SustainPineDB

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Assembly info
Unigenes
SNPs
SSRs
Descriptions
GOs
ECs
KEGGs
InterPros
miRNAs

Assembly Name: SustainPine v3.0

UniGene Name: sp_v3.0_unigene203422

Length: 522 nt

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

UniGene Fasta (sense)

>sp_v3.0_unigene203422
AGTAATTTCACATCAAAATAATTTAATGAATTTGTAAAATACATGGAATTAAAAGAGAATTCTTTGCTGCCAAAACACACCAGCATAATGGGGTAGTTGAAAGAAGAAACCGAACAGTTCAAGCAATGGAAAGAACAATGCTATTAGCAGCAAATTTGCAGCCAAAATTCTGGAGAGAAGCAGTCGGGACAGCTGTCTATACCTTGAATCGAACTCAATTAAGACCAAATAGTGAAAAAACTCCTTATGAACTATGGAAAGGAAGACCTGCTTTAGTAAAGTACTTCAAGATCTTTGGAAGCAAGTGCTTCATAAAAATCAATGATGGCTCACCAGGAAAGTTTGATTCTCGGGTTGACAAAGGGATCTTCCTTGGATACTCTACACGGAGCAAAGCCTACAAGTGCTACAATAATCGACTAAGGAAATACTAGAAAGCATTGATGTAAAGATTGATGAGGACCTTCCAGAAAAAGAAATTGAAGAGCATGAAGTTGATCCTCTCATTGAAGAAGAAGACCC

Ace file of the UniGene sp_v3.0_unigene203422 (antisense)

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Annotations

Source	Descriptions	Term	Type	e value	Identity
AutoFact	rve domain containing protein	-	-	8.0e-05	45%
FL-Next	tr=Putative uncharacterized protein; Picea sitchensis (Sitka spruce) (Pinus sitchensis).	-	-	0.0	45%
Sma3	Retrotransposon protein, putative, Ty1-copia subclass	-	-	3.674e-08	-

Source	Gene names
Sma3	LOC_Os03g12600; LOC_Os03g22300; LOC_Os03g33940; LOC_Os03g44470; LOC_Os03g49980; LOC_Os10g20660; LOC_Os12g37810; MtrDRAFT_AC147431g15v2; MtrDRAFT_AC149577g2v1; MtrDRAFT_AC169177g15v1; OJ1626B05.6; OSIGBa0113K06.6; OSJNBa0002L02.11; OSJNBa0037J17.17; OSJNBa

Source	GOs	Term	Type	Identity
Sma3	nucleic acid binding	GO:0003676	Molecular Function	-
Sma3	DNA binding	GO:0003677	Molecular Function	-
Sma3	RNA binding	GO:0003723	Molecular Function	-
Sma3	RNA-directed DNA polymerase activity	GO:0003964	Molecular Function	-
Sma3	aspartic-type endopeptidase activity	GO:0004190	Molecular Function	-
Sma3	zinc ion binding	GO:0008270	Molecular Function	-
Sma3	transferase activity	GO:0016740	Molecular Function	-
Sma3	RNA-dependent DNA replication	GO:0006278	Biological Process	-
Sma3	proteolysis	GO:0006508	Biological Process	-
Sma3	DNA integration	GO:0015074	Biological Process	-

Source	InterPros	Term	Type	Identity
Sma3	Peptidase S8/S53, subtilisin/kexin/sedolisin	IPR000209	-	-
Sma3	Reverse transcriptase	IPR000477	-	-
Sma3	Aminoacyl-tRNA synthetase, class I, conserved site	IPR001412	-	-
Sma3	Integrase, catalytic core	IPR001584	-	-
Sma3	Zinc finger, CCHC-type	IPR001878	-	-
Sma3	Retrotransposon gag protein	IPR005162	-	-
Sma3		IPR013084	-	-
Sma3	Reverse transcriptase, RNA-dependent DNA polymerase	IPR013103	-	-
Sma3	Glycoside hydrolase, family 5, conserved site	IPR018087	-	-
Sma3	Carbohydrate kinase, FGGY, conserved site	IPR018483	-	-

Full-Lengther Next Prediction

Fln status: Internal

Fln database: coniferopsida.fasta

Fln subject: B8LKX7

Fln msg: Unexpected stop codon in the beginning of your sequence, Unexpected STOP codon at 3' end. Distance to subject end: 28 aas, your sequence is shorter than subject: 144 - 407

Fln protein: *FHIKII**ICKIHGIKREFFAAKTHQHNGVVERRNRTVQAMERTMLLAANLQPKFWREAVGTAVYTLNRTQLRPNSEKTPYELWKGRPALVKYFKIFGSKCFIKINDGSPGKFDSRVDKGIFLGYSTRSKAYKCYNNRLRKY*

Protein Length: 145

Fln nts: AGTAATTTCACATCAAAATAATTTAATGAATTTGTAAAATACATGGAATTAAAAGAGAATTCTTTGCTGCCAAAACACACCAGCATAATGGGGTAGTTGAAAGAAGAAACCGAACAGTTCAAGCAATGGAAAGAACAATGCTATTAGCAGCAAATTTGCAGCCAAAATTCTGGAGAGAAGCAGTCGGGACAGCTGTCTATACCTTGAATCGAACTCAATTAAGACCAAATAGTGAAAAAACTCCTTATGAACTATGGAAAGGAAGACCTGCTTTAGTAAAGTACTTCAAGATCTTTGGAAGCAAGTGCTTCATAAAAATCAATGATGGCTCACCAGGAAAGTTTGATTCTCGGGTTGACAAAGGGATCTTCCTTGGATACTCTACACGGAGCAAAGCCTACAAGTGCTACAATAATCGACTAAGGAAATACTAGAAAGCATTGATGTAAAGATTGATGAGGACCTTCCAGAAAAAGAAATTGAAGAGCATGAAGTTGATCCTCTCATTGAAGAAGAAGACCC

Fln Alignment:

AllPine_b_rep_c56646___REFFAAKTHQHNGVVERRNRTVQAMERTMLLAANLQPKFWREAVGTAVYTLNRTQLRPNSEKTPYELWKGRPALVKYFKIFGSKCFIKINDGSPGKFDSRVDKGIFLGYSTRSKAYKCYN
B8LKX7________________REHTVPYTPQQNGVAERKNRTLMEMARCMLHARNMDPKFWAEAINTATYIVNRTPTIAVKHKTPEEAWSRRKPTVSHFKVFGCDVYVHIPDEKRKKLDRKSHKCIMVGYSETSKAYRVYD

SNPs (tot: 19)

Position	A %	C %	G %	T %	Probability
173	33		66		0.997464
179	33	66			0.997452
214	66			33	0.997452
221		33		66	0.997459
223	33	66			0.997453
231	33		66		0.997452
240	33		66		0.997452
242	66			33	0.997452
243		66		33	0.997452
250	66		33		0.997471
272	33		66		0.997452
285		33		66	0.997467
287		33		66	0.997467
292		66		33	0.997454
322			66	33	0.997476
331	33		66		0.997452
332		66		33	0.997452
337		66		33	0.997476
345		33		66	0.997452

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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