SustainPineDB

Assembly Name: SustainPine v3.0

UniGene Name: sp_v3.0_unigene45

Length: 2958 nt

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

UniGene Fasta (sense)

>sp_v3.0_unigene45
AGCATTTGTTAGTTGATTGCATTGAAAAAGTTAGTAAACCCATTGCTGTAGGCGCAATTTTTTTAATTTACTCAATGGAAAACAAACAGTGCCAAATAAAACTCATGGGAACACTTTCAAATCAGCAATATAACATTCATATAATATACAGAATTGGTACAGGCCACTTTTATCAGCAAATAAAAGATATAACTCCAAATCTACTGACTGAACTTTAGGACTGATATACATAAATAGAGAACAGTGAACCTGGTATATCTCAGCAAGGGAATGACAATGGTTTCCAGTTATTATTTAAGTTTGTACTTTGTATTTTGTAAAATTAAGTTACTAATTCCAATTTTTTTTTGGTGCTGTAGGTTTCCTTTTGAGTTAGCCCACTACAAAATACAAATATGCCAAAAGCCTTGGACCCATTTTGGGAGTATGGGACCCCTGATGGTGGGACAAATCGTGCATATCTTTCATGCAAATTGTGTGGGACCCAGATGACAGGTGGGGTTACACGACTGAAATACCATCTTGCTAGACTCACTGGACATGATGTTGGCATTTGTACAGTTTCTAGTCCGGAGCTTATACAAAAAGCTCTTCAGGCAATTGAAGAAAAGGACAGAAAGAAGGAAGAGGCGGAAAGAAACAAAGCTGAACGTGCAGGTAGATCTTTCGGGATAGGTTCTCCTGATTTTGATGTTGAGGGTAGTGGGCCTACTGGCCCTAGTGGGAGGGGCTCCACAACTGGCACACCATCACATGCTACTGCTAGTGTGAATGCGAGGTCATCATTTTTTGTTCCACGAACAGGACCTGGAGCACAACCTGGCATAAAATCGCTTGTTAAAAAAAAGGAGAAGCACGAAGCAGATAGAGCCATGGGGAGGTGTATTTTTTGGAGCGACTTACCTCTCAGCATCACGAAAACCAATCCATATTGGCAGCCAATGTGTGATGCTATTGCTGTTGTGGGCCCAGGGTACAAAAGTGCCACATATGAGGAGTTGCGGGGGCCAATTCTTCAAGAAGAAAAACAGGACATCAACTCTAGATTGGCGGAGTTGAAAAAGACATGGGAAGTCACTGGATGCACAGTGATGTCTGATGGTTGGACAGATAGGAAGGGTAGGACCCTTCTAAATTTCTTGGTACATTGTCCTAAAGGTACCATGTTTATTAAATCGTTGGATGCATCAGAACATATCAAAGATGCAGCAACGATATGTGAGTTGTTAGATGGGTTCATTCGGGAGATTGGTGTGCAGAATGTGGTGCAAGTCATAACAGACAATGCAGCTAATTATGTGTCTGCCGGCAGAATGCTTATGGAGAGGCATCCCACATTGTTCTGGACTCCATGTGCAGCGCATTGTCTTGATTTGTTGCTTGAGGATATGGGGAAACTCTCCTTCATCAAGGAGGCGGTTGATATGGCTATGAGCATCCCCAAGTTTATTTATAACCATGCTTTTGTTCTTAGCCTCATGAGGAGGTTCACTAAAAACAAGGAGTTGCAGCGTCCTGCCATCACATGTTTTGTCACAAACTTTATTACTCTTCAGTCTTTGCTTCGATGTCAGTTCGAGTTGAAGCAAATGTTTGTGTCTGATGATTGGCGTAATTGTAGATACAACAGGAGACAGGACGGGAAAGCCATTGCAAAAATGGTGTACTCTGAGACATTTTGGCATGGAGTAGAAGAAGCATGTGCAGTTAGTGAACCTATAGTAAAGGTTCTTAGATTGGTGGATGGAGAGAAGCCTGCAATGGCTTATTTGTATGAGGGCATGGATAGGGCCAAGGAGGCCATTCGTTCTTATTATGCAGACAAGGGTTCTGTTGGCCTTGATAGGCAGATGATGTTATGGGATGTGATTGATAGTCGGTGGACAGGGATGCTTCATCGACCTATTCATGCAGCAGCACTCTTCCTCAACCCCGCATTTTCATACAAATGCAACTTTGATTTTGATGGCGAGGTGATGGAAGGGCTCCATTCCTGTATTCATAGGATGGTACCTGATCCTGAGCTTCTAGAAAAATCAATCGCGAGATACAATATTATCGGGATTGTGTTGGCCCATTTGGCTTTGATGATGCTATTAGGGAAAGGACCCTCTTCATGCTACGTAAGTGACAAGTCATCACTCATTATAAATTAGAATTTTCAATTTAGAATTTCCTTACTTATAATTCTATTTTTTTTAAATTCAATTATGTAACTTTTATTTGAAAGTTTAATTATGTTTCAAGTTTTTGAATATTTTATTTCTTTATTTTGTTGTAGATATTTGGTGGCGAAGCTATGGTGCAAGGGCACCAAATTTGCAGAAATTGGCCATACAAATCTTGAGTCAAACATGTAGCTCTTCAGGCTGTGAGCGCAATTGGAGTGTATTTGAGAAAATACACGCAAAAAAGCGCAACAGGTATAACTTTGAGCTCCAGCCTTCAGTTGAGCAATTACACTTATTGTAATTTTTAATTTTTAATTTATGACCTTCAAGTGTCAAGAGTCAAGAGTCAAGACTCATTACTTTTTTTGACACTCTTACAGGTTGGAGTTCGCACGCCTCAATGATTTAGTGTATGTGCATTACAACATCCGACTTCGAGTGAGGCAAATAGAATCACCAATGGATCCAGATGCCATTTCCTTAGACAATATTGATGTATTGTCTCAGTGGAGGGTGGAGTCTGAGGAGCCCATATTGGAGGAGTCACCTTCATGGTTAGAGCCAGTGGCAGATGATCCATTAGAGCAGGGGCAGCAAGAGGAGGACTCGGAGTCAGAGGAGCAGCAGCACTTAGAGGAGGAGCAGGAGGAGGAGGAGGGCACTACAGGAGCATCAGCATCAACACCATCTACTATAGATATAGGAGATCCCATACCTAGGACTCATTATTTGACATTACGTGCAGAGGCAGGGTCAGGGCCTTCTACTACTAGGGGCAGGCCTGGCA

