SustainPineDB

Assembly Name: SustainPine v3.0

UniGene Name: sp_v3.0_unigene7002

Length: 2055 nt

UniGene Fasta

>sp_v3.0_unigene7002
AATGCAAGGCTTGAGAAATTATGTGCTCAGGATTTACTGGGTGATTTTTAAGGACTGATTAAGGCAGGAAACGCGCTGGAGAGCATTTGATGTTCACTATTGAATAGCTTAGTCTTCTGAATTTCAAGTTGTTTAATTAGAAGTTATGGGGCATGTGAGAGGTCATCAGTTTCCCATACAAAATGGCACCCATAATTTGAGGTTCTCATCCAGCTATGAAAATGTTCCTGCTTGGCCAGGGAATGAAGGTATTTTTCATAATAATGCTCACAACCTCACACGGAAATTTCAAGAAAGCTTCCATGCTACAGGGGGCTACACCAATGGGCCAGCTTCGAAGAGAAGAAGAGAAACTAACTTTAACAATGCATTTAACTTCAACAATGGGATTCCTTTTGCAAGAAGATTGGAAGATAGTGCTTGTAGTTCATGGGGTATTAACAACAACATAGCTTTCACTGGCAGAAGAGAAGAAAACTCTTGTAATATAGCAGGCTTTACCAGCAGTTCTGTTTTAGCAAGGAAAGCAGAAGACGACATTTGTAACTCATCTGGATTTGGCGATGAACCTGTCTTAAGAAGAGTAGAGGGATCTAATAGTGCAGTTGGCAGCAGCTCTGAAGGCTCAGATCATTATTTGTCAAGGGAAGAGATCGAGAGATGCTCTCCTTCAAGAAAAGATGGAATTGACTTGCAAAAAGAAACTTATTTTAGATATTCTTATTGCGCTTTTCTTCAAACACTGGGCATGCGACTGCAATTGCCACAGACAACAATTGCAACTGCAATGGTTTATTGCCACCGTTTTTCCTTCGGCGATCCCATGCTTCTCATGACAGATTTGTAATAGCAACTGCTGCAATGTTCTTGGCAGCAAAGTCAGAGGAGAGTCCCCGTCCGCTGAACAGTGTACTTATAGTGTCATATGAGATTTGCCATAAGAACGAGTTGGCAAATTTTCATTATTTACTTCCTGTTGATTGGTTTGAGCAGTATAAACAAGAAGTTCTCCAGGCCGAACAATTATTACTCACCACTTTAGATTTTGAACTTACTGTTCAGCATCCATACAATCCTCTAATGTCGGTCTTCAACAAGATAGGACTTACCCAAACTGTTCTTGTACACGTGGCGTGGAACTTGGTCAGTGAAGGGCTTCGGAGCTCTCTGTGTCTTCAGTTTAAGCCTCAACATATTGCAGCTGGAGCGGCATTCCTTGCTGCCAAATTCCTTAATGTTGATCTGTCTTCTAATCAAACCATGTGGCAGGAATTTCAGACGACTCCGACTATACTTCAAGATATTGTACAGCAGTTGAGAGAGATCACGTTCAGGTTGTGGTCAGAAGCATTTCATCCATTTACTCACCACAATGTAAATGTTCAAGCATTCATATAAAATTGTTGCTTACCGAGATCTTTGTGTCTGGCTAAACATTAGTCATTGTTAGTATGCATTGGTATGGGGTCTTGATATGGAGATTATTTTCATTTTACTAATATTGTGGTGTTCAAAGAAATCAAAGGTTAATGCATATTTGTGCATTCAATTTGGACTGCAAAAGTAATGAACTCCATTCCCGTCATCCCATGTTTCACAGAGTAATGTTCTGGTATATGTCAGTAGCACACTATATTACTTGAACAGGGTGAAGTCCTATTGGCTTCTTGGACAGATCAACATAGCAATACTAATCATATCATGCTGTTGTCAATTTCATTTGATAGGAGTTTGTTGGCATTGGATGTTAGGAGAACTTCTGTGCAGAACTCTCGGCTGACTCCCTTATCCCAGCCAGATCTTCATTCCAAGCCACCCTCTAAATAATACATCAGGCTTTGTATTGATGGCTTGACAGTGATTAATCGGCGTACAGGCTACACCACTGGTTCAGATTGACTGAACACAGCTTTGTCTTCAGCTTTCCACTTGTGGTTTGATTGACTTATTATTTCTGTTGTGGCATCATCTTTTCTTTTCTCTTTAGGGATGTACTTTATTCCATTGTTGGGTGCTTACCCACTCTTGGGTTAACCCCACTTCTATTTGTTACTG

Ace file of the UniGene sp_v3.0_unigene7002

Annotations

Source	Descriptions	Term	Type	e value	Identity
AutoFact	Cyclin-L1, putative n=1 Tax=Ricinus communis RepID=B9RTZ2_RICCO	-	-	0.0	63%
FL-Next	tr=Putative uncharacterized protein; Picea sitchensis (Sitka spruce) (Pinus sitchensis).	-	-	0.0	46%
Sma3	CycT1	-	-	2.18e-18	-

