SustainPineDB

Assembly Name: SustainPine v3.0

UniGene Name: sp_v3.0_unigene2949

Length: 2074 nt

UniGene Fasta

>sp_v3.0_unigene2949
GAAGCTCTCAATCTTTCTTCCCCTCCCTCCAACCCATTTTAACTTTTCCTGGTTGCGCGTACAAACTTCTGCAGAGGTCGCATGCTCTAAACCCAGATCTGCCGGGGAGGGTTTTAGAAGTTTCTCTGCAGTTTTTTATTTGGTTTGATTTTATTACCTAGATGGATTCAGACCAGGGCAAACTTTTCATTGGCGGGATATCATGGGAGACGACGGAGGACACCCTCCGGGACTACTTCAAGCACTACGGCGAGGTCGTGGACAGCGTGATAATGCGGGATCGAAACACGGGGACTTCTCGCGGCTTCGGCTTTGTGGTCTTCGCGGATCCCAATGTTGCCGACAGAGCCTTGTTGGAGAAACATGTCATCGCAGGAAGAGCGGTCGAAGCTAAGAAAGCAGTGCCACGAAGCGAACAGCAGCAGGGTGGCTCAGGGCCTAGGGTATTCAATAAGAATGGCTCTCCGCAAGGCTTAGCCGGCGGTCAGGCAAGGACTAAAAAGATCTTCGTCGGTGGTCTGCCCCCAACCTTATCGGAGGAAGATTTCAGGCAGTATTTTCAGCAGTTCGGTAACATTACTGATGTTGTCGTCATGTATGATAACGGGACACAGAGGCCGCGGGGTTTTGGGTTTATCACATTCGATTCCGAGGAGGCTGTGGAAAATGTTTTAAGGAAGAGTTTTCATGAGCTCCACGAGAAGCTTGTTGAGGTTAAGCGGGCGGTTCCCAAGGAGGCTAACATGGGGGGCTCTCGGGGCCGAGGGTTTGGTGCTCCAGCGGCGGTTTACGGTTCGAATCCTGGAGCGGGTAGATATGGCGGGGCACCGCCGCCTTCGGCTGGGCGGGGTGGTGGTGGTGGGTATGCGGGAGGGTATGGACCTACGGAAAATGGGGGGACCCCTGGCGGTTATGCACCTGGCGCTCCTGGTGGCTACATGAATGGAGGTTATGGTGGTGGTGCAGGTTATGGCAGTCCCGGTGGCGGGTATGGCATGGGTGGGTATGTAGGTGTCCCGACGCCTCCTCTCGGTGGAGGTTATGGGGGTGGGCCGGCTCCTCCTCAGGTGGCTGGATATGGGAATGCGCCTGCTGCAGCTCCCCAGAGCCCGTGGGGAGGAGCCACAGCCGGCGTTGGCGGTGCAGGGGTGAATTCTGCCGGCTATGGCCCAAAGGGACTAATGGGCGCTGGCAGCGGTGGGCAGAGTCCGAGCGGAGTGCCTGGTTATGGAAATGGACCTGCGGCAGCGTATCCTTATGGCGATGGGGGTTACAATTCTGGTGCCCCTGGTGGATACGGTGCAGGTTATGGTGTGGCGGCCGCGCCTTATAAAATGGGCATGGGTGGAGGCTATGGAGACCCTCATGGCGCTCCCGGTGGGTACCCAGATACAGCATGGAAGACAGGTGGGGGAGCTGACGCTTCAGGCGGTGCACCTGCGGGCGGGTACGGAGTAGGCGGTGGCGGTGCTCCTCATGCTGATGGGATGATGAATGATCATTCTGGCTTTGGAGGAGGAAACTATGGCGCAGCAGGGCGACAGGGCCAGAGAGGTCCCGATGGGCGATTTAGGCCCTATCCTGAACGCACAGGCTAACTTTTTTAACATTTGAGTTTTTTTTTACAGCGCAGACCATTTTTTTTCTTTTGAGACTGTGTTGTATCAGTGGGTACAGATCGGAGTTCTTTCAACTGGTTTTCAATTTTATTTTCCTTATGTAGCCGTTAAAGTAAAGAGAATATTAGTGATATTGACAGGTTATTCTATATTCATGCCACTGTTTACTGGGCAGTACTTGGTCAGACTAGAATTTTGTAATCCTTGGTAATGTAGGCGCTAGACGATTTACAATTACTGTTGTGCCATATGATGGCTTTTTGGCTCTTTACTTGATCGTTTGCTAAGTTGATGGAATCGTGAGGCTGTAGTATTTTTAACCATCAAAGAGTTTGTGTTTCTGCCTATTTTGTTACTATTAGGGTGAGAATTTTAATTGAACAAATTGTACCACTGATTGAAATGTCAAAAATATGAAAAATCAAATGAATACTCATATCAGCATATCGGTTTAC

