SustainPineDB

Assembly Name: SustainPine v3.0

UniGene Name: sp_v3.0_unigene6273

Length: 2140 nt

UniGene Fasta

>sp_v3.0_unigene6273
CGTCGTGACCTTGGCTGTCACTCATTTTTTCAACTTCAAACCGAGTGTAAGGCCAGTACCTCTTGAAGTTCACATTCAGGGATACCCTGGAAAATTCTACTGCCCCCGGATGAATAGTATGAATAAGCCATCATATGCTGCTATAACCACACATTCACCTTCGAAGCCAGTGCTCATTTTTGTTTCATCCCGTCGTCAAACACGGCTTACAGCTCTTGATCTCATTCAGTTTGCTGCTGCTGATGACAAACCAAGACAGTTTCTTAATATCCCTGAAGAAACAATAGAAATGCTAATATCCCAGGTTACAGATACAAACTTAAGACATACACTGCAATTTGGAATTGGTCTGCATCATGCTGGTCTAAATGATCGTGACAGGACTTTGGTTGAGGAACTTTTTTCCAACAACAAAATTCAGGTCCTTGTCTGCACAAGCACGCTAGCATGGGGAGTAAATCTTCCTGCACATTTAGTAATAATCAAGGGAACAGAATATTATGATGGGAAAGCAAAACGATATGTTGATTTCCCGATCACAGATATCCTACAGATGATGGGTCGAGCAGGTCGACCACAGTACGATCAGTATGGAAAGGCAGTGATACTTGTGCATGAACCCAAGAAAAGTTTTTACAAGAAGTTCTTGTACGAGCCATTCCCTGTTGAAAGTAGTCTCAAGAATCATCTCCATGATCACATCAATGCAGAGATTGTCGCTGGAACTATTTTGCGAAAACAAGATGCTGTGATGTACCTTACATGGACATTCTTTTATCGGCGCTTGGTTATGAATCCTAGCTACTATGATTTGGAGAATACAGAAAGCAGCACTGTGAATGATTACCTATCAAGGTTGGTAACAGATACATTGCAAGACTTGGAAGATGGCGGCTGCATAAAAGTTGATGAAGATAATCTTGTTGAGCCTCTTATGTTGGGCACTGTTGCTTCCCAGTATTATCTTAGCTACAAAACAGTGTCCCTTTTCTCCACAAACATTGGACCTGACACATCGCTTAAGGTCTTATTTCACGTGCTGTGTGGTGCTACAGAATATGATGAGCTGCCGGTCCGTCATAATGAGGAAAAGATAAATGAAGCATTGTCAAAAGAGGTAGAGTATGAAGTTGATAAGAACAGTTTGGATGATCCTCATGTAAAAGCAAACTTGCTGCTTCAGGCACATTTCTCAAGGTTGGAGTTGCCAATCAGTGATTATGTAACAGACCTAAAATCCGTTTTGGATCAAAGCATTCGAATCATTCAAGCTATGATTGATGTATCTGCCAATAGTGGATGGCTTAAGAGTGCGTTAAACTCTATGTACCTTATGCAAATGGTTTTGCAGGGATTATGGTATGAGAAGGACCCCTCCTTACTGATGTTGCCAAGCATGAATGGTAATCTAATCAAAATCCTGCAGCAGAGTGGGATTACACAACTTCAACAGTTACTGGAGTTCCCAAAACCTTCATTGCAAAATTTACTGCAATCAGTTCTTACACAACCTAAAATGTCAGAATTGCTTCAGGCTTTGGAATGCTTTCCTAAAATTCAAATGAAATGTAGCCTCCAAAAGACAGAATCAAGTCGGGAACAAAATTTGTATCTTCTTGACATCAAACTAAGAAGAACAAAGAGTGGCTCAAGAGCTTTTGCACCTCGTTTCCCAAAGATAAAAGATGAGGCATGGTGGTTAGTTCTTGGCAATATGAAAACATGGGAACTATATACCTTAAAAAGAATAAGCTTTATTGATCGCCTATCCACTAGTATGGTCATCTCTCCCGATCAAATAAACCTTGAGGGAACAAAATTGTTGCTGGTTTCAGATTGTTATCTCGGATTTGAACAGCAGTATACAGTTCACAACACAATGCTTGGCAGTTCGATGGATGTACAATAGCAATAAGATGTCCATGTATTCTCGAAATGAAATTCAGATATTCGTTAAGCAAAGTTGTACAAAATAAATATTAGAAAATTTCTACCCCTTCCAGTTAAATCTACCAAAGTAAGCTTTGTCATACTTACCCAGAGGCATACACTGCAGATCACATTATAGGAGCAGTGTGCCTCAGAAAAAGTTACTCATCTGTATGTATAGACTTCAGCTTTACGAATTGTGATGCCTTTT

Ace file of the UniGene sp_v3.0_unigene6273

Annotations

Source	Descriptions	Term	Type	e value	Identity
AutoFact	putative RNA helicase [Arabidopsis thaliana]	-	-	0.0	68%
FL-Next	tr=Putative uncharacterized protein; Picea sitchensis (Sitka spruce) (Pinus sitchensis).	-	-	0.0	87%

