SustainPineDB

Assembly Name: SustainPine v3.0

UniGene Name: sp_v3.0_unigene34003

Length: 2118 nt

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

UniGene Fasta (sense)

>sp_v3.0_unigene34003
AAGCCCATGCCAAGTTATTCTTGACAGCACTAACTACTTCCAATGGTTGTCCTACATGGAAGATTTACTTAGAAGTAAAGGTCTCTACCGAATAGCCACAGGCCAAGAGAAGAAACCAAAGGATGAAGATAAGGTTGCAAAGTGGGAAAACAGACAAGATCAAGCACGTGGTTTGATAGGGATGTCTATTTCTCCTGATCTTATATTCCATATTGCAGAACTTGATACTCCTAATGAAGCATTGGAACAAATCACTAAAGTTTTTGGGATTAATGGTGAAATTAGAGCCCATCAGCTTGAAAATGAGTTGCTTACATTGGACCCTAATAATTTTTCTTGCATTGAAGATTTCTTGTCCAAGTTCAAGACCCTTAGATATCTCTTGGAAAGTGTTAAGGTTAAGAAAGAAGATAGTAACCTTATTTATTCCATCCTTACTAAGTTGGGACCAGCCTACTCTGTGTTTGTTTCCACCTTCCATTCTACAAGGGAAGCCTTCATTTCTCAAGGAACAGACTACAAGCCTCCTTCCTTTGACTCTTTTTGTGATTCTTTAATAAGAGAACAAGAAAAACTCTTACACCTTGGTCTTCTTAATCTTGGAAACTCTTCCAAGAAAGCGTTAGCCGCCCAGTAGCAACCAAATTCAAAGAATCCTAAGAAGTCGTATCCTAAAAAGAATGGTCCTAAACCAAATAAGGGTCCTAAGCAATCTCAGCCTCAAAATAGAAAGATCATTCCAGCAAAATGATAAGACCAATAAAAACAAATGGAAGAAGACTGATAGACATTGTAACTTTGTAATCGAGATGGCCACTTAGAATCAAAATGCTTTAAAAAGATGGAAGCCTTGGAAGCAGCAATGAAGAAGCATAACATCCGTGTGGAGCATTCTTCAACTTCAAACTTCAACTTCATCTTCAGGAATGGCACTTTCTGCATGTCGTTGTCAATCATCTCAGTCTGGTTATGCATTAAATGTATCTTCTTCTTCTCATTCTCATGAGTGGCTCATTGATTCTGGAGCCTCTTATCACATGGCCAAAAACAAAGCCATGTTTTCTTCTTTGAATGATTGTAACACCAAGAATATATATGTTGGTGATGATAGATCTCTTAATGTTGTAGGGATTGGAACTGTTCATCTAGACAATGGTCAATTTAATGATGTATTATGTGTTCCAACCTTATCCTGCAACCTTCTATCTGTATATCAGATAACTCATTCAGGTGAAGGTAAAATTGTTGAATTTTCACCTCATGATGTTGTAATCAAGGATCTAAAAGATCCTAAACAGGTTCTAGCTACTGGTATTGCTGATGATTCCACAAGGTTGTATAAGTTTCACAACTTTGGGTCATCAAATCTTCCCTCAGTCTTTGTTGTCATAATGATGAAGTGAGCAAACTTTGGCATGAGCGATTTGGTCACTTAAACTATCGCTCCCTTCAGCATCTATGTAAAGAAAATATGGTGACAGGTCTTCCTATGGTATCTTGCAGAGATGGTGTTTGTTCCGGATGTGTACTCGGAAAACATCATCGGGACAGTTTTGAAAAACGTGCCTCTTGGCACGCCTCAGCCCCTTTACAGCTTGTGCATAGTGATTTATGTGGTCCACTTCCAGTTGTTTCATTATCTGGCTGCAAGTATTTCTTAACTTTCATTGATGATTTCTCCAAACGCACTTGGGTATACTTCTTAAAACTCAAGAGTGAAGTATTTAACACATTTTTAGCCTTCAAAGACCTTTGTTGAAAAACAATCTGGACATCAAATTCTTAAGCTAAGATCTAATAATGGCGGAGAATATGTTAACAACAAATTCATCAACTTTTGCATTGAGAATGGAATTCAAATGCAACATACCATTCCATATACTCCACAACAAAATGGTGTAGCTGAATGAAAGAATCGAACTTTAAAGGAAATGGCAAGTTGTATGCTTCAATCTAAAGGACTTAGTCTTAATTTTTGGGCAGAAGCAATTAACTGTGCAAATTACATAATAAATCGCACTCCTACGAGCCTAGTTTGGTGGATATGCCACCTCTCTCTATCTCTTCTACTTTTGAAAATATTTCTTCTTCAGATGATGAAAGCAAGGATGACAATCT

Ace file of the UniGene sp_v3.0_unigene34003 (antisense)

