln protein: AKVLIEKILRMQPDVGKLFLIIRAKDSASALKRLKSEVIQTELFKGLREKYGNEFEKFMLKRLVPVAGDMTQSRLGLEExxxxxxxxxxxDFIVSSAANTTFDERYDVALETNTKGVYRLLQYGKCCEKLQLFIHLSTAYVNGQNQGGAPEKPLQMGYSI

Protein Length: 161

Fln nts: GGCCAAAGTGCTGATAGAGAAAATATTGAGGATGCAACCAGATGTAGGAAAGCTGTTTTTGATCATCAGGGCCAAGGATTCTGCGTCTGCATTAAAGAGATTGAAGAGTGAGGTTATCCAGACCGAGTTATTCAAGGGTTTACGGGAAAAATATGGAAATGAATTCGAGAAATTCATGTTGAAAAGACTGGTTCCGGTAGCTGGTGATATGACGCAAAGTAGGCTTGGATTGGAAGAAGAxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxAGACTTTATTGTCAGTTCGGCAGCCAACACAACATTCGATGAAAGGTATGACGTGGCCCTGGAAACCAACACAAAAGGAGTTTATCGTCTTTTACAGTATGGCAAATGCTGTGAAAAACTCCAACTTTTTATTCATCTGTCTACCGCATATGTAAACGGTCAAAATCAAGGCGGAGCACCAGAGAAGCCTCTTCAGATGGGTTACAGTATAGC

Fln Alignment:

Contig2282___KVLIEKILRMQPDVGKLFLIIRAKDSASALKRLKSEVIQTELFKGLREKYGNEFEKFMLKRLVPVAGDMTQS-RLGLEEExxxxxxxxxxDFIVSSAANTTFDERYDVALETNTKGVYRLLQYGKCCEKLQLFIHLSTAYVNGQNQGGAPEKPLQMGYSI
B8LRT2_________________KIFVEKILRTQPGVKRIFVLLRSEDFESAKIRFKNEVMGAELFKTLRGQHGDNFENFVFQKVVPVVGDVAGGHNLGIDKExxxxxxxxxxDAIVNNAASTMFDDRYDISLNVNTRGAENIVEFAKRCRKLQILLHVSTAYVVGRGSGRIKESPLKIGESM

SNPs (tot: 6)

Position	A %	C %	G %	T %	Probability
125	25		75		0.996473
127		75		25	0.996473
208	50		25		0.995533
209	25	50	25		0.995533
210	75			25	0.996473
211			25	75	0.996473

Back

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