Ace file of the UniGene sp_v3.0_unigene2949

Annotations

Source	Descriptions	Term	Type	e value	Identity
AutoFact	RNA recognition motif-containing protein [Arabidopsis thaliana] ref\|NP_974937.1\| RNA recognition motif-containing protein [Arabidopsis thaliana] gb\|AAK92731.1\| putative RNA-binding protein [Arabidopsis thaliana] gb\|AAM20100.1\| putative RNA-binding protein	-	-	0.0	65%
FL-Next	tr=Putative uncharacterized protein; Picea sitchensis (Sitka spruce) (Pinus sitchensis).	-	-	0.0	71%
Sma3	Heterogeneous nuclear ribonucleoprotein 27C, putative	-	-	3.03e-11	-

Source	Gene names
Sma3	24.t00066; 26.t00016; AT4g14300; At1g58470 orthologue; At1g58470/F9K23.11; At2g33410; At3g07810; At3g13224; At4g14300; At5g47620; B1131G07.23-1; B1131G07.23-2; B1206D04.14; CHLREDRAFT_99772; F17A17.15; GSVIVT00009000001; GSVIVT00012474001; GSVIVT000203280

Source	GOs	Term	Type	Identity
Sma3	myosin complex	GO:0016459	Cellular Component	-
Sma3	outer membrane	GO:0019867	Cellular Component	-
Sma3	ribonucleoprotein complex	GO:0030529	Cellular Component	-
Sma3	nucleotide binding	GO:0000166	Molecular Function	-
Sma3	nucleic acid binding	GO:0003676	Molecular Function	-
Sma3	RNA binding	GO:0003723	Molecular Function	-
Sma3	motor activity	GO:0003774	Molecular Function	-
Sma3	structural constituent of cell wall	GO:0005199	Molecular Function	-
Sma3	protein binding	GO:0005515	Molecular Function	-
Sma3	ATP binding	GO:0005524	Molecular Function	-
Sma3	zinc ion binding	GO:0008270	Molecular Function	-

Source	InterPros	Term	Type	Identity
Sma3	RNA recognition motif domain	IPR000504	-	-
Sma3	Myosin head, motor domain	IPR001609	-	-
Sma3	Zinc finger, RING-type	IPR001841	-	-
Sma3	Pistil-specific extensin-like protein	IPR003882	-	-
Sma3	Outer membrane autotransporter barrel	IPR006315	-	-
Sma3	Nucleotide-binding, alpha-beta plait	IPR012677	-	-
Sma3	Zinc finger, C3HC4 RING-type	IPR018957	-	-

Source	Species	ID	Description	Identity
ATG	Arabidoptis thaliana	AT5G55550.3	RNA-binding (RRM/RBD/RNP motifs) family protein chr5:22502135-22503658 REVERSE LENGTH=460	65%
RefSeq	Arabidopsis thaliana	NP_001190546.1	RNA recognition motif-containing protein [Arabidopsis thaliana]	65%
RefSeq	Populus trichocarpa	XP_002315580.1	predicted protein [Populus trichocarpa]	62%

