SustainPineDB

Assembly Name: SustainPine v3.0

UniGene Name: sp_v3.0_unigene1616

Length: 1556 nt

UniGene Fasta

Ace file of the UniGene sp_v3.0_unigene1616

Annotations

Source	Descriptions	Term	Type	e value	Identity
AutoFact	putative elongation factor [Arabidopsis thaliana]	-	-	0.0	53%
FL-Next	tr=Putative uncharacterized protein; Picea sitchensis (Sitka spruce) (Pinus sitchensis).	-	-	0.0	88%
Sma3	Transcription elongation factor s-II, putative	-	-	2.822e-11	-

Source	Gene names
Sma3	At2g38560; GSVIVT00029469001; GSVIVT00037504001; LOC_Os03g60130; MICPUN_74164; OSJNBa0016A21.125; OSJNBa0094J08.31; OSJNBb0042K11.5; OSTLU_5818; Os03g0815900; Os07g0229700; OsI_14059; OsI_25427; OsJ_13099; OsJ_23609; Ot10g00450; PHYPADRAFT_121361; PHYPADR

Source	GOs	Term	Type	Identity
Sma3	nucleus	GO:0005634	Cellular Component	-
Sma3	nucleic acid binding	GO:0003676	Molecular Function	-
Sma3	DNA binding	GO:0003677	Molecular Function	-
Sma3	RNA polymerase II transcription factor activity	GO:0003702	Molecular Function	-
Sma3	transcription elongation regulator activity	GO:0003711	Molecular Function	-
Sma3	translation elongation factor activity	GO:0003746	Molecular Function	-
Sma3	protein binding	GO:0005515	Molecular Function	-
Sma3	zinc ion binding	GO:0008270	Molecular Function	-
Sma3	transcription regulator activity	GO:0030528	Molecular Function	-
Sma3		GO:0006350	Biological Process	-
Sma3	transcription elongation, DNA-dependent	GO:0006354	Biological Process	-
Sma3	regulation of transcription from RNA polymerase II promoter	GO:0006357	Biological Process	-
Sma3		GO:0045449	Biological Process	-

Source	InterPros	Term	Type	Identity
Sma3	Zinc finger, TFIIS-type	IPR001222	-	-
Sma3	Transcription elongation factor, TFIIS/CRSP70, N-terminal, sub-type	IPR003617	-	-
Sma3	Transcription elongation factor S-II, central domain	IPR003618	-	-
Sma3	Transcription elongation factor, TFIIS	IPR006289	-	-
Sma3		IPR010990	-	-
Sma3		IPR014765	-	-
Sma3	Transcription elongation factor, IIS	IPR016492	-	-
Sma3	Transcription elongation factor S-IIM	IPR017890	-	-
Sma3	Transcription factor IIS, N-terminal	IPR017923	-	-

Source	Species	ID	Description	Identity
ATG	Arabidoptis thaliana	AT2G38560.1	TFIIS transcript elongation factor IIS chr2:16134802-16136319 FORWARD LENGTH=378	53%
RefSeq	Arabidopsis thaliana	NP_181390.1	transcript elongation factor IIS [Arabidopsis thaliana]	53%
RefSeq	Populus trichocarpa	XP_002323085.1	predicted protein [Populus trichocarpa]	58%

Full-Lengther Next Prediction

Fln status: Complete

Fln database: coniferopsida.fasta

Fln subject: C0PT74

Fln msg:

Fln protein: MGSSKAAEKELVELFEKVQKAADKAITNEAEEQRCLDALKALRAVPVTMSVLVSTQVGKRLRHLTKHPQESICVLATGLLDSWKKVVTSETVANNGNKATKLEGKQFKSVKVEVNAVKGGSVKVEKKPMVEAASISSKKVSSSSNGPPKLTSMIKCNNTVRDRMRELLHEAFSKVGNEAEGDNLVRVNACDPVRVAVSVETLMFEKLGLSTGAQKLKYRSIMFNLKDANNPDLRRRVLLGEIKPEKLIVMTAEEMASDQRKLENKQIKDKALFECERGIKPKATTDQFKCGKCGQRKCTYYQLQTRSADEPMTTFVTCVNCNNHWKFC*

