SustainPineDB

Assembly Name: SustainPine v3.0

UniGene Name: sp_v3.0_unigene16783

Length: 1014 nt

UniGene Fasta

Ace file of the UniGene sp_v3.0_unigene16783

Annotations

Source	Descriptions	Term	Type	e value	Identity
AutoFact	putative pre-mRNA-splicing factor ATP-dependent RNA helicase [Arabidopsis thaliana] sp\|O22899.1\|DHX15_ARATH RecName: Full=Probable pre-mRNA-splicing factor ATP-dependent RNA helicase gb\|AAB63825.1\| putative pre-mRNA splicing factor RNA helicase [Arabidops	-	-	0.0	78%
FL-Next	tr=Putative uncharacterized protein; Picea sitchensis (Sitka spruce) (Pinus sitchensis).	-	-	0.0	31%

Source	Gene names
Sma3	At2g47250; At3g62310; At5g14900; F2G14_20; GSVIVT00028144001; LOC_Os03g19960; MICPUCDRAFT_24785; MICPUN_51830; OSTLU_12120; OsI_11295; OsJ_10612; Ot01g03060; PHATRDRAFT_23865; PHYPADRAFT_176656; PHYPADRAFT_204131; PHYPADRAFT_227553; POPTRDRAFT_774677; POP

Source	GOs	Term	Type	Identity
Sma3	nucleus	GO:0005634	Cellular Component	-
Sma3	nucleolus	GO:0005730	Cellular Component	-
Sma3	chloroplast envelope	GO:0009941	Cellular Component	-
Sma3	membrane	GO:0016020	Cellular Component	-
Sma3	nucleic acid binding	GO:0003676	Molecular Function	-
Sma3	helicase activity	GO:0004386	Molecular Function	-
Sma3	ATP binding	GO:0005524	Molecular Function	-
Sma3	ATP-dependent helicase activity	GO:0008026	Molecular Function	-
Sma3	mRNA processing	GO:0006397	Biological Process	-
Sma3	RNA splicing	GO:0008380	Biological Process	-

Source	InterPros	Term	Type	Identity
Sma3	Helicase, C-terminal	IPR001650	-	-
Sma3	DNA/RNA helicase, ATP-dependent, DEAH-box type, conserved site	IPR002464	-	-
Sma3	Pentatricopeptide repeat	IPR002885	-	-
Sma3	AAA+ ATPase domain	IPR003593	-	-
Sma3	Helicase-associated domain	IPR007502	-	-
Sma3	Domain of unknown function DUF1605	IPR011709	-	-
Sma3	Helicase, superfamily 1/2, ATP-binding domain	IPR014001	-	-
Sma3		IPR014021	-	-

Source	Species	ID	Description	Identity
ATG	Arabidoptis thaliana	AT2G47250.1	RNA helicase family protein chr2:19399923-19402981 REVERSE LENGTH=729	78%
RefSeq	Arabidopsis thaliana	NP_182247.1	putative pre-mRNA-splicing factor ATP-dependent RNA helicase [Arabidopsis thaliana]	78%
RefSeq	Populus trichocarpa	XP_002301528.1	predicted protein [Populus trichocarpa]	78%

Full-Lengther Next Prediction

Fln status: Putative C-terminus

Fln database: coniferopsida.fasta

Fln subject: D5ADJ5

Fln msg: Unexpected stop codon in the beginning of your sequence, query STOP codon too far from subject stop. Distance to subject end: 34 aas, putative chimeric sequence, your sequence is shorter than subject: 280 - 348

Fln protein: YVYILLSLGMVWLAS*PRLSLI*V*R*CR*LQFSMHHSWCMWCGLASMHLLTFRGPHL**QISLSIVPNCFLRPREAQKAADEAKACFAHIDGDHLTLLNVYHAYKQNNEDPNWCYENFINSRALKVANNVRQQLTRIMTRHNLKLCSTDFKSHEYYLNLRKAMLAGYFMQVAHRERSGQYLTVKDNQIVQLHPSTCVDHKPEWVLYNEYVLTSSNFIRMVTDVRGEWLIDIAPHYYDLSNFPQCEARYVLERLYNKRERDKSVRKNKSKKTVLKSAVC*