Ace file of the UniGene sp_v3.0_unigene45 (antisense)

Annotations

Source	Descriptions	Term	Type	e value	Identity
AutoFact	DUF659 multi-domain protein	-	-	0.0	56%
FL-Next	tr=Putative uncharacterized protein; Picea sitchensis (Sitka spruce) (Pinus sitchensis).	-	-	0.0	79%

Source	Gene names
Sma3	GSVIVT00000858001; GSVIVT00001531001; GSVIVT00002235001; GSVIVT00002367001; GSVIVT00005726001; GSVIVT00006112001; GSVIVT00013610001; GSVIVT00014165001; GSVIVT00019252001; GSVIVT00019718001; GSVIVT00022003001; GSVIVT00022285001; GSVIVT00022661001; GSVIVT00

Source	GOs	Term	Type	Identity
Sma3	intracellular	GO:0005622	Cellular Component	-
Sma3	DNA binding	GO:0003677	Molecular Function	-
Sma3	ubiquitin thiolesterase activity	GO:0004221	Molecular Function	-
Sma3	zinc ion binding	GO:0008270	Molecular Function	-
Sma3	protein dimerization activity	GO:0046983	Molecular Function	-
Sma3	ubiquitin-dependent protein catabolic process	GO:0006511	Biological Process	-
Sma3	DNA integration	GO:0015074	Biological Process	-