Full-Lengther Next Prediction

Fln status: Complete

Fln database: coniferopsida.fasta

Fln subject: A9NVN2

Fln msg:

Fln protein: MDSDQGKLFIGGISWETTEDTLRDYFKHYGEVVDSVIMRDRNTGTSRGFGFVVFADPNVADRALLEKHVIAGRAVEAKKAVPRSEQQQGGSGPRVFNKNGSPQGLAGGQARTKKIFVGGLPPTLSEEDFRQYFQQFGNITDVVVMYDNGTQRPRGFGFITFDSEEAVENVLRKSFHELHEKLVEVKRAVPKEANMGGSRGRGFGAPAAVYGSNPGAGRYGGAPPPSAGRGGGGGYAGGYGPTENGGTPGGYAPGAPGGYMNGGYGGGAGYGSPGGGYGMGGYVGVPTPPLGGGYGGGPAPPQVAGYGNAPAAAPQSPWGGATAGVGGAGVNSAGYGPKGLMGAGSGGQSPSGVPGYGNGPAAAYPYGDGGYNSGAPGGYGAGYGVAAAPYKMGMGGGYGDPHGAPGGYPDTAWKTGGGADASGGAPAGGYGVGGGGAPHADGMMNDHSGFGGGNYGAAGRQGQRGPDGRFRPYPERTG*

Protein Length: 480

Fln nts: GAAGCTCTCAATCTTTCTTCCCCTCCCTCCAACCCATTTTAACTTTTCCTGGTTGCGCGTACAAACTTCTGCAGAGGTCGCATGCTCTAAACCCAGATCTGCCGGGGAGGGTTTTAGAAGTTTCTCTGCAGTTTTTTATTTGGTTTGATTTTATTACCTAG_-_ATGGATTCAGACCAGGGCAAACTTTTCATTGGCGGGATATCATGGGAGACGACGGAGGACACCCTCCGGGACTACTTCAAGCACTACGGCGAGGTCGTGGACAGCGTGATAATGCGGGATCGAAACACGGGGACTTCTCGCGGCTTCGGCTTTGTGGTCTTCGCGGATCCCAATGTTGCCGACAGAGCCTTGTTGGAGAAACATGTCATCGCAGGAAGAGCGGTCGAAGCTAAGAAAGCAGTGCCACGAAGCGAACAGCAGCAGGGTGGCTCAGGGCCTAGGGTATTCAATAAGAATGGCTCTCCGCAAGGCTTAGCCGGCGGTCAGGCAAGGACTAAAAAGATCTTCGTCGGTGGTCTGCCCCCAACCTTATCGGAGGAAGATTTCAGGCAGTATTTTCAGCAGTTCGGTAACATTACTGATGTTGTCGTCATGTATGATAACGGGACACAGAGGCCGCGGGGTTTTGGGTTTATCACATTCGATTCCGAGGAGGCTGTGGAAAATGTTTTAAGGAAGAGTTTTCATGAGCTCCACGAGAAGCTTGTTGAGGTTAAGCGGGCGGTTCCCAAGGAGGCTAACATGGGGGGCTCTCGGGGCCGAGGGTTTGGTGCTCCAGCGGCGGTTTACGGTTCGAATCCTGGAGCGGGTAGATATGGCGGGGCACCGCCGCCTTCGGCTGGGCGGGGTGGTGGTGGTGGGTATGCGGGAGGGTATGGACCTACGGAAAATGGGGGGACCCCTGGCGGTTATGCACCTGGCGCTCCTGGTGGCTACATGAATGGAGGTTATGGTGGTGGTGCAGGTTATGGCAGTCCCGGTGGCGGGTATGGCATGGGTGGGTATGTAGGTGTCCCGACGCCTCCTCTCGGTGGAGGTTATGGGGGTGGGCCGGCTCCTCCTCAGGTGGCTGGATATGGGAATGCGCCTGCTGCAGCTCCCCAGAGCCCGTGGGGAGGAGCCACAGCCGGCGTTGGCGGTGCAGGGGTGAATTCTGCCGGCTATGGCCCAAAGGGACTAATGGGCGCTGGCAGCGGTGGGCAGAGTCCGAGCGGAGTGCCTGGTTATGGAAATGGACCTGCGGCAGCGTATCCTTATGGCGATGGGGGTTACAATTCTGGTGCCCCTGGTGGATACGGTGCAGGTTATGGTGTGGCGGCCGCGCCTTATAAAATGGGCATGGGTGGAGGCTATGGAGACCCTCATGGCGCTCCCGGTGGGTACCCAGATACAGCATGGAAGACAGGTGGGGGAGCTGACGCTTCAGGCGGTGCACCTGCGGGCGGGTACGGAGTAGGCGGTGGCGGTGCTCCTCATGCTGATGGGATGATGAATGATCATTCTGGCTTTGGAGGAGGAAACTATGGCGCAGCAGGGCGACAGGGCCAGAGAGGTCCCGATGGGCGATTTAGGCCCTATCCTGAACGCACAGGCTAA___CTTTTTTAACATTTGAGTTTTTTTTTACAGCGCAGACCATTTTTTTTCTTTTGAGACTGTGTTGTATCAGTGGGTACAGATCGGAGTTCTTTCAACTGGTTTTCAATTTTATTTTCCTTATGTAGCCGTTAAAGTAAAGAGAATATTAGTGATATTGACAGGTTATTCTATATTCATGCCACTGTTTACTGGGCAGTACTTGGTCAGACTAGAATTTTGTAATCCTTGGTAATGTAGGCGCTAGACGATTTACAATTACTGTTGTGCCATATGATGGCTTTTTGGCTCTTTACTTGATCGTTTGCTAAGTTGATGGAATCGTGAGGCTGTAGTATTTTTAACCATCAAAGAGTTTGTGTTTCTGCCTATTTTGTTACTATTAGGGTGAGAATTTTAATTGAACAAATTGTACCACTGATTGAAATGTCAAAAATATGAAAAATCAAATGAATACTCATATCAGCATATCGGTTTAC

