SustainPineDB

Assembly Name: SustainPine v3.0

UniGene Name: sp_v3.0_unigene3306

Length: 2469 nt

UniGene Fasta

>sp_v3.0_unigene3306
ATGCACGATACGGGGGGAGCTTTAAATGAGAGGTCTCTTGTTGCTAGAAAGTTGAAACGGAAGCTTGCTACAGCAAAAGGTGAAGATGAATCTCTTAGAAGGAAGCAAAGGATCCTGGAACAAAGGCACTCTTTACCCATTGCTTCTGCTGAGAAAAGACTGGTGGAAGAAGTAAGGAAGCATGACACACTTGTAGTGGTTGGTGAGACAGGAAGTGGAAAAACAACCCAGTTGCCACAGTTCTTGTTCAGTGCTGGCTTCTGTCATTCTGAAAAGATTATTGGAATCACTCAGCCTCGGCGAGTTGCAGCAGTTACAGTTGCTACACGGGTTGCTGAGGAAGCTTCTGTCCAGTTGGGTCAGGAAATTGGGTATACAATCAGGTTTGAGGATGCAACATCTAGAGCCACCCGGATCAAATACATGACTGATGGCATGTTATTGAGGGAAGCATTACTGGACCCACTTCTTCGTAAATATTCTGTCATTATTGTAGATGAGGCACATGAGAGAACAGTACACACAGATGTGCTATTAGGTCTATTGAAAGATGTACAAAAGAGGAGATCTCTTTCAGTTGCTAGGCAGGACAAGGACATTGCAACGGAGAATGAAAACTCCAGGCAATCAGTGCGAGAAAATGAAGAGAATATGGATGAACATAGTTACTCACTTTCTAAGAATTCCAAAACATCTCAGGATACAAAAGTGGATCCATTGAAGCTGGTAATTATGTCTGCTACTTTGGACGCCAGAGGATTTTCTGAATATTTTGGTGGGGCGAAAGCTGTTTACATTCAAGGACGACAATACCCTGTAGAAGTCATGTATACGTACACAGCAGAGCCAGACTATCTTGATGCAGCATTGGTAACTGTGTTTCAGATTCATATGGAGGAGTCTTCTGGTGACATTCTTGTCTTCTTAACTGGGCAAGAGGAAATTGAATCCATGGAGAGACTTCTGCAAGAGCGTGCTGCACATTTGCCTGAACGCATGCAAAAATTGTCTATTGTATCTATATACGCAGCCCTTCCTTCTGAGCAGCAAATGCAAGTTTTCAAACCAGCCTCTGTTGGTTATCGTAAGGTTATATTGGCAACAAATATTGCTGAAACCTCTGTCACAATTCCTGGAATTCGTTATGTAATAGATCCAGGATTGGTAAAAGCCCGTTCATACAATCCTCGCATAGGAGTGGAATCGTTGATTGTGATGCCAATTTCAAAAGCACAAGCTCTACAAAGAAGTGGGCGTGCAGGGCGAGAAGGATCAGGAAAATGTTTTCGCCTTTATACTGAAGAAGAGTTTGGAAAACTCACAGACTCAACTGTCCCTGAAATTAAGCGTTGCAATCTTTCCAGTGTTGTACTCCAGCTTAAGGCCTTGGGGATTGATGATGTGATTGGATTTGACTTTATGGATAAACCTTCAAAGGCTGCAATCGTAAAGTCATTGGAGCAGTTGTATGCTCTTGGAGCTTTGACAGATGAAGGCAAACTATCAGACCCTGTTGGTTTGCAAATGGCTCGATTGCCTTTAGAGCCTTTTTATGCAAAAGCTATCCTTGTGTCTTGTTCATTCAACTGTTCAGAAGAAATGCTAATAGCAGTTGCTATGCTTTCGGTTGAGTCTATATTTTATACTCCTCGTGAAAAGATGAAAGAGGCAAGAGCAGCTAGGCAACGCTTTTGCAGTCCAGATGGAGATCATATCACCATGGTGAATGCATATAAAGCTTGTTTAGAGGAATTGCAGAAAAACAAGTCTACAATTGTGAGCAATTCCAAAATCAGTACACTGGACAAAAACATCCAAAAATGGTGCAAGTCGAATTTTGTTAATAGCCGTTCATTCAGGCATGCTGTAAATATTCACAGGCAAATACATGGATATGTGCAAACAATGGGGTTGCCCATAGTCTCATGTGGAGAAGATTGGATTCAATTTCGTAGATGCCTTGCTGCTTCCTTTTTCCTTAATGCAGCTTGTAAGCAACCTGATGGAACATATCGAGCTATGGCAAATGGCCAGCTAGTTTCAATTCATCCCTCATCTGTGTTGTTTGGCACAAAGCCAGACTGTGTCATTTTTAACGAATTAATTTGTACTAATCAGAATTATGTTCGCAATATTACACGAATAGATGCATTTTGGTTGGCGGAACTTGCTCCTCAGTTCTATGTAGCCAGAGATGCAATGCTGACTTCTGCACCCATTTGAAGCAGCGGAGTGTAGGATCTCAGAATTCTGTCTGATGTTGATTTTTGTTTTGTTATGCTCTTCTAAAAATGGTATGAGTTCTCCCATCCCTTATGGACTTACACTGTACTATTTAAAAGTGGGGATGTATCAATTTATGCAATATCGACATTCTTTCATTTAATTTGATGAGCTAGACCTTGCCAAAGATCTTACTAGACATTGGGTAAAGTATTAGCCTTTGCTAAAAATCTTAACCTCCTTTGC

