SustainPineDB

Assembly Name: SustainPine v3.0

UniGene Name: sp_v3.0_unigene6367

Length: 2712 nt

UniGene Fasta

>sp_v3.0_unigene6367
ATGGGGGTTTTGAAAATGAGTTTACGTTTAAATTCGAAACGTTTGAGCAGATAATTTTCTACGGCTCGACATCATTGATTTTCCTACGGTCTATCCTTAATCAACCTCAACTGGACGGAAAAACACGAGCTCCGCGATAACGAAAGGGCAGGTAATCTCAAAGTCGATGGAATTTTCCCTGCCGGAGCTGCTTCTGTCCGGATACGTTCTAGGTTTCCATCGCTCGGCAAATACGAGGTCGGTTAAAGGTTCAGTGTTGATGCTACTCTGTGCAAATCGATCGACAAACTCTGTTACGACCGCTTGTCCTTAACCACATTATTTTTGCACTTGTCCGCTCTGGATCAGACGGACTCTGTGGCTCGATTTGCCCTCCTGGATTCTATCTTGACCACTCGTCAAGGGTTTTGAATTGGTCTGCTAATAATTTCCATTTTTTGGGGTTTCAGATATGGGGGAGAAAGAAAAGGATGACGGATTGAAGAGATTGGAATACTTGTCCTTGGTTTCCAAGGTCTGTACAGAGCTGGAGGCCCATATCGGATGTGCGGACAAGGTCTTGGCGGAGTTTATCACGGACTTGGGTGAACAGAGCGCGACTGTGGAAGAATTCGATGCACAGCTGAAGGAAAATGGAGCAGAAATGCCCGAGTATTTTGTGAGGACATTGCTTACAATAATCCATGCTATTCTTCCTCCAAAAACGAAATCGGACAAGGATAGGACAAAAGGGGATCCACCTGCCAAGTTCCCAGGGCTTTCGGTGCCTGATAACAGACTGAGGGTTAAGGAATTGGAGAAGGAGATTGAAAAGGAGTCGAGAAAGGATTCTGATAGAGAAGATGATCGGGGGAGAGGGGAGTGGAGGCACGAAAAAATTAGCAGGGATGGGGAGAAACATAGGAGGAGGAGGGAAGAGGTTTATGGTGATGACAGAAGAGACAGAGGCAGAGATAGGGATAAATATGGCAAAGATAGGGACAGGGATAAGGATAAATATAGCAGAGAGAGAGACAGGGATAGATATAGCAGAGACAGGAGGGAAGAGAATGGTGATGTCAGAGATGATGAAAGGAGCAGAGGGCACAGGGATAAAGTTGATTACAGGGATGAAAGAAAGCAGAACAATTACAATAAGGAGCCCGAGTTATTTGGGGTTTATCAGGGCAGGGTTTCCAGGGTAATGGATACAGGGTGCTTTGTTCAGTTGAATGATTTTCGAGGGAAAGAGGGTTTGGTCCATATTTCACAGATTGCTAGCAGGAGGGTGGTTAATGCAAAGGAAGCCGTTAAGAGAGATCAGGAGGTTTGGGTCAAAGTCATTTCTATATCGGGACAGAAAATGAGCCTTTCCTTGAGGGATGTTGATCAGAAAACCGGTGAGGACCTGTTGCCAATGAAGAAAAGCACCGATGATGATGCTCTGAGGGCCAATCCTCTTAGTTTCAATCAGCCTCCCACAAGGAGGACCGGACTTTCAGGTATCACCATTGTGGATGAGGAAGAAAACATGCCTTCCCGGAGGCCCCTGAAGAGAATGAGCTCTCCCGAAAAGTGGGAAGCAAAGCAGCTGGTTGCATCCGGGGTCTTGGATGTGAGGGAATATCCTATGTATGACGAAGATGGCGATGGCATGCTTTACCAAGACGAGGGTACTGCTGAGGAGGAGCTCGAGATCGAGTTGAATGAGGATGAGCCTGCTTTCCTGCAGGGGCAGACTCGTTACTCGATCGATGTTTCACCTGTGAAGATTGTGAAGAATCCCGATGGTTCACTGCAGAGAGCAGCGATGACGCAGTCAGCGCTTTCGAAGGAGCGAAGGGAGCTTCGAGAACAGCAGCAGAGGACCATGCTGGATTCCATTCCCAAGGATTTGAATCGACCGTGGGAGGATCCAATGCCAGAGACAGGTGAGAGGCATCTTGCACAGGAATTGAGAGGGGTGGGGCTTTCTGCTTATGATATGCCTGAGTGGAAGAAGGATGCTTTTGGCAAAGCACCAACATTCGGACAGCGGTCAAAGCTCTCGATTCAGGAACAGAGGCAGAGCCTTCCCATCTACAAGTTGAAGAAGGAATTGATCCAGGCGGTGAATGACAACCAAGTTCTGGTTGTCATCGGGGAGACTGGCTCCGGAAAGACCACTCAAGTGACCCAATATTTGGCAGAGGCAGGCTACACTACTAGAGGTAAGATCGGCTGTACCCAACCTCGTAGAGTGGCAGCTATGTCTGTAGCAAAAAGAGTAGCGGAGGAATTTGGATGTCGTTTAGGGGAGGAGGTTGGGTATGCCATTCGTTTCGAGGATTGCACCGGGCCAGAGACTGTGATTAAGTACATGACCGACGGTATGCTTCTAAGAGAGATTTTAGTTGATGAAGAACTATCTCAGTATTCAGTAGTCATGCTTGATGAGGCCCACGAGAGGACAATTCACACAGATGTGTTGTTTGGGCTCCTGAAGCAGTTGGTTAGACGCAGGCCTGATCTTCGGTTAATCGTCACCTCTGCCACTCTGGACGCTGAGAAATTCTCAGGATATTTCTTCAACTGCAATATATTCACTATTCCCGGGAGGACTTATCCCGTAGAGATACTGTATACCAAGCAGCCGGAGAGTGACTATTTGGATGCTGCATTGATCACGGTCATGCAGATTCACTTGACAGAACCGGAAGGTGATATTCTTCTCTTCTTAACGGGACAGGAGGA

