SustainPineDB

Assembly Name: SustainPine v3.0

UniGene Name: sp_v3.0_unigene23530

Length: 1451 nt

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

UniGene Fasta (sense)

Ace file of the UniGene sp_v3.0_unigene23530 (antisense)

Annotations

Source	Descriptions	Term	Type	e value	Identity
AutoFact	Retrotransposon protein, putative, unclassified n=1 Tax=Oryza sativa Japonica Group RepID=Q2QLK1_ORYSJ	-	-	0.0	40%
FL-Next	tr=Putative uncharacterized protein; Picea sitchensis (Sitka spruce) (Pinus sitchensis).	-	-	0.0	43%
Sma3	Gag-Pol polyprotein	-	-	2.245e-07	-

Source	Gene names
Sma3	F11I4_21; LOC_Os03g26290; LOC_Os03g61660; LOC_Os10g01750; LOC_Os12g05520; LOC_Os12g09260; LOC_Os12g44200; OSIGBa0134J07.9; OSJNBa0013O08.17; OSJNBa0053E05.7; OSJNBa0065H03.10; OSJNBa0078D06.27; Os10g0106900; SDM1_42t00010; SDM1_46t00012; T15M6.14; T16L24.

Source	GOs	Term	Type	Identity
Sma3	intrinsic to membrane	GO:0031224	Cellular Component	-
Sma3	DNA binding	GO:0003677	Molecular Function	-
Sma3	RNA-directed DNA polymerase activity	GO:0003964	Molecular Function	-
Sma3	aspartic-type endopeptidase activity	GO:0004190	Molecular Function	-
Sma3	endonuclease activity	GO:0004519	Molecular Function	-
Sma3	peroxidase activity	GO:0004601	Molecular Function	-
Sma3	transmembrane signaling receptor activity	GO:0004888	Molecular Function	-
Sma3	protein binding	GO:0005515	Molecular Function	-
Sma3	ATP binding	GO:0005524	Molecular Function	-
Sma3	zinc ion binding	GO:0008270	Molecular Function	-
Sma3	heme binding	GO:0020037	Molecular Function	-
Sma3	apoptotic process	GO:0006915	Biological Process	-
Sma3	response to oxidative stress	GO:0006979	Biological Process	-
Sma3	signal transduction	GO:0007165	Biological Process	-
Sma3	DNA integration	GO:0015074	Biological Process	-
Sma3	transposition	GO:0032196	Biological Process	-
Sma3	innate immune response	GO:0045087	Biological Process	-

Source	InterPros	Term	Type	Identity
Sma3	Toll/interleukin-1 receptor homology (TIR) domain	IPR000157	-	-
Sma3	Peptidase, cysteine peptidase active site	IPR000169	-	-
Sma3	Peptidase S8/S53, subtilisin/kexin/sedolisin	IPR000209	-	-
Sma3	Integrase, catalytic core	IPR001584	-	-
Sma3	Leucine-rich repeat	IPR001611	-	-
Sma3	Zinc finger, CCHC-type	IPR001878	-	-
Sma3	Haem peroxidase, plant/fungal/bacterial	IPR002016	-	-
Sma3	NB-ARC	IPR002182	-	-
Sma3	Short-chain dehydrogenase/reductase SDR	IPR002198	-	-
Sma3	Leucine-rich repeat 3	IPR011713	-	-
Sma3		IPR013084	-	-
Sma3	Reverse transcriptase, RNA-dependent DNA polymerase	IPR013103	-	-
Sma3	Peptidase A2A, retrovirus RVP subgroup	IPR018061	-	-

Full-Lengther Next Prediction

Fln status: Putative Complete

Fln database: coniferopsida.fasta

Fln subject: B8LKX7

Fln msg: query STOP codon too far from subject stop. Distance to subject end: 38 aas, putative chimeric sequence, No stop codon before M and low homology subject, your sequence is shorter than subject: 366 - 407