Ace file of the UniGene sp_v3.0_unigene3306

Annotations

Source	Descriptions	Term	Type	e value	Identity
AutoFact	putative RNA helicase [Oryza sativa Japonica Group] dbj\|BAD35820.1\| putative RNA helicase [Oryza sativa Japonica Group]	-	-	0.0	63%
FL-Next	tr=Uncharacterized protein; Brachypodium distachyon (Purple false brome) (Trachynia distachya).	-	-	0.0	67%
Sma3	ATP-dependent RNA helicase, putative	-	-	7.491e-19	-

Source	Gene names
Sma3	AT4g16680; AT4g18460; ATH1; At1g32490; At2g35340; At2g47250; At3g26560; At3g62310; CHLREDRAFT_121004; CHLREDRAFT_127996; CHLREDRAFT_132956; CHLREDRAFT_185922; F28J12.120; F5D14.27; GSVIVT00002999001; GSVIVT00016254001; GSVIVT00028144001; GSVIVT00030750001

Source	GOs	Term	Type	Identity
Sma3	nucleus	GO:0005634	Cellular Component	-
Sma3	nucleolus	GO:0005730	Cellular Component	-
Sma3	mitochondrion	GO:0005739	Cellular Component	-
Sma3	chloroplast envelope	GO:0009941	Cellular Component	-
Sma3	membrane	GO:0016020	Cellular Component	-
Sma3	nucleic acid binding	GO:0003676	Molecular Function	-
Sma3	RNA binding	GO:0003723	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	-
Sma3	embryo development ending in seed dormancy	GO:0009793	Biological Process	-
Sma3	posttranscriptional gene silencing by RNA	GO:0035194	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	Ribosomal protein S1, RNA-binding domain	IPR003029	-	-
Sma3	AAA+ ATPase domain	IPR003593	-	-
Sma3	Helicase-associated domain	IPR007502	-	-
Sma3	TonB box, conserved site	IPR010916	-	-
Sma3	Domain of unknown function DUF1605	IPR011709	-	-
Sma3	Nucleic acid-binding, OB-fold	IPR012340	-	-
Sma3	Helicase, superfamily 1/2, ATP-binding domain	IPR014001	-	-
Sma3		IPR014021	-	-

Source	Species	ID	Description	Identity
ATG	Arabidoptis thaliana	AT1G26370.1	RNA helicase family protein chr1:9122030-9125368 REVERSE LENGTH=717	62%
RefSeq	Arabidopsis thaliana	NP_173961.3	helicase associated domain-containing protein [Arabidopsis thaliana]	62%
RefSeq	Populus trichocarpa	XP_002311345.1	predicted protein, partial [Populus trichocarpa]	64%

Full-Lengther Next Prediction

Fln status: Complete

Fln database: tr_plants

Fln subject: I1IL91

Fln msg: your sequence is longer than subject: 741 - 697

Fln protein: MHDTGGALNERSLVARKLKRKLATAKGEDESLRRKQRILEQRHSLPIASAEKRLVEEVRKHDTLVVVGETGSGKTTQLPQFLFSAGFCHSEKIIGITQPRRVAAVTVATRVAEEASVQLGQEIGYTIRFEDATSRATRIKYMTDGMLLREALLDPLLRKYSVIIVDEAHERTVHTDVLLGLLKDVQKRRSLSVARQDKDIATENENSRQSVRENEENMDEHSYSLSKNSKTSQDTKVDPLKLVIMSATLDARGFSEYFGGAKAVYIQGRQYPVEVMYTYTAEPDYLDAALVTVFQIHMEESSGDILVFLTGQEEIESMERLLQERAAHLPERMQKLSIVSIYAALPSEQQMQVFKPASVGYRKVILATNIAETSVTIPGIRYVIDPGLVKARSYNPRIGVESLIVMPISKAQALQRSGRAGREGSGKCFRLYTEEEFGKLTDSTVPEIKRCNLSSVVLQLKALGIDDVIGFDFMDKPSKAAIVKSLEQLYALGALTDEGKLSDPVGLQMARLPLEPFYAKAILVSCSFNCSEEMLIAVAMLSVESIFYTPREKMKEARAARQRFCSPDGDHITMVNAYKACLEELQKNKSTIVSNSKISTLDKNIQKWCKSNFVNSRSFRHAVNIHRQIHGYVQTMGLPIVSCGEDWIQFRRCLAASFFLNAACKQPDGTYRAMANGQLVSIHPSSVLFGTKPDCVIFNELICTNQNYVRNITRIDAFWLAELAPQFYVARDAMLTSAPI*