Protein Length: 281

Fln nts: TTATGTATATATCTTACTTAGCTTAGGCATGGTCTGGTTGGCGTCGTGACCTAGGCTGTCACTCATTTAAGTTTAGCGATGATGCAGATAGCTGCAGTTCTCTATGCATCACTCATGGTGCATGTGGTGTGGTCTCGCCTCTATGCATCTGCTGACCTTCCGTGGGCCTCATCTGTGATAACAAATTTCTCTTTCTATAGTCCCAAATTGCTTTCTCCGGCCACGGGAGGCCCAGAAAGCTGCAGATGAAGCAAAGGCCTGTTTTGCACACATTGACGGGGATCATCTTACGCTGCTGAATGTGTACCACGCATACAAGCAAAACAATGAAGATCCAAATTGGTGCTATGAAAATTTTATAAATTCAAGGGCTCTCAAAGTTGCCAACAATGTTAGACAGCAGTTAACTCGCATCATGACAAGGCACAACCTCAAGTTGTGTAGCACTGATTTTAAAAGTCACGAGTACTATCTTAATTTAAGGAAGGCAATGCTCGCAGGCTATTTCATGCAGGTGGCTCATCGAGAGCGGAGTGGACAGTATCTCACAGTAAAAGACAATCAGATTGTTCAGTTGCATCCTTCAACCTGTGTTGATCACAAGCCAGAATGGGTCCTATACAATGAGTATGTGTTGACAAGTAGTAATTTCATTCGTATGGTCACTGATGTTCGAGGAGAGTGGCTGATAGATATCGCCCCTCATTATTATGACCTTAGCAACTTTCCTCAGTGTGAGGCAAGGTATGTCTTGGAGAGGCTTTATAACAAGCGTGAAAGGGACAAATCGGTTCGCAAAAACAAGAGTAAAAAAACTGTTCTTAAATCAGCTGTATGTTAG___CCTAATCTATCCTCTCAATTCCTCTGACAGAGATAAATGCATATATGGTTCTTGGAGGTTATTTGTTGACCGTTGGTCCAGACTCCAGATTAAACCATATGGAATGAGCTTGTTCATAGGAGAAACTGTGTACCATTTTAAACTAAGTTGCTGTTATTATCAGCATCATCTTC

Fln Alignment:

Contig16783___ISLSIVPNCFLRPREAQKAADEAKACFAHIDGDHLTLLNVYHAYKQNNEDPNWCYENFINSRALKVANNVRQQLTRIMTRHNLKLCSTDFKSHEYYLNLRKAMLAGYFMQVAHRERSGQYLTVKDNQIVQLHPSTC---VDHKPEWVLYNEYVLTSSNFIRMVTDVRGEWLIDIAPHYYDLSN
D5ADJ5_______________VSMLSVPSVFFRPKDRAEESDAAREKFFVPESDHLTLLNVYQQWKSNQYRGDWCNDHFLQVKGLRKAREVRSQLLDILKMQKITLTTC---GHDWDV-IRKAICSAYFHNAARLKGIGEYANSRTGMPCHLHPSSALYGLGYTPDYVVYHELVLTTKEYMQCVTAVEPQWLAELGPMFFSIKD

SNPs (tot: 19)

Position	A %	C %	G %	T %	Probability
210	12		87		0.992554
215	37	62			1.0
276	87		12		0.992554
349		28		71	1.0
719			11	88	0.923564
721	88	11			0.923564
723		88	11		0.923564
725	88	11			0.923564
729			11	88	0.923564
730		88	11		0.923564
733		88	11		0.923564
734	88			11	0.923564
735		11	88		0.923564
736	11			88	0.923564
737		11	88		0.923564
738		22		77	0.999999
739		11	88		0.923564
808	33		66		0.997452
896		85		14	0.993533

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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