Ace file of the UniGene sp_v3.0_unigene6367

Annotations

Source	Descriptions	Term	Type	e value	Identity
AutoFact	ATP-dependent RNA helicase DHX8/PRP22 [Arabidopsis thaliana] sp\|Q38953.2\|DHX8_ARATH RecName: Full=Probable pre-mRNA-splicing factor ATP-dependent RNA helicase dbj\|BAB01838.1\| pre-mRNA splicing factor ATP-dependent RNA helicase-like protein [Arabidopsis th	-	-	0.0	66%
FL-Next	sp=Probable pre-mRNA-splicing factor ATP-dependent RNA helicase; Arabidopsis thaliana (Mouse-ear cress).	-	-	0.0	70%
Sma3	ATP-dependent RNA helicase, putative	-	-	1.56e-40	-

Source	Gene names
Sma3	117M18_19; AT4g01020; AT4g16680; AT4g18460; ATH1; At1g27900; At1g27900/F13K9.28; At1g32490; At1g33390; At2g01130; At2g30800; At2g35340; At2g35920; At2g47250; At3g26560; At3g62310; At4g01020; At5g13010; CHLREDRAFT_108839; CHLREDRAFT_120088; CHLREDRAFT_1210

Source	GOs	Term	Type	Identity
Sma3	intracellular	GO:0005622	Cellular Component	-
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	DNA binding	GO:0003677	Molecular Function	-
Sma3	RNA binding	GO:0003723	Molecular Function	-
Sma3	double-stranded RNA binding	GO:0003725	Molecular Function	-
Sma3	adenylate kinase activity	GO:0004017	Molecular Function	-
Sma3	helicase activity	GO:0004386	Molecular Function	-
Sma3	protein binding	GO:0005515	Molecular Function	-
Sma3	ATP binding	GO:0005524	Molecular Function	-
Sma3	ATP-dependent helicase activity	GO:0008026	Molecular Function	-
Sma3	zinc ion binding	GO:0008270	Molecular Function	-
Sma3	oxidoreductase activity	GO:0016491	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	DNA integration	GO:0015074	Biological Process	-
Sma3	posttranscriptional gene silencing by RNA	GO:0035194	Biological Process	-

Source	InterPros	Term	Type	Identity
Sma3	Fumarate lyase	IPR000362	-	-
Sma3	Fructose-bisphosphate aldolase, class-I	IPR000741	-	-
Sma3	Adenylate kinase	IPR000850	-	-
Sma3	Double-stranded RNA-binding	IPR001159	-	-
Sma3	Single-stranded nucleic acid binding R3H	IPR001374	-	-
Sma3	Integrase, catalytic core	IPR001584	-	-
Sma3	Helicase, C-terminal	IPR001650	-	-
Sma3	Zinc finger, RING-type	IPR001841	-	-
Sma3	Zinc finger, CCHC-type	IPR001878	-	-
Sma3	Ankyrin repeat	IPR002110	-	-
Sma3	DNA/RNA helicase, ATP-dependent, DEAH-box type, conserved site	IPR002464	-	-
Sma3	Zinc finger, C6HC-type	IPR002867	-	-
Sma3	Pentatricopeptide repeat	IPR002885	-	-
Sma3	Ribosomal protein S1, RNA-binding domain	IPR003029	-	-
Sma3	AAA+ ATPase domain	IPR003593	-	-
Sma3	K Homology domain	IPR004087	-	-
Sma3	Adenylate kinase, subfamily	IPR006259	-	-
Sma3	Zinc finger, C2H2	IPR007087	-	-
Sma3	Helicase-associated domain	IPR007502	-	-
Sma3	Adenylate kinase, active site lid domain	IPR007862	-	-
Sma3	TonB box, conserved site	IPR010916	-	-
Sma3	DNA/RNA helicase, DEAD/DEAH box type, N-terminal	IPR011545	-	-
Sma3	Domain of unknown function DUF1605	IPR011709	-	-
Sma3	Nucleic acid-binding, OB-fold	IPR012340	-	-
Sma3	Reverse transcriptase, RNA-dependent DNA polymerase	IPR013103	-	-
Sma3	Aldolase-type TIM barrel	IPR013785	-	-
Sma3	Helicase, superfamily 1/2, ATP-binding domain	IPR014001	-	-
Sma3		IPR014021	-	-
Sma3	Double-stranded RNA-binding-like	IPR014720	-	-
Sma3	Zinc finger, C2H2-like	IPR015880	-	-
Sma3	Ubiquitin-associated/translation elongation factor EF1B, N-terminal, eukaryote	IPR015940	-	-
Sma3	Zinc finger, RING-type, conserved site	IPR017907	-	-
Sma3	Zinc finger, C3HC4 RING-type	IPR018957	-	-

Source	Species	ID	Description	Identity
ATG	Arabidoptis thaliana	AT3G26560.1	ATP-dependent RNA helicase, putative chr3:9750122-9753719 REVERSE LENGTH=1168	70%
RefSeq	Arabidopsis thaliana	NP_189288.1	ATP-dependent RNA helicase DHX8/PRP22 [Arabidopsis thaliana]	70%
RefSeq	Populus trichocarpa	XP_002318357.1	predicted protein [Populus trichocarpa]	71%

Full-Lengther Next Prediction

Fln status: N-terminus

Fln database: sp_plants

Fln subject: Q38953

Fln msg: Distance to subject end: 433 aas, your sequence is shorter than subject: 753 - 1168