Source	InterPros	Term	Type	Identity
Sma3	Peptidase C12, ubiquitin carboxyl-terminal hydrolase 1	IPR001578	-	-
Sma3	Integrase, catalytic core	IPR001584	-	-
Sma3	Zinc finger, BED-type predicted	IPR003656	-	-
Sma3	Sugar transporter, conserved site	IPR005829	-	-
Sma3	Domain of unknown function DUF659	IPR007021	-	-
Sma3	Zinc finger, C2H2	IPR007087	-	-
Sma3	HAT dimerisation	IPR008906	-	-
Sma3		IPR011523	-	-
Sma3	Reverse transcriptase, RNA-dependent DNA polymerase	IPR013103	-	-
Sma3		IPR015706	-	-
Sma3	Zinc finger, C2H2-like	IPR015880	-	-
Sma3	ABC transporter, integral membrane type 1	IPR017940	-	-

Full-Lengther Next Prediction

Fln status: Putative N-terminus

Fln database: coniferopsida.fasta

Fln subject: D5A8W4

Fln msg: Separated hits, possible frame ERROR between 2424 and 2550, Distance to subject end: 37 aas, Unexpected STOP codon in 5 prime region, your sequence is shorter than subject: 241 - 478

Fln protein: LCFKFLNILFLYFVVDIWWRSYGARAPNLQKLAIQILSQTCSSSGCERNWSVFEKIHAKKRNxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxRLEFARLNDLVYVHYNIRLRVRQIESPMDPDAISLDNIDVLSQWRVESEEPILEESPSWLEPVADDPLEQGQQEEDSESEEQQHLEEEQEEEEGTTGASASTPSTIDIGDPIPRTHYLTLRAEAGSGPSTTRGRPG

