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_unigene122743

Length: 534 nt

UniGene Fasta

>sp_v3.0_unigene122743
TACAGGCCCAAACTGCTGCTGTATCGTACTTAGAAGGGCTTCATAAGAGGGGCCGCAGATGAAGTGTTGGCTGTTTTGAAGAATGAGTGTATAAAGGACCCAGATAAGAAGAAGGAGATTGAGAAGCTTCTTAATCCAATGAGTACGCAGCATTTTGCCCAGCTCGTTTCGATGGGTAAACTAATAACCGATTTCCAGGAAGCGGGAGGCGAGGCGGGGGCTGGAATGGGAGGTGCAGCAGGAGAAGCCCTTGACGATGACATCGGCGTTGCGGTTGAATTTGAGGAGGAAGAGGATGATGAAGACAGTGATTTGGATCAGGTGCAGGAAGCGAGTGATGCGGATAATGATGATGATGGGCAGGAGGGGCATGAGGCGGAGGCTATGCAAATGGGTGGTATTGATGATGATGACATGGAAGAAACAGACGAAGGATTGAATGTCCAGGACATTGATGCTTATTGGCTTCAGCGTAAGATTTCACAGGCGTATTCTGCCATCGATCCTCAGCACAGCCAGAAGCTTGCTGAGGAA

Ace file of the UniGene sp_v3.0_unigene122743

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Annotations

Source	Descriptions	Term	Type	e value	Identity
AutoFact	putative U5 small nuclear ribonucleoprotein helicase [Arabidopsis thaliana] ref\|NP_001185050.1\| putative U5 small nuclear ribonucleoprotein helicase [Arabidopsis thaliana] gb\|AAD30595.1\|AC007369_5 Putative RNA helicase [Arabidopsis thaliana] gb\|AEE30046.1	-	-	1.0e-22	44%
FL-Next	tr=Putative uncharacterized protein; Selaginella moellendorffii (Spikemoss).	-	-	0.0	67%

Source	Gene names
Sma3	At1g20960; At2g42270; CHLREDRAFT_123427; F9H16.5; GSVIVT00001949001; LOC_Os03g53220; MICPUCDRAFT_48293; MICPUN_98172; OSJNBb0036F07.6; OSTLU_44002; OsI_05501; OsI_05507; OsI_13469; OsJ_05035; OsJ_12529; Ot11g01330; PHYPADRAFT_205535; POPTRDRAFT_773179; PO

Source	GOs	Term	Type	Identity
Sma3	nucleolus	GO:0005730	Cellular Component	-
Sma3	membrane	GO:0016020	Cellular Component	-
Sma3	ribonucleoprotein complex	GO:0030529	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	-

Source	InterPros	Term	Type	Identity
Sma3	GPCR, rhodopsin-like, 7TM	IPR000276	-	-
Sma3	Helicase, C-terminal	IPR001650	-	-
Sma3	AAA+ ATPase domain	IPR003593	-	-
Sma3	Sec63 domain	IPR004179	-	-
Sma3	DNA/RNA helicase, DEAD/DEAH box type, N-terminal	IPR011545	-	-
Sma3	Helicase, superfamily 1/2, ATP-binding domain	IPR014001	-	-
Sma3		IPR014021	-	-
Sma3		IPR018127	-	-

Source	Species	ID	Description	e value	Identity
ATG	Arabidoptis thaliana	AT1G20960.1	emb1507 U5 small nuclear ribonucleoprotein helicase, putative chr1:7302591-7309914 REVERSE LENGTH=2171	7.0e-27	54%
RefSeq	Arabidopsis thaliana	NP_001185050.1	putative U5 small nuclear ribonucleoprotein helicase [Arabidopsis thaliana]	9.0e-27	54%
RefSeq	Populus trichocarpa	XP_002318725.1	predicted protein [Populus trichocarpa]	6.0e-29	53%

Full-Lengther Next Prediction

Fln status: Internal

Fln database: tr_plants

Fln subject: D8R544

Fln msg: Unexpected stop codon in the beginning of your sequence, Distance to subject end: 1867 aas, your sequence is shorter than subject: 178 - 2164

Fln protein: YRPKLLLYRT*KGFIRGAADEVLAVLKNECIKDPDKKKEIEKLLNPMSTQHFAQLVSMGKLITDFQEAGGEAGAGMGGAAGEALDDDIGVAVEFEEEEDDEDSDLDQVQEASDADNDDDGQEGHEAEAMQMGGIDDDDMEETDEGLNVQDIDAYWLQRKISQAYSAIDPQHSQKLAEE

Protein Length: 179

Fln nts: TACAGGCCCAAACTGCTGCTGTATCGTACTTAGAAGGGCTTCATAAGAGGGGCCGCAGATGAAGTGTTGGCTGTTTTGAAGAATGAGTGTATAAAGGACCCAGATAAGAAGAAGGAGATTGAGAAGCTTCTTAATCCAATGAGTACGCAGCATTTTGCCCAGCTCGTTTCGATGGGTAAACTAATAACCGATTTCCAGGAAGCGGGAGGCGAGGCGGGGGCTGGAATGGGAGGTGCAGCAGGAGAAGCCCTTGACGATGACATCGGCGTTGCGGTTGAATTTGAGGAGGAAGAGGATGATGAAGACAGTGATTTGGATCAGGTGCAGGAAGCGAGTGATGCGGATAATGATGATGATGGGCAGGAGGGGCATGAGGCGGAGGCTATGCAAATGGGTGGTATTGATGATGATGACATGGAAGAAACAGACGAAGGATTGAATGTCCAGGACATTGATGCTTATTGGCTTCAGCGTAAGATTTCACAGGCGTATTCTGCCATCGATCCTCAGCACAGCCAGAAGCTTGCTGAGGAA

Fln Alignment:

AllPine_a_c58987___IRGAADEVLAVLKNECXXXXXXXXXXXXXXNPMSTQHFAQLVSMGKLITDFQXXXXXXXXXXXXXXXXXLDDDIGVAVXXXXXXXXXXXXXXQVQEASDADNDDDGQEGHEAEAMQMGGIDDDDMEETDEGLNVQDIDAYWLQRKISQAYSAIDPQHSQKLAEE
D8R544________________LRGAADEVLVVLKNDKMKDSDKKKELEKLLNELSQERFNQLVNIGKIIVDFYDGGDAGGAAGEA-----LDDDIGVAVEFEEEDEEEESDVDEVQEESE--NEEDGQETNEASAMQMGGLDDEDMEEADEGLNVQDIDAYWLQRKITQAYEEIEPQHSQKLAEE

SNPs (tot: 5)

Position	A %	C %	G %	T %	Probability
223			25	75	0.996475
232	75		25		0.996476
235		50		50	1.0
241	66		33		0.997452
256		66		33	0.997452

SSRs (tot: 2)

Start position	End position	Sequence	Length
347	358	ATG ATG ATG ATG	12
402	413	TGA TGA TGA TGA	12

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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