Fln protein: MGEKEKDDGLKRLEYLSLVSKVCTELEAHIGCADKVLAEFITDLGEQSATVEEFDAQLKENGAEMPEYFVRTLLTIIHAILPPKTKSDKDRTKGDPPAKFPGLSVPDNRLRVKELEKEIEKESRKDSDREDDRGRGEWRHEKISRDGEKHRRRREEVYGDDRRDRGRDRDKYGKDRDRDKDKYSRERDRDRYSRDRREENGDVRDDERSRGHRDKVDYRDERKQNNYNKEPELFGVYQGRVSRVMDTGCFVQLNDFRGKEGLVHISQIASRRVVNAKEAVKRDQEVWVKVISISGQKMSLSLRDVDQKTGEDLLPMKKSTDDDALRANPLSFNQPPTRRTGLSGITIVDEEENMPSRRPLKRMSSPEKWEAKQLVASGVLDVREYPMYDEDGDGMLYQDEGTAEEELEIELNEDEPAFLQGQTRYSIDVSPVKIVKNPDGSLQRAAMTQSALSKERRELREQQQRTMLDSIPKDLNRPWEDPMPETGERHLAQELRGVGLSAYDMPEWKKDAFGKAPTFGQRSKLSIQEQRQSLPIYKLKKELIQAVNDNQVLVVIGETGSGKTTQVTQYLAEAGYTTRGKIGCTQPRRVAAMSVAKRVAEEFGCRLGEEVGYAIRFEDCTGPETVIKYMTDGMLLREILVDEELSQYSVVMLDEAHERTIHTDVLFGLLKQLVRRRPDLRLIVTSATLDAEKFSGYFFNCNIFTIPGRTYPVEILYTKQPESDYLDAALITVMQIHLTEPEGDILLFLTGQE

