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_unigene202070

Length: 561 nt

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

UniGene Fasta (sense)

>sp_v3.0_unigene202070
AGTGCCTCAGATCTGACAGAGGTGGGGAGTTTACCTCAAATGAAATTTTTGATTTCTGTGAAGAACATGGGATAAGAAGAGAATTCTCTACAGCTAGAACTCCTCAGCAAAATGGAGTTGTGGAAAGAATGAACAGAACAGTCCAACAAATGGCTCGTGCTATGCTTGATGAATCAGGTACTCCTGCAACTTTCTGGGGTGAAGCTGCACATGCTGCGGTGGTTATCCTCAACAAAACAAATGTCCGAGTGAACAACACTCAAACCCCTCATGAGCTCTGGAAAGGTGAGACTCCTTCTGTGAAGCACTTCAAAATCTTTGGGAGCAAATGTTATATTAAGAATACGGATGAGCAACTTGGCAAACTTGAACCTAGAGCAGATGAAGGCATTCTTCTTGGCTACTCTCCACATAGCAAAGCATACAAGTGCTACAACAAAAGACTTGGCAGAATTGTTGATAGTATTGATGTAGTAGTTGATGAGAAGGGATACATTCCTAGGGAAGTTCATCATGAAGACATCGAAGAAGATGAAGGCTACCCTCAAAGACAGAATGATG

Ace file of the UniGene sp_v3.0_unigene202070 (antisense)

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

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Annotations

Source	Descriptions	Term	Type	e value	Identity
AutoFact	Gag/pol polyprotein n=1 Tax=Arabidopsis thaliana RepID=Q9C5V1_ARATH	-	-	3.9937e-43	48%
FL-Next	tr=Putative uncharacterized protein; Picea sitchensis (Sitka spruce) (Pinus sitchensis).	-	-	0.0	40%
Sma3	Retrotransposon protein, putative, Ty1-copia subclass	-	-	2.981e-13	-

Source	Gene names
Sma3	B1110B01.4; F28G4.2; H0512B01.8; LOC_Os03g01684; LOC_Os03g05850; LOC_Os03g12600; LOC_Os03g13260; LOC_Os03g22300; LOC_Os03g33940; LOC_Os03g44470; LOC_Os03g49980; LOC_Os03g63124; LOC_Os10g04074; LOC_Os10g05380; LOC_Os10g17570; LOC_Os10g20660; LOC_Os10g29420

Source	GOs	Term	Type	Identity
Sma3	chromatin	GO:0000785	Cellular Component	-
Sma3	intracellular	GO:0005622	Cellular Component	-
Sma3	nucleus	GO:0005634	Cellular Component	-
Sma3	DNA binding	GO:0003677	Molecular Function	-
Sma3	chromatin binding	GO:0003682	Molecular Function	-
Sma3	RNA-directed DNA polymerase activity	GO:0003964	Molecular Function	-
Sma3	protein binding	GO:0005515	Molecular Function	-
Sma3	zinc ion binding	GO:0008270	Molecular Function	-
Sma3	oxidoreductase activity	GO:0016491	Molecular Function	-
Sma3	transferase activity	GO:0016740	Molecular Function	-
Sma3	chromatin assembly or disassembly	GO:0006333	Biological Process	-
Sma3	DNA integration	GO:0015074	Biological Process	-

Source	InterPros	Term	Type	Identity
Sma3	Peptidase S8/S53, subtilisin/kexin/sedolisin	IPR000209	-	-
Sma3	BTB/POZ-like	IPR000210	-	-
Sma3	Chromo domain/shadow	IPR000953	-	-
Sma3	BRCT domain	IPR001357	-	-
Sma3	Aminoacyl-tRNA synthetase, class I, conserved site	IPR001412	-	-
Sma3	Integrase, catalytic core	IPR001584	-	-
Sma3	Leucine-rich repeat	IPR001611	-	-
Sma3	Zinc finger, CCHC-type	IPR001878	-	-
Sma3	Phosphotransferase system, HPr serine phosphorylation site	IPR002114	-	-
Sma3	Short-chain dehydrogenase/reductase SDR	IPR002198	-	-
Sma3	Glucose/ribitol dehydrogenase	IPR002347	-	-
Sma3	Retrotransposon gag protein	IPR005162	-	-
Sma3		IPR010256	-	-
Sma3	BTB/POZ fold	IPR011333	-	-
Sma3	BTB/POZ	IPR013069	-	-
Sma3		IPR013084	-	-
Sma3	Reverse transcriptase, RNA-dependent DNA polymerase	IPR013103	-	-
Sma3	NAD(P)-binding domain	IPR016040	-	-
Sma3	Acyl-CoA N-acyltransferase	IPR016181	-	-
Sma3	Glycoside hydrolase, family 5, conserved site	IPR018087	-	-
Sma3	Asp/Glu racemase, active site	IPR018187	-	-
Sma3	Carbohydrate kinase, FGGY, conserved site	IPR018483	-	-

