SustainPineDB

Assembly Name: SustainPine v3.0

UniGene Name: sp_v3.0_unigene3272

Length: 1776 nt

UniGene Fasta

Ace file of the UniGene sp_v3.0_unigene3272

Annotations

Source	Descriptions	Term	Type	e value	Identity
AutoFact	pfam08755, YccV-like, Hemimethylated DNA-binding protein YccV like	-	-	8.0e-30	42%
FL-Next	tr=Putative uncharacterized protein; Picea sitchensis (Sitka spruce) (Pinus sitchensis).	-	-	0.0	89%
Sma3	Putative uncharacterized protein At2g03390	-	-	2.274e-09	-

Source	Gene names
Sma3	At2g03390; GSVIVT00030079001; OJ1590_E05.35-1; Os01g0764500; Os08g0172200; OsI_03852; OsI_27993; OsJ_03562; OsJ_26212; PHYPADRAFT_216944; POPTRDRAFT_226220; POPTRDRAFT_659241; RCOM_1621770; VITISV_009461;

Source	GOs	Term	Type	Identity
Sma3	chloroplast	GO:0009507	Cellular Component	-
Sma3	DNA binding	GO:0003677	Molecular Function	-
Sma3	nuclease activity	GO:0004518	Molecular Function	-
Sma3	nucleotide-excision repair	GO:0006289	Biological Process	-

Source	InterPros	Term	Type	Identity
Sma3	UVR domain	IPR001943	-	-
Sma3	Pentatricopeptide repeat	IPR002885	-	-
Sma3	Hemimethylated DNA-binding domain	IPR011722	-	-
Sma3	Tetratricopeptide-like helical	IPR011990	-	-
Sma3	DNA ligase, ATP-dependent, conserved site	IPR016059	-	-

Source	Species	ID	Description	Identity
ATG	Arabidoptis thaliana	AT2G03390.1	uvrB/uvrC motif-containing protein chr2:1030635-1032354 REVERSE LENGTH=330	69%
RefSeq	Arabidopsis thaliana	NP_178438.2	uvrB/uvrC motif-containing protein [Arabidopsis thaliana]	69%
RefSeq	Populus trichocarpa	XP_002315016.1	predicted protein, partial [Populus trichocarpa]	72%

Full-Lengther Next Prediction

Fln status: Complete

Fln database: coniferopsida.fasta

Fln subject: B8LKM7

Fln msg: Separated hits, possible frame ERROR between 859 and 918,

Fln protein: MHVAGANTVLPIVDAAKYIKHTLCGFEARIINRGSIRINLSRQHNGLNRALHFSLMSSVD*QRCGLRVIAAGMSKGNDPTSTAISECSESANEDILLFFFQLDLTTRIQCALNTDQYEIAQQLRSKLAEVEQEVARQRESKMGSTSSKDEAQDKAIAILRLRTDLQKAIEDEDYVYAAELxxxxxxxxxxxxxxxxxxxxxYQNVEYAFRLGQKVRHAVFGYRAVICGMDPLCCESSSWIENANVDKLSRGRNQPFYQVLVDVHADPSPLVAYVAEENLLKLDEPDLDRFDHPYIFLLFYGMDAAGDFIPIKQLREKYNRLRHEVPGEYDGNDVDSNKGT*