Source	Gene names
Sma3	At1g20960; At2g42270; At5g61140; CHLREDRAFT_171830; F9H16.5; GSVIVT00001949001; GSVIVT00016213001; LOC_Os03g11470; LOC_Os03g53220; MICPUCDRAFT_63; MICPUN_84094; OSJNBb0036F07.6; OSTLU_42332; Os03g0213400; OsI_05501; OsI_10511; OsI_13469; OsJ_05035; OsJ_09

Source	GOs	Term	Type	Identity
Sma3	intracellular	GO:0005622	Cellular Component	-
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	DNA binding	GO:0003677	Molecular Function	-
Sma3	RNA binding	GO:0003723	Molecular Function	-
Sma3	RNA-directed DNA polymerase activity	GO:0003964	Molecular Function	-
Sma3	helicase activity	GO:0004386	Molecular Function	-
Sma3	endonuclease activity	GO:0004519	Molecular Function	-
Sma3	ATP binding	GO:0005524	Molecular Function	-
Sma3	ATP-dependent helicase activity	GO:0008026	Molecular Function	-
Sma3	RNA-dependent DNA replication	GO:0006278	Biological Process	-
Sma3	DNA repair	GO:0006281	Biological Process	-

Source	InterPros	Term	Type	Identity
Sma3		IPR000097	-	-
Sma3	GPCR, rhodopsin-like, 7TM	IPR000276	-	-
Sma3	Reverse transcriptase	IPR000477	-	-
Sma3	Helicase, C-terminal	IPR001650	-	-
Sma3	AAA+ ATPase domain	IPR003593	-	-
Sma3	Sec63 domain	IPR004179	-	-
Sma3	Endonuclease/exonuclease/phosphatase	IPR005135	-	-
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	Identity
ATG	Arabidoptis thaliana	AT5G61140.2	-	68%
RefSeq	Arabidopsis thaliana	NP_200922.2	U5 small nuclear ribonucleoprotein helicase [Arabidopsis thaliana]	68%
RefSeq	Populus trichocarpa	XP_002328672.1	predicted protein, partial [Populus trichocarpa]	79%

Full-Lengther Next Prediction

Fln status: Complete

Fln database: coniferopsida.fasta

Fln subject: D5ACR9

Fln msg: your sequence is longer than subject: 600 - 189

Fln protein: MNSMNKPSYAAITTHSPSKPVLIFVSSRRQTRLTALDLIQFAAADDKPRQFLNIPEETIEMLISQVTDTNLRHTLQFGIGLHHAGLNDRDRTLVEELFSNNKIQVLVCTSTLAWGVNLPAHLVIIKGTEYYDGKAKRYVDFPITDILQMMGRAGRPQYDQYGKAVILVHEPKKSFYKKFLYEPFPVESSLKNHLHDHINAEIVAGTILRKQDAVMYLTWTFFYRRLVMNPSYYDLENTESSTVNDYLSRLVTDTLQDLEDGGCIKVDEDNLVEPLMLGTVASQYYLSYKTVSLFSTNIGPDTSLKVLFHVLCGATEYDELPVRHNEEKINEALSKEVEYEVDKNSLDDPHVKANLLLQAHFSRLELPISDYVTDLKSVLDQSIRIIQAMIDVSANSGWLKSALNSMYLMQMVLQGLWYEKDPSLLMLPSMNGNLIKILQQSGITQLQQLLEFPKPSLQNLLQSVLTQPKMSELLQALECFPKIQMKCSLQKTESSREQNLYLLDIKLRRTKSGSRAFAPRFPKIKDEAWWLVLGNMKTWELYTLKRISFIDRLSTSMVISPDQINLEGTKLLLVSDCYLGFEQQYTVHNTMLGSSMDVQ*