Fln Alignment:

Contig2949___MDSDQGKLFIGGISWETTEDTLRDYFKHYGEVVDSVIMRDRNTGTSRGFGFVVFADPNVADRALLEKHVIAGRAVEAKKAVPRSEQQQGGSGPRVFNKNGSPQGLAGGQARTKKIFVGGLPPTLSEEDFRQYFQQFGNITDVVVMYDNGTQRPRGFGFITFDSEEAVENVLRKSFHELHEKLVEVKRAVPKEANMGGSRGRGFG
A9NVN2______________MDSDHCKIFIGGISWETSEERLRDYFSKYGEVVQTVIMKDRLTGRARGFGFVVFSDPSIVDIALQEKHTIDGRAVEAKKAVPRSEQQNTRTNS--YNNNDS-QGYGGGSVRTKKIFVGGLPANLTEEDFKNYFQQFGNITDVVVMYDHNTQRPRGFGFISFDSEDAVESVLQKSFHQLNEKLVEVKRALPKDASPGAA-GRGAG

SNPs (tot: 26)

Position	A %	C %	G %	T %	Probability
349		76		23	1.0
392			25	75	1.0
452		20		80	0.995493
467	20		80		0.995493
582	14		85		0.993533
892	66			33	0.997452
1050	25		75		0.996473
1128	20		80		0.995493
1152	71		28		1.0
1163	12	87			0.992554
1165	87		12		0.992554
1166			12	87	0.992554
1313		7		92	0.999664
1376	8	92			0.999718
1410	2		78		1.0
1481		3		96	0.989722
1507		3	96		0.988939
1604		7		71	1.0
1876		95		4	0.997494
1877		5		94	0.998578
1881			5	88	0.982716
1882		5	94		0.998578
1890	88		8	2	1.0
1974	90			10	0.90298
2026	25	75			0.996473
2027	66	33			0.997452

SSRs (tot: 1)

Start position	End position	Sequence	Length
849	862	GGT GGT GGT GGT GG	14

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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