Protein Length: 342

Fln nts: ACATGTTCGCCTGGCGTTGGCGTTCACTGTAAATTGTTTTTCAAGTAATTTGTAGCCGCGCTTCAAATCCGGGGCCTCGCCATTGATTTTCTTTTTCTGAGAAACTGATTCCACTCAGTCTGTAATTATATCAGGCTTCTTTGGAAGCTAGCTAGCTGAGCAAGGATTCTGAAGAATAGACCCTGTATAAGCAATAGGTGCAGATCTTATGCAGGGGAAGACATCAAGAAAGAGCCATCTGTCTGACGCAGATGTCCAGTAGTCAAAATTGAATTTCAATTTGTAAAAGAAAACTGGTTTTCAAGGAGGTGGTGCA_-_ATGCATGTTGCTGGGGCAAACACTGTTCTACCCATAGTAGATGCAGCAAAATACATTAAGCATACTTTATGTGGTTTTGAAGCAAGAATTATTAACAGAGGTTCAATTAGAATTAATCTTAGCAGGCAACATAATGGACTGAACCGTGCTTTACATTTCTCTCTCATGAGTTCAGTTGATTAACAAAGGTGTGGCTTGAGGGTCATAGCTGCTGGGATGTCCAAAGGCAATGATCCCACATCAACTGCTATTTCAGAATGCAGTGAGAGTGCTAATGAGGACATTTTGCTCTTCTTTTTCCAGCTAGATTTAACTACTCGCATTCAGTGTGCTTTAAACACAGATCAATATGAAATAGCTCAACAATTACGGAGCAAGCTTGCAGAGGTTGAGCAAGAGGTTGCTAGACAAAGGGAATCAAAGATGGGATCAACATCATCCAAGGATGAAGCTCAAGACAAAGCAATAGCGATTTTGCGTCTACGAACTGATCTGCAAAAAGCTATTGAGGATGAGGATTATGTCTATGCTGCTGAGTTACGxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxTTACCAGAATGTAGAGTATGCATTTCGACTTGGGCAGAAAGTAAGGCACGCAGTTTTTGGTTATCGTGCTGTAATATGTGGAATGGATCCTTTATGCTGTGAGTCAAGTTCTTGGATTGAGAATGCGAATGTTGACAAATTGTCTAGAGGACGTAATCAACCTTTCTATCAGGTTTTGGTGGACGTACATGCAGATCCATCTCCACTGGTGGCTTATGTTGCTGAGGAGAACCTGTTAAAACTTGACGAACCAGATTTGGACCGATTTGATCATCCTTACATATTTCTCTTGTTTTATGGAATGGATGCTGCTGGAGACTTCATCCCCATAAAACAGTTGCGTGAGAAGTATAACAGGCTACGACATGAAGTGCCTGGGGAGTATGATGGTAATGATGTCGATAGTAACAAAGGTACCTAA___TAGTTGGGCAGATTACATGCAAAAGGAGCAGGTTTTAGTTAGGTTTGCAAAATGATTGCAGACCTCTCAAGTTATATGCTTACTAGCTTGCTTACACATTAATCTCCTCTGCATGATGGAACCTACTACCTACCAGGATACCTGTATATTCAACTATATTGAGCCCGGCGAGCCTGTTTCTATCCATCCAGTTGCTTGTAAATATTTATGGGAAGCAGTGCCCAGAACTCTATTGATATTTTAAAAATGTTAAAATTATTCTTGAGATATGTTACGTTTTACCACCCAACAATATTCATGATATGTTCATGAATGTATGCTCATTCCGAAATATCAGACAGGAAACTTGACTGTCTTTTGAATTGGTTTTTATGTCAACGAGGGACCGAAAGAAAATATAAAACACTTCTGAATGCATATGCTAGAAAAATTAAAATTT

Fln Alignment:

Contig3272___MHVAGANTVLPIVDAAKYIKHTLCGFEARIINRGSIRINLSRQHNGLNRALHFSLMSSVD*QRCGLRVIAAGMSKGNDPTSTAISECSESANEDILLFFFQLDLTTRIQCALNTDQYEIAQQLRSKLAEVEQEVARQRESKMGSTSSKDEAQDKAIAILRLRTDLQKAIEDEDYVYAAELRxxxxxxxxxxxxxxxxxxxxYQNVEYAFRLGQKVRHAVFGYRAVICGMDPLCCESSSWIENANVDKLSRGRNQPFYQVLVDVHADPSPLVAYVAEENLLKLDEPDLDRFDHPYIFLLFYGMDAAGDFIPIKQLREKYNRLRHEVPGEYD-GNDVDSNKGT
B8LKM7______________MHVNVTNTVLPTVDATKYMKHTLCGFEARIINRGAIRISLNRRHHELSHALHFSLMSSVDSQRRGLRVIAAGMSKGNDPTVTAISECSESANEDILLFFFQLDLTTRIQCALNSDQYEIAQQLRSKLAEVEQEVARQRESKMGSTSSKDEAQDKAIAILRLRTDLQKAIEDEDYAYAAELRxxxxxxxxxxxxxxxxxxxxYQNAEYAFRLGQKVRHAIFGYRAVICGMDPLCCESSSWIENANVDKLSRGRNQPFYQVLVDVHADPSPLVAYVAEENLLKLDEPDLDRFDHPYIFLLFYGMDTAGDFIPIKQLREKYNRQRHEVHGQYDNGNDVDNNKGT

SNPs (tot: 8)

Position	A %	C %	G %	T %	Probability
198	11		88		0.923564
346	14			85	0.993533
348		85		14	0.993533
349		85	14		0.993533
436		20		80	0.995493
1566	80		20		0.999996
1581	14			85	0.993533
1734	71	28			1.0

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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