SustainPineDB

Assembly Name: SustainPine v3.0

UniGene Name: sp_v3.0_unigene7704

Length: 2056 nt

UniGene Fasta

>sp_v3.0_unigene7704
TGGCTGCTAAGTGTAGATGTGATACCGTACCCTCTGCTTATCAAATAAGATATGGTGGTTGCAAAGGCGTTGTAGCTGTTGATCCTGCACTCCCCATATAAACTCTCATTGCGGCCAAGCATGAAGAAATATGTCTCAGAAAATACTAACCTTGATGTTCTTGCTTGGTCAAAATTCCGACCTTGTTTCCTGAATCGCCAAATTATCACTCTGTTGTCTACTCTCGGAGTTAAGGATCGGAACTTTGAGAAGATGCAGGAAGACACAGTTAAAAACCTGGATAAAGTTTTGACCAACAGAAACATGGCCCTTGAAGTCCTTCAGATTATGACTGTGGGCGAGACTCACAATGTTCTTATAAGTATGCTTTCTTGTGGCTACTTGCCAAATTCAGAGCCATATCTGTCAATGATACTTCATGCATTTCGAGCATCGAAACTTTTAGAACTAAGACGGAAAACACGCATATTTGTTCCCAAGGGACGATGCTTGATGGGGTGCCTTGATGAAAGTAGAACGCTGAAGTATGGTGAAGTGTTTGTTCAAGTTTCTGAGACTCCGGGAAATAAGCAATTCCATGATACTGGGCTTTCTGCATTTGCACAAAATCCCCTGGACTCTAAAATTAGCATTGTTCAGGGAAAGTAATCGTGGCCAAAAACCCATGCCTTCACCCAGGTGATGTACGAGTCTTGTCTGCTGTAAACACATCCAAACTTCATCACATGGTTGACTGCGAGTTTTCCCACAGCAAGGTGAAAGACCCCATCCAGATGAGTGTTCTGGAAGTGATTTGGATGGTGATCTATATTTTATAAGCTGGGACAAGTCCCTAATTCCACCCAACAGGACCCACCAATGGACTATGTTGCTCCTCCAACAGCCTCGTTAGATCATAATGTTACAATTGAGGAGATCCAAGAATATTTTGCAAATTATATGCTAAATGACACCTTGGGAATTATAGCCAATAGACATACCGTGTTTGCCGATAATGAGCCAGCCATGGCTCGGAGTGAGACTTGCCTCGAGTTAGCAAGCCTCTTTTCTTTAGCAGTAGATTTCCCCAAGACTGGCATTCCAGCACAGATTCCATCCACTCTAATTCCAAAGGAATATCCCGATTTCATGGAGAAAGAGGATAAACCCAAGTATGAATCACAGAGAGTAATTGGTAAACTTTACAGGGCTGTGAAGAAAGTTGCAACGGATACTCTCTCTATAAATTCATTCACAAGGGATGTTGCAGAGAAGGCATACGATAAGGATTTGGAGGTGCCTGGATTTTGGAACTACATTGATGAAGCACTAGAATGCAAAAACTGGTATGACTCAGAATTGGCTACATTAATGTACCATTATGGTATCAAATATGAAGCAGAAATTGTAAGTGGAAACATTTTCAGTTTGTCGAAATTTCATGGTTCTAAGCTTGGAGATCTCAAGGAAACAATCATGTTAGAAGTCAAGGCTCTCAGAAAGGAAGCCAGGTCATGGCTTGCGGATGGTGAAAGCAGATTGTCAGATCAATATGGAAAAGCATCTGCTTGGTATCATGTAACATATCACCCAGATTATTGGGGTTATGGAGATTATGAAGGGAAAGATGAGAACAACCCTCATTTTATAAGCTTTGCATGGATTGTGTATGACAAGCTACTTCGGATCAAACGTCAGAGTATTGCACAAAAGCTTGCGGGCAATCTTCTAAGCTTGCGTATTTAGGGAGTACATTGATTGTATCACTTCCGCGGTTTTCTTGTGGGTTGAATGCTTTCTATCTTTAGTTTCGATTTTCCCAGTAGTGCAATTATAAAGAGACACAAGAAAGAAGAATACGTAGCTTTAACTGGCTACTCTTTTCGTTGATCAGATTTAAGTTGAATTCATATGGGCATAGCGTTTACATTATATATATTTGCATGGGCCCTCTATTTTTCGGGAGGTGTAACAGCAGAAGCATGTAGATAGTGTAGATATTCATCCTGATACTGTTATAAAATATATTTCTTGCTATAGTTGGCATATAATTGGTTCTATGCACGTTACAACGTCG