Annotations

Source	Descriptions	Term	Type	e value	Identity
AutoFact	Copia-type polyprotein, putative n=1 Tax=Arabidopsis thaliana RepID=Q9C536_ARATH	-	-	0.0	50%
FL-Next	tr=Putative uncharacterized protein; Picea sitchensis (Sitka spruce) (Pinus sitchensis).	-	-	0.0	40%
Sma3	Copia-type polyprotein	-	-	4.578e-08	-

Source	Gene names
Sma3	At2g17490; F11I4_21; LOC_Os03g26290; LOC_Os03g61660; LOC_Os10g01750; LOC_Os12g05520; LOC_Os12g44200; OSIGBa0134J07.9; OSJNBa0013O08.17; OSJNBa0065H03.10; OSJNBa0078D06.27; Os10g0106900; OsJ_21651; Rtsp-1AA; SDM1_42t00010; SDM1_47t00010; T15M6.14; T16L24.2

Source	GOs	Term	Type	Identity
Sma3	membrane	GO:0016020	Cellular Component	-
Sma3	DNA binding	GO:0003677	Molecular Function	-
Sma3	RNA-directed DNA polymerase activity	GO:0003964	Molecular Function	-
Sma3	peroxidase activity	GO:0004601	Molecular Function	-
Sma3	zinc ion binding	GO:0008270	Molecular Function	-
Sma3	potassium ion transmembrane transporter activity	GO:0015079	Molecular Function	-
Sma3	heme binding	GO:0020037	Molecular Function	-
Sma3	potassium ion transport	GO:0006813	Biological Process	-
Sma3	response to oxidative stress	GO:0006979	Biological Process	-
Sma3	DNA integration	GO:0015074	Biological Process	-

Source	InterPros	Term	Type	Identity
Sma3	Peptidase, cysteine peptidase active site	IPR000169	-	-
Sma3	Peptidase S8/S53, subtilisin/kexin/sedolisin	IPR000209	-	-
Sma3	Integrase, catalytic core	IPR001584	-	-
Sma3	Zinc finger, CCHC-type	IPR001878	-	-
Sma3	Haem peroxidase, plant/fungal/bacterial	IPR002016	-	-
Sma3	K+ potassium transporter	IPR003855	-	-
Sma3		IPR010256	-	-
Sma3		IPR013084	-	-
Sma3	Reverse transcriptase, RNA-dependent DNA polymerase	IPR013103	-	-
Sma3	Asp/Glu racemase, active site	IPR018187	-	-

Full-Lengther Next Prediction

Fln status: N-terminus

Fln database: coniferopsida.fasta

Fln subject: B8LKX7

Fln msg: Separated hits, possible frame ERROR between 1364 and 1376, Unexpected STOP codon at 3' end. Distance to subject end: 98 aas, your sequence is shorter than subject: 356 - 407

Fln protein: MALSACRCQSSQSGYALNVSSSSHSHEWLIDSGASYHMAKNKAMFSSLNDCNTKNIYVGDDRSLNVVGIGTVHLDNGQFNDVLCVPTLSCNLLSVYQITHSGEGKIVEFSPHDVVIKDLKDPKQVLATGIADDSTRLYKFHNFGSxxxxxSLCCHNDEVSKLWHERFGHLNYRSLQHLCKENMVTGLPMVSCRDGVCSGCVLGKHHRDSFEKRASWHASAPLQLVHSDLCGPLPVVSLSGCKYFLTFIDDFSKRTWVYFLKLKSEVFNTFLAFKDLC*KTIWTSNS*AKI**WRRIC*QQIHQLLH*EWNSNATYHSIYSTTKWCS*MKESNFKGNGKLYASI*RT*S*FLGRSN*