Full-Lengther Next Prediction

Fln status: Internal

Fln database: coniferopsida.fasta

Fln subject: B8LKX7

Fln msg: Distance to subject end: 23 aas, your sequence is shorter than subject: 186 - 407

Fln protein: CLRSDRGGEFTSNEIFDFCEEHGIRREFSTARTPQQNGVVERMNRTVQQMARAMLDESGTPATFWGEAAHAAVVILNKTNVRVNNTQTPHELWKGETPSVKHFKIFGSKCYIKNTDEQLGKLEPRADEGILLGYSPHSKAYKCYNKRLGRIVDSIDVVVDEKGYIPREVHHEDIEEDEGYPQRQND

Protein Length: 187

Fln nts: AGTGCCTCAGATCTGACAGAGGTGGGGAGTTTACCTCAAATGAAATTTTTGATTTCTGTGAAGAACATGGGATAAGAAGAGAATTCTCTACAGCTAGAACTCCTCAGCAAAATGGAGTTGTGGAAAGAATGAACAGAACAGTCCAACAAATGGCTCGTGCTATGCTTGATGAATCAGGTACTCCTGCAACTTTCTGGGGTGAAGCTGCACATGCTGCGGTGGTTATCCTCAACAAAACAAATGTCCGAGTGAACAACACTCAAACCCCTCATGAGCTCTGGAAAGGTGAGACTCCTTCTGTGAAGCACTTCAAAATCTTTGGGAGCAAATGTTATATTAAGAATACGGATGAGCAACTTGGCAAACTTGAACCTAGAGCAGATGAAGGCATTCTTCTTGGCTACTCTCCACATAGCAAAGCATACAAGTGCTACAACAAAAGACTTGGCAGAATTGTTGATAGTATTGATGTAGTAGTTGATGAGAAGGGATACATTCCTAGGGAAGTTCATCATGAAGACATCGAAGAAGATGAAGGCTACCCTCAAAGACAGAATGATG

Fln Alignment:

AllPine_b_rep_c48096___LRSDRGGEFTSNEIFDFCEEHGIRREFSTARTPQQNGVVERMNRTVQQMARAMLDESGTPATFWGEAAHAAVVILNKTNVRVNNTQTPHELWKGETPSVKHFKIFGSKCYIKNTDEQLGKLEPRADEGILLGYSPHSKAYKCYNKRLGRIVDSIDVVVDEK
B8LKX7________________LRTDNGKEYVNKEFDHYCKYNGIKREHTVPYTPQQNGVAERKNRTLMEMARCMLHARNMDPKFWAEAINTATYIVNRTPTIAVKHKTPEEAWSRRKPTVSHFKVFGCDVYVHIPDEKRKKLDRKSHKCIMVGYSETSKAYRVYDPEKNEILIRRDVIFDER

SNPs (tot: 19)

Position	A %	C %	G %	T %	Probability
11		33		66	0.997453
65	75		25		0.996483
68	25		75		0.996473
87		25		75	0.996473
92		75		25	0.996473
107		75		25	0.996473
108	75		25		0.996473
112	25	75			0.996473
159	20		80		0.995493
171	80			20	0.995493
181		40		60	1.0
187		75		25	0.996473
207		40		60	1.0
216	20	60		20	0.992572
219	60			40	1.0
222	40	40		20	1.0
345		66		33	0.997454
355			66	33	0.997452
378	66		33		0.997453

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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