Ace file of the UniGene sp_v3.0_unigene7704

Annotations

Source	Descriptions	Term	Type	e value	Identity
AutoFact	RNA-directed RNA polymerase, putative n=1 Tax=Solanum demissum RepID=Q6L3W8_SOLDE	-	-	0.0	56%
FL-Next	sp=RNA-dependent RNA polymerase 1; Arabidopsis thaliana (Mouse-ear cress).	-	-	0.0	50%
Sma3	RNA-directed RNA polymerase	-	-	3.154e-20	-

Source	Gene names
Sma3	AT4g11130; At1g14790; At4g11130; F2P3.11; GSVIVT00016129001; GSVIVT00030600001; GSVIVT00030602001; Os02g0736200; Os04g0465700; OsI_02249; OsI_08849; OsJ_08301; OsJ_15104; PHYPADRAFT_219654; POPTRDRAFT_231683; POPTRDRAFT_564678; POPTRDRAFT_575133; POPTRDRA

Source	GOs	Term	Type	Identity
Sma3	nucleolus	GO:0005730	Cellular Component	-
Sma3	nucleotide binding	GO:0000166	Molecular Function	-
Sma3	nucleic acid binding	GO:0003676	Molecular Function	-
Sma3	RNA-directed RNA polymerase activity	GO:0003968	Molecular Function	-
Sma3	cell-cell signaling	GO:0007267	Biological Process	-
Sma3	long-distance posttranscriptional gene silencing	GO:0010495	Biological Process	-
Sma3	production of siRNA involved in RNA interference	GO:0030422	Biological Process	-

Source	InterPros	Term	Type	Identity
Sma3	RNA recognition motif domain	IPR000504	-	-
Sma3	RNA-dependent RNA polymerase, eukaryotic-type	IPR007855	-	-
Sma3	Nucleotide-binding, alpha-beta plait	IPR012677	-	-

Source	Species	ID	Description	Identity
ATG	Arabidoptis thaliana	AT1G14790.1	RDR1, ATRDRP1 RNA-dependent RNA polymerase 1 chr1:5094317-5097817 REVERSE LENGTH=1107	50%
RefSeq	Arabidopsis thaliana	NP_172932.1	RNA-dependent RNA polymerase 1 [Arabidopsis thaliana]	50%
RefSeq	Populus trichocarpa	XP_002311536.1	rna-dependent RNA polymerase [Populus trichocarpa]	55%

Full-Lengther Next Prediction

Fln status: C-terminus

Fln database: sp_plants

Fln subject: Q9LQV2

Fln msg: Unexpected stop codon in the beginning of your sequence, your sequence is shorter than subject: 575 - 1107

Fln protein: WLLSVDVIPYPLLIK*DMVVAKAL*LLILHSPYKLSLRPSMKKYVSENTNLDVLAWSKFRPCFLNRQIITLLSTLGVKDRNFEKMQEDTVKNLDKVLTNRNMALEVLQIMTVGETHNVLISMLSCGYLPNSEPYLSMILHAFRASKLLELRRKTRIFVPKGRCLMGCLDESRTLKYGEVFVQVSETPGNKQFHDTGLSAFAQNPLDSKISIVQGK*SWPKTHAFTQVMYESCLL*THPNFITWLTASFPTAR*KTPSR*VFWK*FGW*SIFYKLGQVPNSTQQDPPMDYVAPPTASLDHNVTIEEIQEYFANYMLNDTLGIIANRHTVFADNEPAMARSETCLELASLFSLAVDFPKTGIPAQIPSTLIPKEYPDFMEKEDKPKYESQRVIGKLYRAVKKVATDTLSINSFTRDVAEKAYDKDLEVPGFWNYIDEALECKNWYDSELATLMYHYGIKYEAEIVSGNIFSLSKFHGSKLGDLKETIMLEVKALRKEARSWLADGESRLSDQYGKASAWYHVTYHPDYWGYGDYEGKDENNPHFISFAWIVYDKLLRIKRQSIAQKLAGNLLSLRI*

