SustainPineDB

Assembly Name: SustainPine v3.0

UniGene Name: sp_v3.0_unigene1410

Length: 2138 nt

UniGene Fasta

>sp_v3.0_unigene1410
GCCAATACCTATATCTGGATTATCTGTATCCGGAGAACGAATAACGAATGAACCTGGTGAATATTAAACTGCCGCTTCAGGCGCTTCGATGGGATCCGGAATTCAATCTGCATCTTGATCAATGCATCGTATATAACAGCAAGTGTGTATTTCCCTGCTGAATCAAGACGGGAAAAATTGATCTCAACGAATCGAGATTACCTTGGCACTTCGAGAATACACGCTTACTCTGGCACTGGATGCCATCACATTATAGCAGAGAGAAGCAGTAGCGAAAGATCATGGGTTCTCAGTCCCTTAAAAATATCCAGAAGAAATTCAAGCTGAGGGGATTAACTCTCACTGTTAGTGCCCTCAAGGTCGTTACAGAGTTCATTAATGACTTCACAGAAGCAGAAGACGAAGCTCTCGAGCTCGTTCTAGATGAAATTGAGAGGGCCTCTCTGAAAACTACCGTGTTAGATAAAGAAGCAGTGGAGCAAATTCTGAGCCCACTTACAGGAACTGCTGCGGACAGTAGCGTAGACGCAGTAACTAATGCCTCCAACCAGTCTGGACTGCGCATCATTGATGTCTTCCTCGTCTCCAAGTTCTCCTACGATCCGATTCGTAAAATGTTTTATGAATTTACGGGCAAGTTGCCAATCCACGGTGAAGCATCAGCAAAAGCAGTTCTGTATCGTGACAGGCTTCAATTATTGCAGCAGAGGATCTCTAGAGATAGGCATTTTGCTAGACCTGTATTCGATGCTGAAGAAACTCGCTCTGGAAGTTGTGAGATGATAACCATTCAATCACTTATAGCATGTGCGGGGAAAAGGTGGATCATGGGGGTGATATCACAGTTGGAAGATGGAAATTTCTTCTTAGAAGACCTTACTGCAGCTATTCCAATTGATTTATCACAAGCAAAGATTACAACAGGATTCTTTGTGGAAAACACGATAATTATTGCAGAAGGAGAGCTACACCCCAATGGAGTTTTCCAGGTTCATACATGTGGTTTTCCACCATTAGAGAATCGCGATGTATCTCTTTCAGTAACAGCAGGTCTTGATTTCTTTGGGGGTGGGAATCTGTCAACAGAGGAAACTATCAGATTCACTGATCTGGAACAGAAGGCATCGAATGACATTGGCTGTCACTCATCTTTCTGATGTTTGGGTTGACAATGCAGAGACCATGGAAAAGCTAACCACAGTTTTGAATGGATATGAATCGGTGGAAATTGTACCTTCGTTGTTTGTTCTCATGGGAAACTTTTGTTCTCGACCATGCAATCTTGCTTTCCATGCGTTTCCAGAGCTTCGAACACAATTTGGTAAGCTTGGATCAATTATTGCTGAACATCCCCGCTTAAAAGAAGGGAGCCGGTTCTTATTTATACCAGGTCCTGATGATGCTGGTCCAGCAAATGTGCTTCCTAGGTGTTCTTTGCTAAAGTATTTTTCTGAAGAGGTTACTAAGCATGTTCCGAATGCTATCTTCTCCAGCAATCCTTGCAGAATTAAATTTTACACACAGGAGATTGTCCTGTTCCGGCAGGATATGTTATATCGGATGCGTCGTTCCTGTCTAATCCCTCCTTCATCAGAGGAAACAAATGAGCCTTTTGAACATTTGGTCGCCACGGTAACTCATCAAAGTCATCTTTGCCCATTGCCTCTCACGGTGCAACCTATTATCTGGAATTATGACCACTGTTTGCGTCTGTACCCCACACCACACACGATAGTATTAGCAGATAAGTCTGAACAGAAAGCATTCAAGTACACAGGGGTCACTTGCTTCAATCCTGGTTCTTTTGCAAATGATGGTACCTTTGTAGCTTACCGCCCTGCCACCCAAGAAGTTGAACTCTCTGCGTTGTGAGTTCTGCAAAATAAGAAATGGTGTCCTTCGCTGGGAGACTGATTGGATAGATACAGCTATGCTTAAAAGTTGTTACAAGGAAACCTCAGATTTTTCTTCTTTTTTTTTTCCCTTCATGATTCCAACTTTTTCCTCCCCATATTCGAGGGTGGCACCTATATTGTCAAAGAAATGTAATCCATAAAATGTTTATATTGCAACTTGAATTAACATCCTCCCCATATTCGAGGGTGGCACCTATATTGTCAAAGAAATGTAATCCATAA