Protein Length: 754

Fln nts: ATGGGGGTTTTGAAAATGAGTTTACGTTTAAATTCGAAACGTTTGAGCAGATAATTTTCTACGGCTCGACATCATTGATTTTCCTACGGTCTATCCTTAATCAACCTCAACTGGACGGAAAAACACGAGCTCCGCGATAACGAAAGGGCAGGTAATCTCAAAGTCGATGGAATTTTCCCTGCCGGAGCTGCTTCTGTCCGGATACGTTCTAGGTTTCCATCGCTCGGCAAATACGAGGTCGGTTAAAGGTTCAGTGTTGATGCTACTCTGTGCAAATCGATCGACAAACTCTGTTACGACCGCTTGTCCTTAACCACATTATTTTTGCACTTGTCCGCTCTGGATCAGACGGACTCTGTGGCTCGATTTGCCCTCCTGGATTCTATCTTGACCACTCGTCAAGGGTTTTGAATTGGTCTGCTAATAATTTCCATTTTTTGGGGTTTCAGAT_-_ATGGGGGAGAAAGAAAAGGATGACGGATTGAAGAGATTGGAATACTTGTCCTTGGTTTCCAAGGTCTGTACAGAGCTGGAGGCCCATATCGGATGTGCGGACAAGGTCTTGGCGGAGTTTATCACGGACTTGGGTGAACAGAGCGCGACTGTGGAAGAATTCGATGCACAGCTGAAGGAAAATGGAGCAGAAATGCCCGAGTATTTTGTGAGGACATTGCTTACAATAATCCATGCTATTCTTCCTCCAAAAACGAAATCGGACAAGGATAGGACAAAAGGGGATCCACCTGCCAAGTTCCCAGGGCTTTCGGTGCCTGATAACAGACTGAGGGTTAAGGAATTGGAGAAGGAGATTGAAAAGGAGTCGAGAAAGGATTCTGATAGAGAAGATGATCGGGGGAGAGGGGAGTGGAGGCACGAAAAAATTAGCAGGGATGGGGAGAAACATAGGAGGAGGAGGGAAGAGGTTTATGGTGATGACAGAAGAGACAGAGGCAGAGATAGGGATAAATATGGCAAAGATAGGGACAGGGATAAGGATAAATATAGCAGAGAGAGAGACAGGGATAGATATAGCAGAGACAGGAGGGAAGAGAATGGTGATGTCAGAGATGATGAAAGGAGCAGAGGGCACAGGGATAAAGTTGATTACAGGGATGAAAGAAAGCAGAACAATTACAATAAGGAGCCCGAGTTATTTGGGGTTTATCAGGGCAGGGTTTCCAGGGTAATGGATACAGGGTGCTTTGTTCAGTTGAATGATTTTCGAGGGAAAGAGGGTTTGGTCCATATTTCACAGATTGCTAGCAGGAGGGTGGTTAATGCAAAGGAAGCCGTTAAGAGAGATCAGGAGGTTTGGGTCAAAGTCATTTCTATATCGGGACAGAAAATGAGCCTTTCCTTGAGGGATGTTGATCAGAAAACCGGTGAGGACCTGTTGCCAATGAAGAAAAGCACCGATGATGATGCTCTGAGGGCCAATCCTCTTAGTTTCAATCAGCCTCCCACAAGGAGGACCGGACTTTCAGGTATCACCATTGTGGATGAGGAAGAAAACATGCCTTCCCGGAGGCCCCTGAAGAGAATGAGCTCTCCCGAAAAGTGGGAAGCAAAGCAGCTGGTTGCATCCGGGGTCTTGGATGTGAGGGAATATCCTATGTATGACGAAGATGGCGATGGCATGCTTTACCAAGACGAGGGTACTGCTGAGGAGGAGCTCGAGATCGAGTTGAATGAGGATGAGCCTGCTTTCCTGCAGGGGCAGACTCGTTACTCGATCGATGTTTCACCTGTGAAGATTGTGAAGAATCCCGATGGTTCACTGCAGAGAGCAGCGATGACGCAGTCAGCGCTTTCGAAGGAGCGAAGGGAGCTTCGAGAACAGCAGCAGAGGACCATGCTGGATTCCATTCCCAAGGATTTGAATCGACCGTGGGAGGATCCAATGCCAGAGACAGGTGAGAGGCATCTTGCACAGGAATTGAGAGGGGTGGGGCTTTCTGCTTATGATATGCCTGAGTGGAAGAAGGATGCTTTTGGCAAAGCACCAACATTCGGACAGCGGTCAAAGCTCTCGATTCAGGAACAGAGGCAGAGCCTTCCCATCTACAAGTTGAAGAAGGAATTGATCCAGGCGGTGAATGACAACCAAGTTCTGGTTGTCATCGGGGAGACTGGCTCCGGAAAGACCACTCAAGTGACCCAATATTTGGCAGAGGCAGGCTACACTACTAGAGGTAAGATCGGCTGTACCCAACCTCGTAGAGTGGCAGCTATGTCTGTAGCAAAAAGAGTAGCGGAGGAATTTGGATGTCGTTTAGGGGAGGAGGTTGGGTATGCCATTCGTTTCGAGGATTGCACCGGGCCAGAGACTGTGATTAAGTACATGACCGACGGTATGCTTCTAAGAGAGATTTTAGTTGATGAAGAACTATCTCAGTATTCAGTAGTCATGCTTGATGAGGCCCACGAGAGGACAATTCACACAGATGTGTTGTTTGGGCTCCTGAAGCAGTTGGTTAGACGCAGGCCTGATCTTCGGTTAATCGTCACCTCTGCCACTCTGGACGCTGAGAAATTCTCAGGATATTTCTTCAACTGCAATATATTCACTATTCCCGGGAGGACTTATCCCGTAGAGATACTGTATACCAAGCAGCCGGAGAGTGACTATTTGGATGCTGCATTGATCACGGTCATGCAGATTCACTTGACAGAACCGGAAGGTGATATTCTTCTCTTCTTAACGGGACAGGAGGA

Fln Alignment:

Contig6367___EKDDGLKRLEYLSLVSKVCTELEAHIGCADKVLAEFITDLGEQSATVEEFDAQLKENGAEMPEYFVRTLLTIIHAILPPKTKSDKDRTKGDPPAKFPGLSVPDNRLRVKELEKEIXXXXXXXXXXXXXXXXXXWRHEKISRDGEKHXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXENGDVRDDERSRGHRDKVDYRDERKQNNYNKEPELFGVYQGRVSRVMDTGCFVQLNDFRGKEGLVHISQIASRRVVNAKEAVKRDQEVWVKVISISGQKMSLSLRDVDQKTGEDLLPMKKSTD-DDALRANP-LSFNQPPTRRTGLSGITIVDEEENMPSRRPLKRMSSPEKWEAKQLVASGVLDVREYPMYDEDGDGMLYQDXXXXXXXXXXXXXXXXPAFLQGQTRYSIDVSPVKIVKNPDGSLQRAAMTQSALSKXXXXXXXXXXXTMLDSIPKDLNRPWEDPMPETGERHLAQELRGVGLSAYDMPEWKKDAFGKAPTFGQRSKLSIQEQRQSLPIYKLKKELIQAVNDNQVLVVIGETGSGKTTQVTQYLAEAGYTTRGKIGCTQPRRVAAMSVAKRVAEEFGCRLGEEVGYAIRFEDCTGPETVIKYMTDGMLLREILVDEELSQYSVVMLDEAHERTIHTDVLFGLLKQLVRRRPDLRLIVTSATLDAEKFSGYFFNCNIFTIPGRTYPVEILYTKQPESDYLDAALITVMQIHLTEPEGDILLFLTGQE
Q38953______________EKEE-LNKLNHLSLVSNVCNELETHLGSAEKVLAEFIIDLGRHSETVDEFDKNLKEAGAEMPDYFVRSLLTTIHGIYPPKPKSEKKKEEGDDQ-KFKGLAIKDTKDKVKELEKEIEREAEERR-----------REEDRNRDRDRRESGRDRDRDRNRDRDDRRDRHRDRERNRGDEEGEDRRSDRRHRERGRGDGGEGEDRRRDRRAKDEYVEEDKGGAN----EPELYQVYKGRVTRVMDAGCFVQFDKFRGKEGLVHVSQMATRRVDKAKEFVKRDMEVYVKVISISSDKYSLSMRDVDQNTGRDLIPLRKPSDEDDSSRSNPSYRTKDGQVTKTGISGIRIVEENDVAPSRRPLKKMSSPERWEAKQLIASGVLRVDEFPMYDEDGDGMLYQEEGAEEELEIEMNEDE-PAFLQGQTRYSVDMSPVKIFKNPEGSLSRAAALQSALTKERREMREQQQRTMLDSIPKDLNRPWEDPMPETGERHLAQELRGVGLSAYDMPEWKKDAFGKTPTFGQRSKLSIQEQRESLPIYKLKKELIQAVHDNQVLVVIGETGSGKTTQVTQYLAEAGYTTKGKIGCTQPRRVAAMSVAKRVAEEFGCRLGEEVGYAIRFEDCTGPDTVIKYMTDGMLLREILIDENLSQYSVIMLDEAHERTIHTDVLFGLLKKLMKRRLDLRLIVTSATLDAEKFSGYFFNCNIFTIPGRTFPVEILYTKQPETDYLDAALITVLQIHLTEPEGDILVFLTGQE

SNPs (tot: 10)

Position	A %	C %	G %	T %	Probability
478	66		33		0.997452
588	80			20	0.995493
701	50	50			1.0
769		16		83	0.994512
859	20		80		0.995493
872	20		80		0.995493
879	20			80	0.995493
880		20		80	0.995493
909			88	11	0.923564
985	33		66		1.0

SSRs (tot: 1)

Start position	End position	Sequence	Length
902	913	AGG AGG AGG AGG	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