SustainPineDB

Assembly Name: SustainPine v3.0

UniGene Name: sp_v3.0_unigene15839

Length: 1160 nt

UniGene Fasta

Ace file of the UniGene sp_v3.0_unigene15839

Annotations

Source	Descriptions	Term	Type	e value	Identity
AutoFact	putative DEAD/DEAH box helicase [Arabidopsis thaliana] gb\|AAF14851.1\|AC011664_33 putative helicase [Arabidopsis thaliana] gb\|AEE73755.1\| putative DEAD/DEAH box helicase [Arabidopsis thaliana]	-	-	0.0	63%
FL-Next	tr=Predicted protein; subsp. trichocarpa).	-	-	0.0	69%
Sma3	CarD-like transcriptional regulator family protein, expressed	-	-	4.755e-09	-

Source	Gene names
Sma3	At3g02060; F1C9.16; GSVIVT00037979001; LOC_Os11g32880; MtrDRAFT_AC157890g1v2; Os11g0533100; OsI_36354; OsJ_34121; PHYPADRAFT_210013; POPTRDRAFT_572874; POPTRDRAFT_581338; POPTRDRAFT_756198; RCOM_1443990;

Source	GOs	Term	Type	Identity
Sma3	nucleic acid binding	GO:0003676	Molecular Function	-
Sma3	damaged DNA binding	GO:0003684	Molecular Function	-
Sma3	sequence-specific DNA binding transcription factor activity	GO:0003700	Molecular Function	-
Sma3	peroxidase activity	GO:0004601	Molecular Function	-
Sma3	ATP binding	GO:0005524	Molecular Function	-
Sma3	ATP-dependent helicase activity	GO:0008026	Molecular Function	-
Sma3	DNA repair	GO:0006281	Biological Process	-
Sma3	regulation of transcription, DNA-dependent	GO:0006355	Biological Process	-

Source	InterPros	Term	Type	Identity
Sma3	Helicase, C-terminal	IPR001650	-	-
Sma3	CarD-like/TRCF domain	IPR003711	-	-
Sma3	Transcription-repair-coupling factor domain	IPR005118	-	-
Sma3	DNA/RNA helicase, DEAD/DEAH box type, N-terminal	IPR011545	-	-
Sma3	Helicase, superfamily 1/2, ATP-binding domain	IPR014001	-	-
Sma3		IPR014021	-	-
Sma3	Peroxidases heam-ligand binding site	IPR019793	-	-

Source	Species	ID	Description	Identity
ATG	Arabidoptis thaliana	AT3G02060.1	DEAD/DEAH box helicase, putative chr3:354409-358319 FORWARD LENGTH=823	69%
RefSeq	Arabidopsis thaliana	NP_001078092.1	putative DEAD/DEAH box helicase [Arabidopsis thaliana]	69%
RefSeq	Populus trichocarpa	XP_002303013.1	predicted protein [Populus trichocarpa]	69%

Full-Lengther Next Prediction

Fln status: Putative N-terminus

Fln database: tr_plants

Fln subject: B9GNF6

Fln msg: Distance to subject end: 663 aas, Unexpected STOP codon in 5 prime region, your sequence is shorter than subject: 179 - 939

Fln protein: RLVKEQQHKGLQKLKKGELKGNNNNNNNNVSYAIDPETLVPGDYVVHKKVGIGRFVGVRYDTPNTSNGHSDAVKYVYIEYADGMAKLPARQAHRLLYRYDSPNETRKPRSLSKLSDTSVWEKRKKKGKIAIQKMVVDMTELYLQRLKQKRPPYPKDPAIAEFAAKFPYTPTPDQQQAFL

Protein Length: 180

Fln nts: ATGGGGATAATTATCTCCTCGGTTAATCATATTTGGTCATTTGCCCTGCATTTAATTGAGCTATTACAGCGGACTCTATCTAATTGATCCTCGATTCATATTTGGGGTGAACAAATTGTAATAATTGAAGATCTTGTGTGGTGCTTATTAGTGGCGGATAGGGTATGTATACGAGTGAGGCTGAGCATTTGTCACTCTTCATTGGTCGGGACAGTCTGCTAAATTTTGGCAAGGTCACTATGGTCTCTGTTAGAATAATCAGTCTTCTACATACATTCCACGACAAACAATATCCGTATACTACTATCGATATCGATGGCAGATCAATTTTTTATCACCGGGCATGGAAACCCAGGACAAGATTAACACTGAATCCTTTCACAATTATTTCAATTCCAGTAAAACACACAGCAAACAAATGCCCGAGAAAGCTTTGTACAGCCGTAGCAGTTTACACACAAAACCCTTCTCTGAATTCCAATTCCTCAAAAAGAAGAGTTTCTCAATCAAAAGACACAGACCCAATTGCTTCTTTCAACGAAAGGCTGAAGAAAGAGAACAGAATTACCAAGAGTACAGAGAAAGAAGCACCGAATCCAGAAGAAACAGAACGATATATAAAGACTGGTGAAAGAACAACAGCACAAGGGTCTGCAGAAGCTGAAAAAGGGAGAGCTGAAAGGGAATAATAACAACAACAACAACAATGTATCGTATGCAATTGATCCCGAGACTCTGGTCCCCGGTGATTATGTTGTGCACAAGAAGGTTGGCATTGGACGCTTCGTTGGGGTTAGATATGATACTCCCAATACTTCCAATGGTCATTCGGATGCTGTCAAGTATGTTTATATCGAATATGCTGATGGAATGGCCAAGCTCCCCGCCAGGCAGGCGCACAGGCTGCTGTACCGCTATGATTCACCTAATGAAACAAGGAAACCCCGATCATTGAGCAAGTTAAGTGACACCAGTGTATGGGAGAAGAGAAAGAAAAAAGGAAAAATTGCCATTCAGAAGATGGTTGTTGATATGACAGAGCTATACCTACAGCGGCTTAAGCAGAAAAGGCCACCATATCCAAAGGATCCTGCAATTGCTGAATTTGCAGCTAAATTTCCATATACGCCCACTCCAGATCAACAGCAGGCTTTTTTAGA

Fln Alignment:

Contig15839___SYAIDPETLVPGDYVVHKKVGIGRFVGVRYDTPNTSNGHSDAVKYVYIEYADGMAKLPARQAHRLLYRYDSPNETRKPRSLSKLSDTSVWEXXXXXXXXXXXXMVVDMTELYLQRLKQKRPPYPKDPAIAEFAAKFPYTPTPDQQQAFL
B9GNF6_______________SYKVDPYTLSSGDYVVHKKVGIGRFVGIKFDM---SKGSSEAIEYVFIEYADGMAKLPVKQASRMLYRYNLPNDTKKPRTLSKLSDNGAWERRKTKGKVAIQKMVVDLMELYLHRLKQRRPPYPKTPAMVDFSAQFPYEPTPDQKQAFI

SNPs (tot: 11)

Position	A %	C %	G %	T %	Probability
590	75		25		0.996473
734		83		16	0.994512
735			16	83	0.994512
736		83	16		0.994512
737			16	83	0.994512
864	36			63	1.0
975		12	12	75	0.975346
977		12		87	0.992554
980			85	14	0.993533
988	75			25	0.996473
989		25	75		0.996473

SSRs (tot: 1)

Start position	End position	Sequence	Length
691	707	AAC AAC AAC AAC AAC AA	17

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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