Protein Length: 742

Fln nts: _-_ATGCACGATACGGGGGGAGCTTTAAATGAGAGGTCTCTTGTTGCTAGAAAGTTGAAACGGAAGCTTGCTACAGCAAAAGGTGAAGATGAATCTCTTAGAAGGAAGCAAAGGATCCTGGAACAAAGGCACTCTTTACCCATTGCTTCTGCTGAGAAAAGACTGGTGGAAGAAGTAAGGAAGCATGACACACTTGTAGTGGTTGGTGAGACAGGAAGTGGAAAAACAACCCAGTTGCCACAGTTCTTGTTCAGTGCTGGCTTCTGTCATTCTGAAAAGATTATTGGAATCACTCAGCCTCGGCGAGTTGCAGCAGTTACAGTTGCTACACGGGTTGCTGAGGAAGCTTCTGTCCAGTTGGGTCAGGAAATTGGGTATACAATCAGGTTTGAGGATGCAACATCTAGAGCCACCCGGATCAAATACATGACTGATGGCATGTTATTGAGGGAAGCATTACTGGACCCACTTCTTCGTAAATATTCTGTCATTATTGTAGATGAGGCACATGAGAGAACAGTACACACAGATGTGCTATTAGGTCTATTGAAAGATGTACAAAAGAGGAGATCTCTTTCAGTTGCTAGGCAGGACAAGGACATTGCAACGGAGAATGAAAACTCCAGGCAATCAGTGCGAGAAAATGAAGAGAATATGGATGAACATAGTTACTCACTTTCTAAGAATTCCAAAACATCTCAGGATACAAAAGTGGATCCATTGAAGCTGGTAATTATGTCTGCTACTTTGGACGCCAGAGGATTTTCTGAATATTTTGGTGGGGCGAAAGCTGTTTACATTCAAGGACGACAATACCCTGTAGAAGTCATGTATACGTACACAGCAGAGCCAGACTATCTTGATGCAGCATTGGTAACTGTGTTTCAGATTCATATGGAGGAGTCTTCTGGTGACATTCTTGTCTTCTTAACTGGGCAAGAGGAAATTGAATCCATGGAGAGACTTCTGCAAGAGCGTGCTGCACATTTGCCTGAACGCATGCAAAAATTGTCTATTGTATCTATATACGCAGCCCTTCCTTCTGAGCAGCAAATGCAAGTTTTCAAACCAGCCTCTGTTGGTTATCGTAAGGTTATATTGGCAACAAATATTGCTGAAACCTCTGTCACAATTCCTGGAATTCGTTATGTAATAGATCCAGGATTGGTAAAAGCCCGTTCATACAATCCTCGCATAGGAGTGGAATCGTTGATTGTGATGCCAATTTCAAAAGCACAAGCTCTACAAAGAAGTGGGCGTGCAGGGCGAGAAGGATCAGGAAAATGTTTTCGCCTTTATACTGAAGAAGAGTTTGGAAAACTCACAGACTCAACTGTCCCTGAAATTAAGCGTTGCAATCTTTCCAGTGTTGTACTCCAGCTTAAGGCCTTGGGGATTGATGATGTGATTGGATTTGACTTTATGGATAAACCTTCAAAGGCTGCAATCGTAAAGTCATTGGAGCAGTTGTATGCTCTTGGAGCTTTGACAGATGAAGGCAAACTATCAGACCCTGTTGGTTTGCAAATGGCTCGATTGCCTTTAGAGCCTTTTTATGCAAAAGCTATCCTTGTGTCTTGTTCATTCAACTGTTCAGAAGAAATGCTAATAGCAGTTGCTATGCTTTCGGTTGAGTCTATATTTTATACTCCTCGTGAAAAGATGAAAGAGGCAAGAGCAGCTAGGCAACGCTTTTGCAGTCCAGATGGAGATCATATCACCATGGTGAATGCATATAAAGCTTGTTTAGAGGAATTGCAGAAAAACAAGTCTACAATTGTGAGCAATTCCAAAATCAGTACACTGGACAAAAACATCCAAAAATGGTGCAAGTCGAATTTTGTTAATAGCCGTTCATTCAGGCATGCTGTAAATATTCACAGGCAAATACATGGATATGTGCAAACAATGGGGTTGCCCATAGTCTCATGTGGAGAAGATTGGATTCAATTTCGTAGATGCCTTGCTGCTTCCTTTTTCCTTAATGCAGCTTGTAAGCAACCTGATGGAACATATCGAGCTATGGCAAATGGCCAGCTAGTTTCAATTCATCCCTCATCTGTGTTGTTTGGCACAAAGCCAGACTGTGTCATTTTTAACGAATTAATTTGTACTAATCAGAATTATGTTCGCAATATTACACGAATAGATGCATTTTGGTTGGCGGAACTTGCTCCTCAGTTCTATGTAGCCAGAGATGCAATGCTGACTTCTGCACCCATTTGA___AGCAGCGGAGTGTAGGATCTCAGAATTCTGTCTGATGTTGATTTTTGTTTTGTTATGCTCTTCTAAAAATGGTATGAGTTCTCCCATCCCTTATGGACTTACACTGTACTATTTAAAAGTGGGGATGTATCAATTTATGCAATATCGACATTCTTTCATTTAATTTGATGAGCTAGACCTTGCCAAAGATCTTACTAGACATTGGGTAAAGTATTAGCCTTTGCTAAAAATCTTAACCTCCTTTGC