Protein Length: 357

Fln nts: AAGCCCATGCCAAGTTATTCTTGACAGCACTAACTACTTCCAATGGTTGTCCTACATGGAAGATTTACTTAGAAGTAAAGGTCTCTACCGAATAGCCACAGGCCAAGAGAAGAAACCAAAGGATGAAGATAAGGTTGCAAAGTGGGAAAACAGACAAGATCAAGCACGTGGTTTGATAGGGATGTCTATTTCTCCTGATCTTATATTCCATATTGCAGAACTTGATACTCCTAATGAAGCATTGGAACAAATCACTAAAGTTTTTGGGATTAATGGTGAAATTAGAGCCCATCAGCTTGAAAATGAGTTGCTTACATTGGACCCTAATAATTTTTCTTGCATTGAAGATTTCTTGTCCAAGTTCAAGACCCTTAGATATCTCTTGGAAAGTGTTAAGGTTAAGAAAGAAGATAGTAACCTTATTTATTCCATCCTTACTAAGTTGGGACCAGCCTACTCTGTGTTTGTTTCCACCTTCCATTCTACAAGGGAAGCCTTCATTTCTCAAGGAACAGACTACAAGCCTCCTTCCTTTGACTCTTTTTGTGATTCTTTAATAAGAGAACAAGAAAAACTCTTACACCTTGGTCTTCTTAATCTTGGAAACTCTTCCAAGAAAGCGTTAGCCGCCCAGTAGCAACCAAATTCAAAGAATCCTAAGAAGTCGTATCCTAAAAAGAATGGTCCTAAACCAAATAAGGGTCCTAAGCAATCTCAGCCTCAAAATAGAAAGATCATTCCAGCAAAATGATAAGACCAATAAAAACAAATGGAAGAAGACTGATAGACATTGTAACTTTGTAATCGAGATGGCCACTTAGAATCAAAATGCTTTAAAAAGATGGAAGCCTTGGAAGCAGCAATGAAGAAGCATAACATCCGTGTGGAGCATTCTTCAACTTCAAACTTCAACTTCATCTTCAGGA_-_ATGGCACTTTCTGCATGTCGTTGTCAATCATCTCAGTCTGGTTATGCATTAAATGTATCTTCTTCTTCTCATTCTCATGAGTGGCTCATTGATTCTGGAGCCTCTTATCACATGGCCAAAAACAAAGCCATGTTTTCTTCTTTGAATGATTGTAACACCAAGAATATATATGTTGGTGATGATAGATCTCTTAATGTTGTAGGGATTGGAACTGTTCATCTAGACAATGGTCAATTTAATGATGTATTATGTGTTCCAACCTTATCCTGCAACCTTCTATCTGTATATCAGATAACTCATTCAGGTGAAGGTAAAATTGTTGAATTTTCACCTCATGATGTTGTAATCAAGGATCTAAAAGATCCTAAACAGGTTCTAGCTACTGGTATTGCTGATGATTCCACAAGGTTGTATAAGTTTCACAACTTTGGGTCATCxxxxxxxxxxxxCAGTCTTTGTTGTCATAATGATGAAGTGAGCAAACTTTGGCATGAGCGATTTGGTCACTTAAACTATCGCTCCCTTCAGCATCTATGTAAAGAAAATATGGTGACAGGTCTTCCTATGGTATCTTGCAGAGATGGTGTTTGTTCCGGATGTGTACTCGGAAAACATCATCGGGACAGTTTTGAAAAACGTGCCTCTTGGCACGCCTCAGCCCCTTTACAGCTTGTGCATAGTGATTTATGTGGTCCACTTCCAGTTGTTTCATTATCTGGCTGCAAGTATTTCTTAACTTTCATTGATGATTTCTCCAAACGCACTTGGGTATACTTCTTAAAACTCAAGAGTGAAGTATTTAACACATTTTTAGCCTTCAAAGACCTTTGTTGAAAAACAATCTGGACATCAAATTCTTAAGCTAAGATCTAATAATGGCGGAGAATATGTTAACAACAAATTCATCAACTTTTGCATTGAGAATGGAATTCAAATGCAACATACCATTCCATATACTCCACAACAAAATGGTGTAGCTGAATGAAAGAATCGAACTTTAAAGGAAATGGCAAGTTGTATGCTTCAATCTAAAGGACTTAGTCTTAATTTTTGGGCAGAAGCAATTAACTGTGCAAATTACATAATAAATCGCACTCCTACGAGCCTAGTTTGGTGGATATGCCACCTCTCTCTATCTCTTCTACTTTTGAAAATATTTCTTCTTCAGATGATGAAAGCAAGGATGACAATCT

Fln Alignment:

Contig34003___LCVPTLSCNLLSVYQITHSGEGKIVEFSPHDVVIKDLKDPKQVLATGIADDSTRLYKFHNFGSSxxxxSLCCHNDEVSKLWHERFGHLNYRSLQHLCKENMVTGLPMVSCRDGVCSGCVLGKHHRDSFEKRASWHASAPLQLVHSDLCGPLPVVSLSGCKYFLTFIDDFSKRTWVYFLKLKSEVFNTFLAFK
B8LKX7_______________MLVPNLKSNLLSVNQIAN--QGYKVEFYKDKCLIKDINSNYKVVASGYVENG--LYKFGRFTSNxxxxALVAEVDNVSRLWHERMGHLNYKSLSLMKRFEMVYGLPKISQSQGVCEGCMSGKQHMEKFIKGKSWRAKTPLHLVHSDLMGPLEHPSISGSRYVLTFIDDYSRRIWVYFLKNKDEVFEKFKEFK

SNPs (tot: 27)

Position	A %	C %	G %	T %	Probability
1481	66		33		0.997452
1482		33		66	0.997452
1490		80		20	0.995493
1498		80		20	0.995493
1499	20		80		0.995493
1517	83			16	0.994512
1518	16		16		0.988813
1520	83		16		0.994512
1544	33		66		1.0
1567		83		16	0.994512
1598	75	25			0.996473
1602	75		25		0.996473
1611		25	75		0.996473
1612		25		75	0.996473
1614	25			75	0.996473
1618		33		66	1.0
1678		33	66		0.997452
1679	33		66		0.997452
1685	66		33		0.997452
1752		33		66	0.997452
1753		66		33	0.997452
1781		66		33	0.997452
1891		66		33	0.997452
1926	33	66			0.997452
1979			66	33	0.997452
1989		33		66	0.997452
2003		80		20	0.995493

SSRs (tot: 1)

Start position	End position	Sequence	Length
1124	1135	AGA AGA AGA AGA	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