Ace file of the UniGene sp_v3.0_unigene1410

Annotations

Source	Descriptions	Term	Type	e value	Identity
AutoFact	DNA polymerase epsilon subunit B -like protein [Arabidopsis thaliana]	-	-	0.0	75%
FL-Next	tr=Putative uncharacterized protein; Vitis vinifera (Grape).	-	-	0.0	58%
Sma3	DNA polymerase epsilon subunit B-like protein	-	-	2.207e-13	-

Source	Gene names
Sma3	At5g22110; GSVIVT00017548001; OSJNBa0017J22.19; OSJNBa0034O12.11; OSTLU_42820; Os05g0160800; Os08g0465900; OsI_18564; OsI_29519; OsJ_17214; OsJ_27613; Ot08g03600; P0104B02.17; PHYPADRAFT_216321; POPTRDRAFT_806207; RCOM_0119080; VITISV_038180;

Source	GOs	Term	Type	Identity
Sma3	nucleus	GO:0005634	Cellular Component	-
Sma3	epsilon DNA polymerase complex	GO:0008622	Cellular Component	-
Sma3	DNA binding	GO:0003677	Molecular Function	-
Sma3	DNA-directed DNA polymerase activity	GO:0003887	Molecular Function	-
Sma3	ATP binding	GO:0005524	Molecular Function	-
Sma3	ATP-dependent helicase activity	GO:0008026	Molecular Function	-
Sma3	DNA replication	GO:0006260	Biological Process	-
Sma3	DNA-dependent DNA replication	GO:0006261	Biological Process	-

Source	InterPros	Term	Type	Identity
Sma3	GPCR, rhodopsin-like, 7TM	IPR000276	-	-
Sma3	RNA helicase, ATP-dependent, DEAD-box, conserved site	IPR000629	-	-
Sma3	Helicase, C-terminal	IPR001650	-	-
Sma3	Nucleic acid binding, OB-fold, tRNA/helicase-type	IPR004365	-	-
Sma3	DNA polymerase alpha/epsilon, subunit B	IPR007185	-	-
Sma3	DNA/RNA helicase, DEAD/DEAH box type, N-terminal	IPR011545	-	-
Sma3	Helicase, superfamily 1/2, ATP-binding domain	IPR014001	-	-
Sma3		IPR014021	-	-
Sma3	DNA polymerase epsilon, subunit B	IPR016266	-	-

Source	Species	ID	Description	Identity
ATG	Arabidoptis thaliana	AT5G22110.1	ATDPB2, CYL2, DPB2 DNA polymerase epsilon subunit B2 chr5:7331071-7334178 REVERSE LENGTH=526	75%
RefSeq	Arabidopsis thaliana	NP_680197.2	DNA polymerase epsilon subunit B2 [Arabidopsis thaliana]	75%
RefSeq	Populus trichocarpa	XP_002318325.1	predicted protein [Populus trichocarpa]	77%

Full-Lengther Next Prediction

Fln status: Complete

Fln database: tr_plants

Fln subject: D7SIP4

Fln msg: Separated hits, possible frame ERROR between 1136 and 1150,

Fln protein: MGSQSLKNIQKKFKLRGLTLTVSALKVVTEFINDFTEAEDEALELVLDEIERASLKTTVLDKEAVEQILSPLTGTAADSSVDAVTNASNQSGLRIIDVFLVSKFSYDPIRKMFYEFTGKLPIHGEASAKAVLYRDRLQLLQQRISRDRHFARPVFDAEETRSGSCEMITIQSLIACAGKRWIMGVISQLEDGNFFLEDLTAAIPIDLSQAKITTGFFVENTIIIAEGELHPNGVFQVHTCGFPPLENRDVSLSVTAGLDFFGGGNLSTEETIRFTDLEQKASNDxxxxxxLSDVWVDNAETMEKLTTVLNGYESVEIVPSLFVLMGNFCSRPCNLAFHAFPELRTQFGKLGSIIAEHPRLKEGSRFLFIPGPDDAGPANVLPRCSLLKYFSEEVTKHVPNAIFSSNPCRIKFYTQEIVLFRQDMLYRMRRSCLIPPSSEETNEPFEHLVATVTHQSHLCPLPLTVQPIIWNYDHCLRLYPTPHTIVLADKSEQKAFKYTGVTCFNPGSFANDGTFVAYRPATQEVELSAL*