Protein Length: 601

Fln nts: CGTCGTGACCTTGGCTGTCACTCATTTTTTCAACTTCAAACCGAGTGTAAGGCCAGTACCTCTTGAAGTTCACATTCAGGGATACCCTGGAAAATTCTACTGCCCCCGG_-_ATGAATAGTATGAATAAGCCATCATATGCTGCTATAACCACACATTCACCTTCGAAGCCAGTGCTCATTTTTGTTTCATCCCGTCGTCAAACACGGCTTACAGCTCTTGATCTCATTCAGTTTGCTGCTGCTGATGACAAACCAAGACAGTTTCTTAATATCCCTGAAGAAACAATAGAAATGCTAATATCCCAGGTTACAGATACAAACTTAAGACATACACTGCAATTTGGAATTGGTCTGCATCATGCTGGTCTAAATGATCGTGACAGGACTTTGGTTGAGGAACTTTTTTCCAACAACAAAATTCAGGTCCTTGTCTGCACAAGCACGCTAGCATGGGGAGTAAATCTTCCTGCACATTTAGTAATAATCAAGGGAACAGAATATTATGATGGGAAAGCAAAACGATATGTTGATTTCCCGATCACAGATATCCTACAGATGATGGGTCGAGCAGGTCGACCACAGTACGATCAGTATGGAAAGGCAGTGATACTTGTGCATGAACCCAAGAAAAGTTTTTACAAGAAGTTCTTGTACGAGCCATTCCCTGTTGAAAGTAGTCTCAAGAATCATCTCCATGATCACATCAATGCAGAGATTGTCGCTGGAACTATTTTGCGAAAACAAGATGCTGTGATGTACCTTACATGGACATTCTTTTATCGGCGCTTGGTTATGAATCCTAGCTACTATGATTTGGAGAATACAGAAAGCAGCACTGTGAATGATTACCTATCAAGGTTGGTAACAGATACATTGCAAGACTTGGAAGATGGCGGCTGCATAAAAGTTGATGAAGATAATCTTGTTGAGCCTCTTATGTTGGGCACTGTTGCTTCCCAGTATTATCTTAGCTACAAAACAGTGTCCCTTTTCTCCACAAACATTGGACCTGACACATCGCTTAAGGTCTTATTTCACGTGCTGTGTGGTGCTACAGAATATGATGAGCTGCCGGTCCGTCATAATGAGGAAAAGATAAATGAAGCATTGTCAAAAGAGGTAGAGTATGAAGTTGATAAGAACAGTTTGGATGATCCTCATGTAAAAGCAAACTTGCTGCTTCAGGCACATTTCTCAAGGTTGGAGTTGCCAATCAGTGATTATGTAACAGACCTAAAATCCGTTTTGGATCAAAGCATTCGAATCATTCAAGCTATGATTGATGTATCTGCCAATAGTGGATGGCTTAAGAGTGCGTTAAACTCTATGTACCTTATGCAAATGGTTTTGCAGGGATTATGGTATGAGAAGGACCCCTCCTTACTGATGTTGCCAAGCATGAATGGTAATCTAATCAAAATCCTGCAGCAGAGTGGGATTACACAACTTCAACAGTTACTGGAGTTCCCAAAACCTTCATTGCAAAATTTACTGCAATCAGTTCTTACACAACCTAAAATGTCAGAATTGCTTCAGGCTTTGGAATGCTTTCCTAAAATTCAAATGAAATGTAGCCTCCAAAAGACAGAATCAAGTCGGGAACAAAATTTGTATCTTCTTGACATCAAACTAAGAAGAACAAAGAGTGGCTCAAGAGCTTTTGCACCTCGTTTCCCAAAGATAAAAGATGAGGCATGGTGGTTAGTTCTTGGCAATATGAAAACATGGGAACTATATACCTTAAAAAGAATAAGCTTTATTGATCGCCTATCCACTAGTATGGTCATCTCTCCCGATCAAATAAACCTTGAGGGAACAAAATTGTTGCTGGTTTCAGATTGTTATCTCGGATTTGAACAGCAGTATACAGTTCACAACACAATGCTTGGCAGTTCGATGGATGTACAATAG___CAATAAGATGTCCATGTATTCTCGAAATGAAATTCAGATATTCGTTAAGCAAAGTTGTACAAAATAAATATTAGAAAATTTCTACCCCTTCCAGTTAAATCTACCAAAGTAAGCTTTGTCATACTTACCCAGAGGCATACACTGCAGATCACATTATAGGAGCAGTGTGCCTCAGAAAAAGTTACTCATCTGTATGTATAGACTTCAGCTTTACGAATTGTGATGCCTTTT

Fln Alignment:

Contig6273___MYLMQMVLQGLWYEKDPSLLMLPSMNGNLIKILQQSGITQLQQLLEFPKPSLQNLLQSVLTQPKMSELLQALECFPKIQMKCSLQKTESSREQNLYLLDIKLRRTKSGSRAFAPRFPKIKDEAWWLVLGNMKTWELYTLKRISFIDRLSTSMVISPDQINLEGTKLLLVSDCYLGFEQQYTVHNTML
D5ACR9______________MYLMQMVLQGLWFEKDPSLLMLPNMNDNLIKILQQNGITQLKQLFEYPKPSLQRLLQSILTQPKLSELLQALERFPQIQMKCNLQKTESSREQNLYLLEIKLRRTKSGSRAFAPRFPKIKDEAWWLVLGNTKTWELYALKRISFSDHLTTSMVITPDQMNLEGTKLLLVSDCYLGFEQQYTVHNNTL

SNPs (tot: 25)

Position	A %	C %	G %	T %	Probability
574	66		33		0.997452
718		40		60	1.0
826	83	16			0.994512
913	85		14		0.993533
938		14		85	0.993533
1012		87		12	0.992554
1013	87		12		0.992554
1050		85		14	0.993533
1069	33		66		1.0
1131		16		83	0.994512
1186	87		12		0.992554
1215	12		87		0.992554
1282		11		88	0.923564
1335		14		85	0.993533
1340	88		11		0.923564
1341			11	88	0.923564
1518			12	87	0.992554
1596	11		88		0.923564
1597			88	11	0.923564
1598			88	11	0.923564
1660		11		88	0.923564
2030		66		33	0.997452
2092	25			75	0.996473
2093		25		75	0.996473
2094	50			25	0.995533

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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