Protein Length: 576

Fln nts: TGGCTGCTAAGTGTAGATGTGATACCGTACCCTCTGCTTATCAAATAAGATATGGTGGTTGCAAAGGCGTTGTAGCTGTTGATCCTGCACTCCCCATATAAACTCTCATTGCGGCCAAGCATGAAGAAATATGTCTCAGAAAATACTAACCTTGATGTTCTTGCTTGGTCAAAATTCCGACCTTGTTTCCTGAATCGCCAAATTATCACTCTGTTGTCTACTCTCGGAGTTAAGGATCGGAACTTTGAGAAGATGCAGGAAGACACAGTTAAAAACCTGGATAAAGTTTTGACCAACAGAAACATGGCCCTTGAAGTCCTTCAGATTATGACTGTGGGCGAGACTCACAATGTTCTTATAAGTATGCTTTCTTGTGGCTACTTGCCAAATTCAGAGCCATATCTGTCAATGATACTTCATGCATTTCGAGCATCGAAACTTTTAGAACTAAGACGGAAAACACGCATATTTGTTCCCAAGGGACGATGCTTGATGGGGTGCCTTGATGAAAGTAGAACGCTGAAGTATGGTGAAGTGTTTGTTCAAGTTTCTGAGACTCCGGGAAATAAGCAATTCCATGATACTGGGCTTTCTGCATTTGCACAAAATCCCCTGGACTCTAAAATTAGCATTGTTCAGGGAAAGTAATCGTGGCCAAAAACCCATGCCTTCACCCAGGTGATGTACGAGTCTTGTCTGCTGTAAACACATCCAAACTTCATCACATGGTTGACTGCGAGTTTTCCCACAGCAAGGTGAAAGACCCCATCCAGATGAGTGTTCTGGAAGTGATTTGGATGGTGATCTATATTTTATAAGCTGGGACAAGTCCCTAATTCCACCCAACAGGACCCACCAATGGACTATGTTGCTCCTCCAACAGCCTCGTTAGATCATAATGTTACAATTGAGGAGATCCAAGAATATTTTGCAAATTATATGCTAAATGACACCTTGGGAATTATAGCCAATAGACATACCGTGTTTGCCGATAATGAGCCAGCCATGGCTCGGAGTGAGACTTGCCTCGAGTTAGCAAGCCTCTTTTCTTTAGCAGTAGATTTCCCCAAGACTGGCATTCCAGCACAGATTCCATCCACTCTAATTCCAAAGGAATATCCCGATTTCATGGAGAAAGAGGATAAACCCAAGTATGAATCACAGAGAGTAATTGGTAAACTTTACAGGGCTGTGAAGAAAGTTGCAACGGATACTCTCTCTATAAATTCATTCACAAGGGATGTTGCAGAGAAGGCATACGATAAGGATTTGGAGGTGCCTGGATTTTGGAACTACATTGATGAAGCACTAGAATGCAAAAACTGGTATGACTCAGAATTGGCTACATTAATGTACCATTATGGTATCAAATATGAAGCAGAAATTGTAAGTGGAAACATTTTCAGTTTGTCGAAATTTCATGGTTCTAAGCTTGGAGATCTCAAGGAAACAATCATGTTAGAAGTCAAGGCTCTCAGAAAGGAAGCCAGGTCATGGCTTGCGGATGGTGAAAGCAGATTGTCAGATCAATATGGAAAAGCATCTGCTTGGTATCATGTAACATATCACCCAGATTATTGGGGTTATGGAGATTATGAAGGGAAAGATGAGAACAACCCTCATTTTATAAGCTTTGCATGGATTGTGTATGACAAGCTACTTCGGATCAAACGTCAGAGTATTGCACAAAAGCTTGCGGGCAATCTTCTAAGCTTGCGTATTTAG___GGAGTACATTGATTGTATCACTTCCGCGGTTTTCTTGTGGGTTGAATGCTTTCTATCTTTAGTTTCGATTTTCCCAGTAGTGCAATTATAAAGAGACACAAGAAAGAAGAATACGTAGCTTTAACTGGCTACTCTTTTCGTTGATCAGATTTAAGTTGAATTCATATGGGCATAGCGTTTACATTATATATATTTGCATGGGCCCTCTATTTTTCGGGAGGTGTAACAGCAGAAGCATGTAGATAGTGTAGATATTCATCCTGATACTGTTATAAAATATATTTCTTGCTATAGTTGGCATATAATTGGTTCTATGCACGTTACAACGTCG