Fln protein: MRKNLISVSALEDRGYEVLFRGGQVLMYPRGSPADSARVIGVRHAKVYKFAFQPLLALSSSTDSRASSSELCEIWHRRMGHMYHGALRTLREITTGVPDFSTDHFDTCRGCAMGKFAKSPFPSSDSRATGILDLIHSDVSGRMSHVSLSGYEYYVLFIDDHSRRTWIYFLKTKSEVFKRFQEFRALVETQTGRKIKSLRSDNGGEYTLGEFVDYCAEAGIRREFIVPYNPQQNGVAKRKNRSIIGAAKAMLHDQGLPLFLWAEACNTVVYLQNRSPHRALGHLTPEEAFSGKKPDLGHLHIFGCITYSYIPKEKRTKLEPTAEKGIFVGYSETSKAFRIYIPARRVVVRWDVKFKEDRAFRRSRE*

Protein Length: 367

Fln nts: ACAGTGACATTTCAGAGGGAGTCCAAACCTCCCTTGAAAGTGTTAGATGTTCTTTATGTGCCAGGG_-_ATGAGGAAGAACCTCATATCCGTCTCAGCTTTGGAGGACAGAGGTTATGAGGTACTGTTCAGGGGAGGACAGGTGTTGATGTATCCCAGGGGCTCTCCAGCTGATTCAGCTAGAGTGATAGGTGTACGCCATGCAAAGGTGTACAAGTTTGCATTTCAGCCCCTTTTGGCATTGAGCAGTAGTACCGACAGCAGAGCTAGCAGTTCTGAGCTGTGTGAGATTTGGCACCGCAGGATGGGACATATGTATCATGGAGCCTTGAGGACATTGCGGGAGATCACTACAGGTGTGCCAGATTTCAGTACTGATCACTTTGATACTTGCAGAGGTTGTGCGATGGGCAAGTTTGCCAAATCCCCTTTTCCCAGCAGTGACAGCAGAGCGACTGGGATACTTGATTTGATTCATTCCGATGTGAGCGGTCGGATGTCTCATGTTTCCTTGAGTGGATATGAGTACTATGTTTTATTCATTGATGATCACTCCAGGAGGACCTGGATTTATTTCTTGAAGACCAAGAGTGAGGTCTTCAAGCGGTTTCAGGAGTTCAGAGCTCTTGTGGAGACACAGACAGGTCGGAAGATCAAGTCCCTGAGGTCGGACAATGGAGGAGAGTACACCCTTGGAGAGTTTGTTGACTATTGTGCGGAGGCAGGCATTAGGAGGGAGTTCATTGTTCCTTACAACCCCCAGCAGAACGGGGTTGCAAAGAGGAAGAACAGATCCATCATAGGGGCTGCCAAAGCCATGTTACATGATCAGGGGTTGCCATTGTTCTTGTGGGCAGAGGCCTGCAACACAGTTGTTTACTTGCAGAACAGGAGTCCGCATCGTGCCTTGGGGCACTTGACTCCGGAGGAGGCTTTCTCTGGGAAGAAGCCTGATCTTGGTCATCTTCATATCTTTGGATGCATTACATACTCCTATATACCCAAGGAGAAGAGGACCAAACTAGAGCCCACCGCAGAGAAGGGTATCTTTGTGGGCTACAGTGAGACCTCAAAGGCCTTTCGGATTTACATTCCTGCACGGAGAGTTGTTGTCAGATGGGATGTGAAGTTCAAGGAGGACAGGGCCTTTAGGAGGTCACGGGAGTAGTATTTGGATCAGCCAGACCCTCAGCAGCAGTTGAGTCAGTCGCAGGGATCCAGTGGGCAGGGATCAGGAGGATCAAGAGGTACATCTATGAGGATGTCAGGCCCGTCAATGAGCAGCGGCTCACCGAGCCAGAGGGGTGGTGCTCCGAGCAGCATGCAGAGCAGTTCACTAGGGAGCCCACTGATGGACAGTTCACAAAAAACCTCAGCTTCTATAGGTTCAGGTGCAGGCAGGAGGACAGCAGACAGACAATTAGGAGTTCAGGCCCCTGATGATGATGAGGAGGA

Fln Alignment:

Contig23530___LYVPGMRKNLISVSALEDRGYEVLFRGGQVLMYPRGSPADSARVIGVRHAK--VYKFAFQPXXXXXXXXXXXXXXXXLCEIWHRRMGHMYHGALRTLR--EITTGVPDFSTDHFDTCRGCAMGKFAKSPFPSSDS-RATGILDLIHSDVSGRMSHVSLSGYEYYVLFIDDHSRRTWIYFLKTKSEVFKRFQEFRALVETQTGRKIKSLRSDNGGEYTLGEFVDYCAEAGIRREFIVPYNPQQNGVAKRKNRSIIGAAKAMLHDQGLPLFLWAEACNTVVYLQNRSPHRALGHLTPEEAFSGKKPDLGHLHIFGCITYSYIPKEKRTKLEPTAEKGIFVGYSETSKAFRIYIPAR-RVVVRWDVKFKE
B8LKX7_______________MLVPNLKSNLLSVNQIANQGYKVEFYKDKCLIKDINS---NYKVVASGYVENGLYKFG----RFTSNEKALVAEVDNVSRLWHERMGHLNYKSLSLMKRFEMVYGLPKISQSQ-GVCEGCMSGKQHMEKFIKGKSWRAKTPLHLVHSDLMGPLEHPSISGSRYVLTFIDDYSRRIWVYFLKNKDEVFEKFKEFKAFVEKQSGKSIKILRTDNGKEYVNKEFDHYCKYNGIKREHTVPYTPQQNGVAERKNRTLMEMARCMLHARNMDPKFWAEAINTATYIVNRTPTIAVKHKTPEEAWSRRKPTVSHFKVFGCDVYVHIPDEKRKKLDRKSHKCIMVGYSETSKAYRVYDPEKNEILIRRDVIFDE

SNPs (tot: 72)

Position	A %	C %	G %	T %	Probability
584	66		33		0.997452
596	33		66		0.997452
598		66		33	0.997452
618	33		66		0.997452
625		66	33		0.997452
665	33	66			0.997452
691		80	20		0.995493
698		20	80		0.995493
732		83		16	0.994512
733			16	83	0.994512
738		83		16	0.994512
756	80			20	0.995493
772		80		20	0.995493
781	83		16		0.994512
787		83		16	0.994512
793		60		40	1.0
808		60		40	1.0
813	20	80			0.995493
823		80		20	0.995493
841		80		20	0.995493
868		80	20		0.995493
873		20		80	0.995493
880	20		80		0.995493
890	12	87			0.992554
899		87		12	0.992554
901			87	12	0.992554
923	85			14	0.993533
943		85	14		0.993533
961		85		14	0.993533
963	14		85		0.993533
966		85		14	0.993533
999		83		16	0.994512
1000	83	16			0.994512
1009	16		83		0.994512
1010		83		16	0.994512
1063	25		75		0.996473
1077		20	80		0.995493
1092		80		20	0.995493
1093		40		60	1.0
1100	20	80			0.995493
1101		80		20	0.995493
1134		80		20	0.995493
1140	40		60		1.0
1158	25		75		0.996473
1168	33	66			0.997452
1174		80		20	0.995493
1176	20		80		0.995493
1181			80	20	0.995493
1193	33	33		33	0.997753
1210	66		33		0.997452
1223	66		33		0.997452
1229			33	66	1.0
1231	66		33		0.997452
1258	20		80		0.999996
1265	10	90			0.90298
1271	80		20		0.999996
1284	11	88			0.923564
1292		11	88		0.923564
1293	37	12		37	1.0
1294	12		87		0.992554
1296	12	87			0.992554
1297		87		12	0.992554
1298		87		12	0.992554
1300		14	85		0.993533
1310	83		16		0.994512
1314		83		16	0.994512
1315	16	83			0.994512
1323		83		16	0.994512
1342	20			80	0.995493
1343		60		40	1.0
1346		80		20	0.995493
1371		25		75	0.996473

SSRs (tot: 1)

Start position	End position	Sequence	Length
7	18	TCA TCA TCA TCA	12

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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