Protein Length: 242

Fln nts: AGCATTTGTTAGTTGATTGCATTGAAAAAGTTAGTAAACCCATTGCTGTAGGCGCAATTTTTTTAATTTACTCAATGGAAAACAAACAGTGCCAAATAAAACTCATGGGAACACTTTCAAATCAGCAATATAACATTCATATAATATACAGAATTGGTACAGGCCACTTTTATCAGCAAATAAAAGATATAACTCCAAATCTACTGACTGAACTTTAGGACTGATATACATAAATAGAGAACAGTGAACCTGGTATATCTCAGCAAGGGAATGACAATGGTTTCCAGTTATTATTTAAGTTTGTACTTTGTATTTTGTAAAATTAAGTTACTAATTCCAATTTTTTTTTGGTGCTGTAGGTTTCCTTTTGAGTTAGCCCACTACAAAATACAAATATGCCAAAAGCCTTGGACCCATTTTGGGAGTATGGGACCCCTGATGGTGGGACAAATCGTGCATATCTTTCATGCAAATTGTGTGGGACCCAGATGACAGGTGGGGTTACACGACTGAAATACCATCTTGCTAGACTCACTGGACATGATGTTGGCATTTGTACAGTTTCTAGTCCGGAGCTTATACAAAAAGCTCTTCAGGCAATTGAAGAAAAGGACAGAAAGAAGGAAGAGGCGGAAAGAAACAAAGCTGAACGTGCAGGTAGATCTTTCGGGATAGGTTCTCCTGATTTTGATGTTGAGGGTAGTGGGCCTACTGGCCCTAGTGGGAGGGGCTCCACAACTGGCACACCATCACATGCTACTGCTAGTGTGAATGCGAGGTCATCATTTTTTGTTCCACGAACAGGACCTGGAGCACAACCTGGCATAAAATCGCTTGTTAAAAAAAAGGAGAAGCACGAAGCAGATAGAGCCATGGGGAGGTGTATTTTTTGGAGCGACTTACCTCTCAGCATCACGAAAACCAATCCATATTGGCAGCCAATGTGTGATGCTATTGCTGTTGTGGGCCCAGGGTACAAAAGTGCCACATATGAGGAGTTGCGGGGGCCAATTCTTCAAGAAGAAAAACAGGACATCAACTCTAGATTGGCGGAGTTGAAAAAGACATGGGAAGTCACTGGATGCACAGTGATGTCTGATGGTTGGACAGATAGGAAGGGTAGGACCCTTCTAAATTTCTTGGTACATTGTCCTAAAGGTACCATGTTTATTAAATCGTTGGATGCATCAGAACATATCAAAGATGCAGCAACGATATGTGAGTTGTTAGATGGGTTCATTCGGGAGATTGGTGTGCAGAATGTGGTGCAAGTCATAACAGACAATGCAGCTAATTATGTGTCTGCCGGCAGAATGCTTATGGAGAGGCATCCCACATTGTTCTGGACTCCATGTGCAGCGCATTGTCTTGATTTGTTGCTTGAGGATATGGGGAAACTCTCCTTCATCAAGGAGGCGGTTGATATGGCTATGAGCATCCCCAAGTTTATTTATAACCATGCTTTTGTTCTTAGCCTCATGAGGAGGTTCACTAAAAACAAGGAGTTGCAGCGTCCTGCCATCACATGTTTTGTCACAAACTTTATTACTCTTCAGTCTTTGCTTCGATGTCAGTTCGAGTTGAAGCAAATGTTTGTGTCTGATGATTGGCGTAATTGTAGATACAACAGGAGACAGGACGGGAAAGCCATTGCAAAAATGGTGTACTCTGAGACATTTTGGCATGGAGTAGAAGAAGCATGTGCAGTTAGTGAACCTATAGTAAAGGTTCTTAGATTGGTGGATGGAGAGAAGCCTGCAATGGCTTATTTGTATGAGGGCATGGATAGGGCCAAGGAGGCCATTCGTTCTTATTATGCAGACAAGGGTTCTGTTGGCCTTGATAGGCAGATGATGTTATGGGATGTGATTGATAGTCGGTGGACAGGGATGCTTCATCGACCTATTCATGCAGCAGCACTCTTCCTCAACCCCGCATTTTCATACAAATGCAACTTTGATTTTGATGGCGAGGTGATGGAAGGGCTCCATTCCTGTATTCATAGGATGGTACCTGATCCTGAGCTTCTAGAAAAATCAATCGCGAGATACAATATTATCGGGATTGTGTTGGCCCATTTGGCTTTGATGATGCTATTAGGGAAAGGACCCTCTTCATGCTACGTAAGTGACAAGTCATCACTCATTATAAATTAGAATTTTCAATTTAGAATTTCCTTACTTATAATTCTATTTTTTTTAAATTCAATTATGTAACTTTTATTTGAAAGTTTAATT_-_ATGTTTCAAGTTTTTGAATATTTTATTTCTTTATTTTGTTGTAGATATTTGGTGGCGAAGCTATGGTGCAAGGGCACCAAATTTGCAGAAATTGGCCATACAAATCTTGAGTCAAACATGTAGCTCTTCAGGCTGTGAGCGCAATTGGAGTGTATTTGAGAAAATACACGCAAAAAAGCGCAACAGxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxCAGGTTGGAGTTCGCACGCCTCAATGATTTAGTGTATGTGCATTACAACATCCGACTTCGAGTGAGGCAAATAGAATCACCAATGGATCCAGATGCCATTTCCTTAGACAATATTGATGTATTGTCTCAGTGGAGGGTGGAGTCTGAGGAGCCCATATTGGAGGAGTCACCTTCATGGTTAGAGCCAGTGGCAGATGATCCATTAGAGCAGGGGCAGCAAGAGGAGGACTCGGAGTCAGAGGAGCAGCAGCACTTAGAGGAGGAGCAGGAGGAGGAGGAGGGCACTACAGGAGCATCAGCATCAACACCATCTACTATAGATATAGGAGATCCCATACCTAGGACTCATTATTTGACATTACGTGCAGAGGCAGGGTCAGGGCCTTCTACTACTAGGGGCAGGCCTGGCA

Fln Alignment:

Contig45___DIWWRSYGARAPNLQKLAIQILSQTCSSSGCERNWSVFEKIHAKKRNRxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxRLEFARLNDLVYVHYNIRLRVRQIESPMDPDAISLDNIDVLSQWRV
D5A8W4____________DTWWENYGATTPILQKMAIRVLSQTCSSSGCERNWSVFEKIHTKKRNRxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxRLDTSCLNDLVYVHYNLRLWVKQLEIKIDARAISLDEIDTTAAWRV

SNPs (tot: 109)

Position	A %	C %	G %	T %	Probability
1025	25	75			0.996473
1026	25		75		0.996473
1027			75	25	0.996473
1029			75	25	0.996473
1034	75		25		0.996473
1038	75		25		0.996473
1056	80		20		0.995493
1126	80		20		0.995493
1181		80	20		0.995493
1202			16	83	0.994512
1213		83		16	0.994512
1228	16		83		0.994512
1277		14		85	0.993533
1302		20		80	0.995493
1308		80	20		0.995493
1321	25		75		0.996473
1324	20	80			0.995493
1334		20		80	0.995493
1421			20	80	0.995493
1427	80		20		0.995493
1434	80		20		0.995493
1451		20		80	0.995493
1466		20		80	0.995493
1521	25		75		0.996473
1523	75			25	0.996473
1524		50		50	1.0
1527			25	75	0.996473
1528		75		25	0.996473
1529	25	50	25		0.995533
1542		66	33		0.997452
1543		33		66	1.0
1544	33		66		0.997452
1558	33		66		0.997452
1592	25		75		0.996473
1594			75	25	0.996473
1601		50		50	1.0
1602	25		75		0.996473
1605	25		75		0.996473
1610		33		66	0.997452
1619	33		66		0.997452
1708		66	33		0.997452
1718	33	66			0.997452
1726	33		33		0.997753
1727	33	66			0.997452
1753		66		33	0.997452
1771	33	66			0.997452
1852		85		14	0.993533
1884		14	85		0.993533
1886	28		71		1.0
1897	14			85	0.993533
1899	16		16	66	0.988813
1920		40	60		1.0
1931		60		40	1.0
1941			25	75	0.996473
1943	20			80	0.995493
1946	80		20		0.995493
1947	80		20		0.995493
2005	20		80		0.995493
2006		80	20		0.995493
2007	80		20		0.995493
2011	20		80		0.995493
2014		20		80	0.995493
2032	20			80	0.995493
2046		80	20		0.995493
2051	20			80	0.995493
2055	20		80		0.995493
2073	75		25		0.996473
2079	75		25		0.996473
2092	25		75		0.996473
2095		75		25	0.996473
2106			75	25	0.996473
2110		25		75	0.996473
2157		33	66		0.997452
2160		66		33	0.997452
2189	33		66		0.997452
2223		66		33	0.997452
2272	75	25			0.996473
2273	25	25		50	0.995533
2288		75	25		0.996473
2289	25	75			0.996473
2294		75		25	0.996473
2306		75		25	0.996473
2307		75		25	0.996473
2318	40		60		1.0
2334		80		20	0.995493
2349	20			80	0.995493
2371		20	80		0.995493
2378	16			83	0.994512
2380			16	83	0.994512
2381			16	83	0.994512
2382			16	83	0.994512
2383	16		83		0.994512
2385	83		16		0.994512
2394	40		60		1.0
2426	14			85	0.993533
2427		85		14	0.993533
2428		85	14		0.993533
2429	85		14		0.993533
2432	14		85		0.993533
2457		71		28	1.0
2477		83		16	0.994512
2478		16		83	0.994512
2479			66	33	1.0
2500	82	5		11	0.999919
2505	11	23		64	1.0
2506	88			11	0.999952
2532	15	7	69	7	0.999985
2533			15	84	0.999986
2590	33			66	1.0

SSRs (tot: 2)

Start position	End position	Sequence	Length
130	144	CCT CCT CCT CCT CCT	15
436	456	TCTTGAC TCTTGAC TCTTGAC	21

Back

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