SustainPineDB

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Assembly info
Unigenes
SNPs
SSRs
Descriptions
GOs
ECs
KEGGs
InterPros
miRNAs

Assembly Name: SustainPine v3.0

UniGene Name: sp_v3.0_unigene106254

Length: 561 nt

UniGene Fasta

>sp_v3.0_unigene106254
AACTTTGCTAGGCTTCCAGGGTCAGTGCTATCATATGAAGGAGGAGACATATCGGGGGTGTTAGTCCCATGGCTTTACCTTGGAATGTGTTTCTCATCATTTTGCTGGCATGTGGAGGATCATCACTTCTACTCATTGAATTATATGCATTGGGGTGCTCCCAAGGTGTGGTATGGGGTTCCAGGTTGTGCAGCTGTGCAGTTGGAGCAAGCAATGAGAAAGTATTTGCCACATTTGTTCGAAGAACAGCCAGACTTGTTACATAAGTTGGTCACTCAGTTATCTCCCTCAGTTTTAAATTCAGAAGGTGTACCAGTTTACAGGTGTGTACAAAATGCTGGAGAATTCGTACTTACCTTCCCCGAGCATACCATGCTGGTTTTAACTGTGGTTTCAATTGTGCCGAAGCTGTAAATGTGGCACCAATTGACTGGTTGCCACATGGGCAGAGTGCTGTAGAGCTGTATCGAGAACAGTCTCGCAAGACATCTGTATCACATGATAAGTTACTATTAGGGCGATCAAGAGTGGCTGTGAAATACTCTTTGTGAGATCTTAATA

Ace file of the UniGene sp_v3.0_unigene106254

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Annotations

Source	Descriptions	Term	Type	e value	Identity
AutoFact	Transcription factor, putative n=1 Tax=Ricinus communis RepID=B9S7K7_RICCO	-	-	0.0	88%
FL-Next	sp=Probable lysine-specific demethylase JMJ14; Arabidopsis thaliana (Mouse-ear cress).	-	-	0.0	71%
Sma3	Jumonji domain protein	-	-	1.524e-19	-

Source	Gene names
Sma3	AT4g20400; At1g08620; At1g30810/T17H7.10; At1g63490; At2g34880; At2g38950; At4g20400; At5g04240; B1417F08.20; ELF6; F21E1_160; F9F13.50; GSVIVT00000415001; GSVIVT00002226001; GSVIVT00015901001; GSVIVT00018167001; GSVIVT00028571001; GSVIVT00035196001; JMJ3

Source	GOs	Term	Type	Identity
Sma3	intracellular	GO:0005622	Cellular Component	-
Sma3	nucleus	GO:0005634	Cellular Component	-
Sma3	nucleic acid binding	GO:0003676	Molecular Function	-
Sma3	DNA binding	GO:0003677	Molecular Function	-
Sma3	protein binding	GO:0005515	Molecular Function	-
Sma3	zinc ion binding	GO:0008270	Molecular Function	-
Sma3	response to brassinosteroid stimulus	GO:0009741	Biological Process	-
Sma3	embryo development ending in seed dormancy	GO:0009793	Biological Process	-
Sma3	unidimensional cell growth	GO:0009826	Biological Process	-
Sma3	histone H3-K9 demethylation	GO:0033169	Biological Process	-
Sma3		GO:0045449	Biological Process	-
Sma3	negative regulation of short-day photoperiodism, flowering	GO:0048577	Biological Process	-
Sma3	negative regulation of long-day photoperiodism, flowering	GO:0048579	Biological Process	-

Source	InterPros	Term	Type	Identity
Sma3	ARID/BRIGHT DNA-binding domain	IPR001606	-	-
Sma3	Zinc finger, PHD-type	IPR001965	-	-
Sma3	Ribosomal protein L32p	IPR002677	-	-
Sma3	JmjC domain	IPR003347	-	-
Sma3	Transcription factor jumonji, JmjN	IPR003349	-	-
Sma3	FY-rich, N-terminal	IPR003888	-	-
Sma3	FY-rich, C-terminal	IPR003889	-	-
Sma3	Zinc finger, C5HC2-type	IPR004198	-	-
Sma3	Myb DNA-binding domain, plants	IPR006447	-	-
Sma3	Zinc finger, C2H2	IPR007087	-	-
Sma3	EGF-like region, conserved site	IPR013032	-	-
Sma3	Zinc finger, C2H2-type/integrase, DNA-binding	IPR013087	-	-
Sma3		IPR013129	-	-
Sma3	Lysine-specific demethylase-like domain	IPR013637	-	-
Sma3	Zinc finger, C2H2-like	IPR015880	-	-
Sma3	FY-rich, C-terminal subgroup	IPR018516	-	-
Sma3	FY-rich, N-terminal subgroup	IPR018518	-	-