Fln Alignment:

Contig3306___EDESLRRKQRILEQRHSLPIASAEKRLVEEVRKHDTLVVVGETGSGKTTQLPQFLFSAGFCHSEKIIGITQPXXXXXXXXXXXXXXXXSVQLGQEIGYTIRFEDATSRATRIKYMTDGMXXXXXXXXXXXRKYSVIIVDEAHERTVHTDVLLGLLKDVQKRRSLSVARQDKDIATENENSRQSVRENEENMDEHSYSLSKNSKTSQDTKVDPLKLVIMSATLDARGFSEYFGGAKAVYIQGRQYPVEVMYTYTAEPDYLDAALVTVFQIHMEESSGDILVFLTGQEEIESMERLLQERAAHLPERMQKLSIVSIYAALPSEQQMQVFKPASVGYRKVILATNIAETSVTIPGIRYVIDPGLVKARSYNPRIGVESLIVMPISKAQALQRSGRAGREGSGKCFRLYTEEEFGKLTDSTVPEIKRCNLSSVVLQLKALGIDDVIGFDFMDKPSKAAIVKSLEQLYALGALTDEGKLSDPVGLQMARLPLEPFYAKAILVSCSFNCSEEMLIAVAMLSVESIFYTPREKMKEARAARQRFCSPDGDHITMVNAYKACLEELQKNKSTIVSNSKISTLDKNIQKWCKSNFVNSRSFRHAVNIHRQIHGYVQTMGLPIVSCGEDWIQFRRCLAASFFLNAACKQPDGTYRAMANGQLVSIHPSSVLFGTKPDCVIFNELICTNQNYVRNITRIDAFWLAELAPQFYVARD
I1IL91______________QQHNARRKQLIRQQRKSLPIASVKKRLVEEVKKNDTLIVVGETGSGKTTQLPQFLYDAGFCQDGKVIGITQPRRVAAVTVAKRVAEECNDQLGKKVGYSIRFDDSTSNATRIKYMTDGLLLREALLDPLLSKYSVIVVDEAHERTVHTDVLLGLLKKVQRSRSICADKNGKT-----------------SSDRQDHSQSSTLKACQGIKYAPLKLIIMSASLDAKCFSDYFGGAKAVHIQGRQYPVDTLYTYQPESDYLDATLVTIFQIHLEEGPGDILAFLTGQEEIESLERLIQERARQLPPDSTKIWTTPIYSSLPSEQQMNAFKPAQAGARKVVLATNIAETSVTIPGIKYVIDPGMVKARAYNPVTGMESLIIIPVSKAQALQRSGRAGREGPGKCFRLFQECEFDKLAESTVPEIKRCNLSNVVLQLKALGIDDIIGFDFMEKPSRTSILKSLEQLILLGALTDDYKLSDPVGKQMARLPLDPMYSKALIVSNEFKCLEEMLIVVSMLSVESIFFTPREKLEEARAARKSFESSEGDHITLVNVYRAALECLEKSKS---ANAKEKTMEKALNRWCWENFINYRSLRHARDVHSQIQGHVQQMGLYVSSCGDDMVQFRRCLTAAFFLNAAMRQPDGSFRALATGQSVQMHPSSVLFRTKPDCVIFNELVRTTQNYVKNLSRIDPLWLAELAPQYYATED

SNPs (tot: 7)

Position	A %	C %	G %	T %	Probability
438			85	14	0.993533
500	83			16	0.994512
558	75	25			0.996473
560	75			25	0.996473
561			75	25	0.996473
620		75		25	0.996473
2062		25	75		0.996473

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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