Fln Alignment:

Contig7704___HSPYKLSLRPSMKKYVSENTNLDVLAWSKFRPCFLNRQIITLLSTLGVKDRNFEKMQEDTVKNLDKVLTNRNMALEVLQIMTVGETHNVLISMLSCGYLPNSEPYLSMILHAFRASKLLELRRKTRIFVPKGRCLMGCLDESRTLKYGEVFVQVSET--PGNKQFHDTGLSAFAQNPL--DSKISIVQGK*SWPKTHAFTQVMYESCLL*THPNFITWLTASFPTAR*KTPSR*VFWK*FGW*SIFYKLGQVPNSTQQDPPMDYVAPPTASLDHNVTIEEIQEYFANYMLNDTLGIIANRHTVFADNEPAMARSETCLELASLFSLAVDFPKTGIPAQIPSTLIPKEYPDFMEKEDKPKYESQRVIGKLYRAVKKVATDTLSINSFTRDVAEKAYDKDLEVPGFWNYIDEALECKNWYDSELATLMYHYGIKYEAEIVSGNIFSLSKFHGSKLGDLKETIMLEVKALRKEARSWLADGESRLSDQYGKASAWYHVTYHPDYWGYGDYEGKDENNPHFISFAWIVYDKLLRIKRQSIAQK
Q9LQV2______________NSSKKLSLRKSMSKFESENTKLDVLAWSKYQPCYMNRQLITLLSTLGVTDSVFEKKQREVVDRLDAILTHPLEAHEALGLMAPGENTNILKALILCGYKPDAEPFLSMMLQNFRASKLLELRTKTRIFISGGRSMMGCLDETRTLEYGQVVVQYSDPMRPG-RRFIITGPVVVAKNPCLHPGDVRVLQAVNVPALNHMVDCVVFPQKGLRPHPNECSGSDLDGD----------IYF-------VCWDQELVPPRTSE--PMDYTPEPTQILDHDVTIEEVEEYFANYIVNDSLGIIANAHTAFADKEPLKAFSDPCIELAKKFSTAVDFPKTGVAAVIPQHLYVKEYPDFMEKPDKPTYESKNVIGKLFREVKERAPPLISIKSFTLDVASKSYDKDMEVDGFEEYVDEAFYQKANYDFKLGNLMDYYGIKTEAEILSGGIMRMSKSFTKRRD--AESIGRAVRALRKETLS-LFNASEEEENESAKASAWYHVTYHSSYWGLYN-EGL--NRDHFLSFAWCVYDKLVRIKKTNLGRR

SNPs (tot: 3)

Position	A %	G %	T %	Probability
1536	66	33		0.997452
1537		33	66	0.997452
1794	14		85	0.993533

Back

Biología Molecular y Biotecnología de Plantas, Facultad de Ciencias y Plataforma Andaluza de Bioinformática, Universidad de Málaga, E-29071 Málaga, Spain