Protein Length: 532

Fln nts: GCCAATACCTATATCTGGATTATCTGTATCCGGAGAACGAATAACGAATGAACCTGGTGAATATTAAACTGCCGCTTCAGGCGCTTCGATGGGATCCGGAATTCAATCTGCATCTTGATCAATGCATCGTATATAACAGCAAGTGTGTATTTCCCTGCTGAATCAAGACGGGAAAAATTGATCTCAACGAATCGAGATTACCTTGGCACTTCGAGAATACACGCTTACTCTGGCACTGGATGCCATCACATTATAGCAGAGAGAAGCAGTAGCGAAAGATC_-_ATGGGTTCTCAGTCCCTTAAAAATATCCAGAAGAAATTCAAGCTGAGGGGATTAACTCTCACTGTTAGTGCCCTCAAGGTCGTTACAGAGTTCATTAATGACTTCACAGAAGCAGAAGACGAAGCTCTCGAGCTCGTTCTAGATGAAATTGAGAGGGCCTCTCTGAAAACTACCGTGTTAGATAAAGAAGCAGTGGAGCAAATTCTGAGCCCACTTACAGGAACTGCTGCGGACAGTAGCGTAGACGCAGTAACTAATGCCTCCAACCAGTCTGGACTGCGCATCATTGATGTCTTCCTCGTCTCCAAGTTCTCCTACGATCCGATTCGTAAAATGTTTTATGAATTTACGGGCAAGTTGCCAATCCACGGTGAAGCATCAGCAAAAGCAGTTCTGTATCGTGACAGGCTTCAATTATTGCAGCAGAGGATCTCTAGAGATAGGCATTTTGCTAGACCTGTATTCGATGCTGAAGAAACTCGCTCTGGAAGTTGTGAGATGATAACCATTCAATCACTTATAGCATGTGCGGGGAAAAGGTGGATCATGGGGGTGATATCACAGTTGGAAGATGGAAATTTCTTCTTAGAAGACCTTACTGCAGCTATTCCAATTGATTTATCACAAGCAAAGATTACAACAGGATTCTTTGTGGAAAACACGATAATTATTGCAGAAGGAGAGCTACACCCCAATGGAGTTTTCCAGGTTCATACATGTGGTTTTCCACCATTAGAGAATCGCGATGTATCTCTTTCAGTAACAGCAGGTCTTGATTTCTTTGGGGGTGGGAATCTGTCAACAGAGGAAACTATCAGATTCACTGATCTGGAACAGAAGGCATCGAATGACATxxxxxxxxxxxxxxxTCTTTCTGATGTTTGGGTTGACAATGCAGAGACCATGGAAAAGCTAACCACAGTTTTGAATGGATATGAATCGGTGGAAATTGTACCTTCGTTGTTTGTTCTCATGGGAAACTTTTGTTCTCGACCATGCAATCTTGCTTTCCATGCGTTTCCAGAGCTTCGAACACAATTTGGTAAGCTTGGATCAATTATTGCTGAACATCCCCGCTTAAAAGAAGGGAGCCGGTTCTTATTTATACCAGGTCCTGATGATGCTGGTCCAGCAAATGTGCTTCCTAGGTGTTCTTTGCTAAAGTATTTTTCTGAAGAGGTTACTAAGCATGTTCCGAATGCTATCTTCTCCAGCAATCCTTGCAGAATTAAATTTTACACACAGGAGATTGTCCTGTTCCGGCAGGATATGTTATATCGGATGCGTCGTTCCTGTCTAATCCCTCCTTCATCAGAGGAAACAAATGAGCCTTTTGAACATTTGGTCGCCACGGTAACTCATCAAAGTCATCTTTGCCCATTGCCTCTCACGGTGCAACCTATTATCTGGAATTATGACCACTGTTTGCGTCTGTACCCCACACCACACACGATAGTATTAGCAGATAAGTCTGAACAGAAAGCATTCAAGTACACAGGGGTCACTTGCTTCAATCCTGGTTCTTTTGCAAATGATGGTACCTTTGTAGCTTACCGCCCTGCCACCCAAGAAGTTGAACTCTCTGCGTTGTGA___GTTCTGCAAAATAAGAAATGGTGTCCTTCGCTGGGAGACTGATTGGATAGATACAGCTATGCTTAAAAGTTGTTACAAGGAAACCTCAGATTTTTCTTCTTTTTTTTTTCCCTTCATGATTCCAACTTTTTCCTCCCCATATTCGAGGGTGGCACCTATATTGTCAAAGAAATGTAATCCATAAAATGTTTATATTGCAACTTGAATTAACATCCTCCCCATATTCGAGGGTGGCACCTATATTGTCAAAGAAATGTAATCCATAA