Protein Length: 330

Fln nts: ATCAAGAGCCCTAGGACCATGAATAAATAACCTTGCTGACACCCCCATAACCAGATTTGCTTCGAAGGCGTTAATGCGGTCTGATCGTACGATCGCGGGTTTCCGGGGTTCCGCGTTTCTCCGCCCAGGGCAACGCATATATCAAGATTTTGTTGCTATCCATTCTTTGCACTGTAAATATCGCGACATATTTTGTTTTAAGGTTTGGTAGGGTTTTGATCCTGAGGTTGTTTCAGGGTTTGGTATAGGCAATATCAGCAGCAGAGCA_-_ATGGGCTCTTCCAAAGCCGCAGAAAAGGAACTCGTGGAGCTTTTTGAGAAGGTGCAGAAGGCGGCGGACAAAGCCATTACAAATGAGGCAGAGGAGCAACGATGTCTGGATGCCCTTAAAGCCCTCCGGGCTGTACCTGTAACAATGAGTGTTCTTGTTTCAACTCAGGTTGGCAAACGCCTCCGACATCTCACAAAGCATCCTCAAGAAAGTATTTGTGTGTTAGCCACTGGCTTACTTGATTCTTGGAAGAAGGTTGTGACATCAGAAACTGTTGCTAACAATGGAAACAAAGCTACAAAGTTGGAAGGTAAGCAGTTCAAGTCTGTTAAAGTTGAGGTCAATGCTGTTAAGGGAGGTTCTGTTAAGGTTGAGAAGAAACCCATGGTAGAGGCAGCATCTATTAGCAGTAAGAAGGTGTCGTCCTCTTCAAATGGCCCTCCAAAGCTGACAAGTATGATTAAGTGTAATAACACAGTACGGGACAGGATGCGTGAGCTTCTTCATGAGGCTTTTTCCAAAGTAGGTAATGAAGCCGAAGGCGACAACCTGGTGAGAGTAAATGCATGTGATCCAGTACGAGTTGCAGTTTCTGTTGAGACACTGATGTTTGAAAAGTTAGGGCTGTCTACTGGAGCCCAGAAGTTGAAATATAGGTCCATCATGTTCAACCTGAAAGATGCAAACAATCCAGATTTGAGGAGGAGAGTTCTTCTTGGGGAAATTAAGCCAGAGAAACTTATTGTCATGACAGCAGAAGAAATGGCTAGTGATCAAAGAAAGCTTGAGAACAAACAGATCAAAGACAAGGCACTTTTTGAGTGTGAGCGTGGGATAAAGCCTAAAGCTACAACAGACCAATTCAAGTGTGGTAAATGTGGCCAGCGGAAGTGTACTTACTATCAGCTGCAGACAAGAAGTGCAGATGAACCTATGACTACATTTGTCACATGTGTAAATTGTAATAACCATTGGAAGTTCTGCTAA___TTTCAAGCCAGACTGCTAGCTTGGTAGGTAGAGCAGAATTAGGTTAGTGAGATCTAGAGATTCATTGCCTAGGTTAATGGCACCCTTGATTGAAAATTGATATTTGTTACATATTTACTTGACAGTAGGTATAAATGTTTGGTTAGGTTTGTCAAGATCTTTGCAGTAACTGCATATCATGGTCTAAAGTTAGACAATGGCTTCTTAGGAAAGTAAATGCAATTATCTGTAACATTCTAAGGAAAAGTACCTAATTATATTTTTTCTATTTATTTTATATGAATGAACCTGGTATTTATTG

Fln Alignment:

Contig1616___MGSSKAAEKELVELFEKVQKAADKAITNEAEEQRCLDALKALRAVPVTMSVLVSTQVGKRLRHLTKHPQESICVLATGLLDSWKKVVTSETVANNGNKATKLEGKQFKSVKVEVNAVKGGSVKVEKKPMVEAAXXXXXXXXXXXNGPPKLTSMIKCNNTVRDRMRELLHEAFSKVGNEAEGDNLVRVNACDPVRVAVSVETLMFEKLGLSTGAQKLKYRSIMFNLKDANNPDLRRRVLLGEIKPEKLIVMTAEEMASDQRKLENKQIKDKALFECERGIKPKATTDQFKCGKCGQRKCTYYQLQTRSADEPMTTFVTCVNCNNHWKFC
C0PT74______________MGSSKAVEKELLELFEKVKKAADKAITNEAEEQRCLDALKALRAVPVTMGVLVSTQVGKRLRNLTKHPQENICTLATDLLDSWKKVVTSETLANSGNKATQSEDKQSKSIKVEDNAVKRESVKVEKKPKEEEASITNKNVSSSSNGPPKLTSMIKCNDAVRDKIREIIYEAFSKVVNEAEGENMVRINACDPVRVAVTVETLMFEKLGRSNGAQKLKYRSIIFNLKDANNPDLRRRVLLGEIKPEKLIVMTAEEMASDQRKLENKQIKDKALFECERGIKPKATTDQFKCGKCGQRKCTYYQLQTRSADEPMTTFVTCVNCNNHWKFC

SNPs (tot: 3)

Position	C %	T %	Probability
1320	80	3	1.0
1522	20	80	0.995493
1546	66	33	0.997452

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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