Source	Species	ID	Description	Identity
ATG	Arabidoptis thaliana	AT1G08620.1	PKDM7D Transcription factor jumonji (jmj) family protein / zinc finger (C5HC2 type) family protein chr1:2737554-2743370 FORWARD LENGTH=1209	83%
RefSeq	Arabidopsis thaliana	NP_172338.4	transcription factor jumonji and C5HC2 type zinc finger domain-containing protein [Arabidopsis thaliana]	83%
RefSeq	Populus trichocarpa	XP_002325772.1	jumonji domain protein, partial [Populus trichocarpa]	85%

Full-Lengther Next Prediction

Fln status: Internal

Fln database: sp_plants

Fln subject: Q8GUI6

Fln msg: Overlapping hits, possible frame ERROR between 366 and 360, Unexpected STOP codon at 3' end. Distance to subject end: 496 aas, your sequence is shorter than subject: 184 - 954

Fln protein: NFARLPGSVLSYEGGDISGVLVPWLYLGMCFSSFCWHVEDHHFYSLNYMHWGAPKVWYGVPGCAAVQLEQAMRKYLPHLFEEQPDLLHKLVTQLSPSVLNSEGVPVYRCVQNAGEFVLTxxxxYHAGFNCGFNCAEAVNVAPIDWLPHGQSAVELYREQSRKTSVSHDKLLLGRSRVAVKYSL*

Protein Length: 185

Fln nts: AACTTTGCTAGGCTTCCAGGGTCAGTGCTATCATATGAAGGAGGAGACATATCGGGGGTGTTAGTCCCATGGCTTTACCTTGGAATGTGTTTCTCATCATTTTGCTGGCATGTGGAGGATCATCACTTCTACTCATTGAATTATATGCATTGGGGTGCTCCCAAGGTGTGGTATGGGGTTCCAGGTTGTGCAGCTGTGCAGTTGGAGCAAGCAATGAGAAAGTATTTGCCACATTTGTTCGAAGAACAGCCAGACTTGTTACATAAGTTGGTCACTCAGTTATCTCCCTCAGTTTTAAATTCAGAAGGTGTACCAGTTTACAGGTGTGTACAAAATGCTGGAGAATTCGTACTTACCxxxxxxxxxxxxTACCATGCTGGTTTTAACTGTGGTTTCAATTGTGCCGAAGCTGTAAATGTGGCACCAATTGACTGGTTGCCACATGGGCAGAGTGCTGTAGAGCTGTATCGAGAACAGTCTCGCAAGACATCTGTATCACATGATAAGTTACTATTAGGGCGATCAAGAGTGGCTGTGAAATACTCTTTGTGAGATCTTAATA

Fln Alignment:

AllPine_a_c38020___NFARLPGSVLSYEGGDISGVLVPWLYLGMCFSSFCWHVEDHHFYSLNYMHWGAPKVWYGVPGCAAVQLEQAMRKYLPHLFEEQPDLLHKLVTQLSPSVLNSEGVPVYRCVQNAGEFVLTFxxAYHAGFNCGFNCAEAVNVAPIDWLPHGQSAVELYREQSRKTSVSHDKLLLGRSRVAVKYSL*DLN
Q8GUI6________________NLSRLPGSVLAFESCDISGVIVPWLYVGMCFSTFCWHVEDHHLYSMNYLHTGDPKVWYGIPGNHAESFENVMKKRLPDLFEEQPDLLHQLVTQLSPRILKEEGVPVYRAVQRSGEFILTFxxAYHSGFNCGFNCAEAVNVAPVDWLVHGQNAVEGYSKQRRKSSLSHDKLLLGAAMEAT-YCLWELS

SNPs (tot: 5)

Position	A %	C %	G %	T %	Probability
218			75	25	0.996473
219	66		33		0.997453
220	66		33		0.997453
221	66		33		0.997453
223		33		66	0.997476

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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