Fln Alignment:

Contig1410___MGSQSLKNIQKKFKLRGLTLTVSALKVVTEFINDFTXXXXXXXXXXXXXXXRASLKTTVLDKEAVEQILSPLTGTAADSSVDAVTNA-SNQSGLRIIDVFLVSKFSYDPIRKMFYEFTGKLPIHGEASAKAVLYXXXXXXXXXXISRDRHFARPVFDAEETRSGSCEMITIQSLIACAGKRWIMGVISQLEDGNFFLEDLTAAIPIDLSQAKITTGFFVENTIIIAEGELHPNGVFQVHTCGFPPLENRDVSLSVTAGLDFFGGGNLSTEETIRFTDLEQKASNDIxxxxxLSDVWVDNAETMEKLTTVLNGYESVEIVPSLFVLMGNFCSRPCNLAFHAFPELRTQFGKLGSIIAEHPRLKEGSRFLFIPGPDDAGPANVLPRCSLLKYFSEEVTKHVPNAIFSSNPCRIKFYTQEIVLFRQDMLYRMRRSCLIPPSSEETNEPFEHLVATVTHQSHLCPLPLTVQPIIWNYDHCLRLYPTPHTIVLADKSEQKAFKYTGVTCFNPGSFANDGTFVAYRPATQEVELSAL
D7SIP4______________MGAATRKKVQRKFKIRGYTLKVEALDEILSFLSHFQDAEDEAIDLLLDELENESLKSSILDKESVHRVVSLLL--EAEAAVEETPGAISTRSALRIVDAFLMSKFCYDPIKKIFYENTGRLAIHGDASAKSALYRNRFLLLFQRLSRDQHFSKPAFDTEMSHFGSCEISPIQSLIGQTGKRWVMGVISQLEDGHFFLEDLTASLALLHQQYKITTGFFSENTIIVAEGEMFLDGIFQVSTCGFPPLEDRDESLASLSGLDFFGGGTLTREETLRLAGLEKKAVNDMxxxxxLSDVWLDNEETMGKLATVLDGYENVEVVPSLFIFMGNFCSHPCNLSFHSFSSLRLQFGKLGQMIASHPRLKEHSQFLFIPGPDDAGPSTVLPRCALPNYLTEEFKKYIPNAIFSSNPCRIKFYTQEIVLFRQDLLYRMRRSCLVPPSPEETSDPFEHLVATITHQSHLCPLPLSVQPIIWNYDHCLHLYPNPHTIVLGDRSEQKAFKYTGIMCFNPGSFSNESTFVAYRPCTQEVELSAL

SNPs (tot: 27)

Position	A %	C %	G %	T %	Probability
1124	33		66		0.997452
1126		66		33	0.997452
1134	33	66			0.997452
1138			66	33	0.997452
1139		66		33	0.997452
1145		66		33	0.997452
1175		33		66	0.997452
1178	66	33			0.997452
1180	66			33	0.997452
1185	66			33	0.997452
1190	66			33	0.997452
1191	66		33		0.997452
1200	66	33			0.997452
1201	33	66			0.997452
1320		11		88	0.923564
1321			11	88	0.923564
1323		11	88		0.923564
1326	88		11		0.923564
1328		11	88		0.923564
1334	88		11		0.923564
1338	88	11			0.923564
1340	11			88	0.923564
1551	83		16		0.994512
1562	14		85		0.993533
1566		85		14	0.993533
1668		84	15		0.999986
1761	93			6	0.999264

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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