Source	Gene names
Sma3	At4g19560; At4g19600; At5g45190; CYCT1-1; CYCT1-2; CYCT1-3; CYCT1-4; CYCT1-5; F24J7.120; F24J7.161; GSVIVT00019948001; GSVIVT00035533001; GSVIVT00035737001; K18C1.7; LOC_Os11g05850; LOC_Os12g30020; Os11g0157100; Os12g0485400; OsI_35185; OsJ_33031; OsJ_361

Source	GOs	Term	Type	Identity
Sma3	RNA binding	GO:0003723	Molecular Function	-
Sma3	RNA-directed DNA polymerase activity	GO:0003964	Molecular Function	-
Sma3	RNA-dependent DNA replication	GO:0006278	Biological Process	-
Sma3	cell cycle	GO:0007049	Biological Process	-
Sma3	response to virus	GO:0009615	Biological Process	-
Sma3	flower development	GO:0009908	Biological Process	-
Sma3	trichome morphogenesis	GO:0010090	Biological Process	-
Sma3	regulation of viral reproduction	GO:0050792	Biological Process	-
Sma3	cell division	GO:0051301	Biological Process	-

Source	InterPros	Term	Type	Identity
Sma3	Reverse transcriptase	IPR000477	-	-
Sma3		IPR006670	-	-
Sma3	Cyclin, N-terminal	IPR006671	-	-
Sma3	Reverse transcriptase, RNA-dependent DNA polymerase	IPR013103	-	-
Sma3	Cyclin-like	IPR013763	-	-
Sma3	Cyclin C/H/T/L	IPR015429	-	-
Sma3		IPR015706	-	-
Sma3	DNA ligase, ATP-dependent, conserved site	IPR016059	-	-

Source	Species	ID	Description	Identity
ATG	Arabidoptis thaliana	AT4G19600.1	" CYCT1;4 Cyclin family protein chr4:10673619-10676532 FORWARD LENGTH=541"	51%
RefSeq	Arabidopsis thaliana	NP_199332.2	cyclin-T1-5 [Arabidopsis thaliana]	51%
RefSeq	Populus trichocarpa	XP_002315785.1	predicted protein [Populus trichocarpa]	68%

Full-Lengther Next Prediction

Fln status: Putative Complete

Fln database: coniferopsida.fasta

Fln subject: D5ABM5

Fln msg: query STOP codon too far from subject stop. Distance to subject end: 272 aas, putative chimeric sequence, your sequence is shorter than subject: 234 - 350

Fln protein: MGHVRGHQFPIQNGTHNLRFSSSYENVPAWPGNEGIFHNNAHNLTRKFQESFHATGGYTNGPASKRRRETNFNNAFNFNNGIPFARRLEDSACSSWGINNNIAFTGRREENSCNIAGFTSSSVLARKAEDDICNSSGFGDEPVLRRVEGSNSAVGSSSEGSDHYLSREEIERCSPSRKDGIDLQKETYFRYSYCAFLQTLGMRLQLPQTTIATAMVYCHRFSFGDPMLLMTDL*

Protein Length: 235

Fln nts: AATGCAAGGCTTGAGAAATTATGTGCTCAGGATTTACTGGGTGATTTTTAAGGACTGATTAAGGCAGGAAACGCGCTGGAGAGCATTTGATGTTCACTATTGAATAGCTTAGTCTTCTGAATTTCAAGTTGTTTAATTAGAAGTT_-_ATGGGGCATGTGAGAGGTCATCAGTTTCCCATACAAAATGGCACCCATAATTTGAGGTTCTCATCCAGCTATGAAAATGTTCCTGCTTGGCCAGGGAATGAAGGTATTTTTCATAATAATGCTCACAACCTCACACGGAAATTTCAAGAAAGCTTCCATGCTACAGGGGGCTACACCAATGGGCCAGCTTCGAAGAGAAGAAGAGAAACTAACTTTAACAATGCATTTAACTTCAACAATGGGATTCCTTTTGCAAGAAGATTGGAAGATAGTGCTTGTAGTTCATGGGGTATTAACAACAACATAGCTTTCACTGGCAGAAGAGAAGAAAACTCTTGTAATATAGCAGGCTTTACCAGCAGTTCTGTTTTAGCAAGGAAAGCAGAAGACGACATTTGTAACTCATCTGGATTTGGCGATGAACCTGTCTTAAGAAGAGTAGAGGGATCTAATAGTGCAGTTGGCAGCAGCTCTGAAGGCTCAGATCATTATTTGTCAAGGGAAGAGATCGAGAGATGCTCTCCTTCAAGAAAAGATGGAATTGACTTGCAAAAAGAAACTTATTTTAGATATTCTTATTGCGCTTTTCTTCAAACACTGGGCATGCGACTGCAATTGCCACAGACAACAATTGCAACTGCAATGGTTTATTGCCACCGTTTTTCCTTCGGCGATCCCATGCTTCTCATGACAGATTTGTAA___TAGCAACTGCTGCAATGTTCTTGGCAGCAAAGTCAGAGGAGAGTCCCCGTCCGCTGAACAGTGTACTTATAGTGTCATATGAGATTTGCCATAAGAACGAGTTGGCAAATTTTCATTATTTACTTCCTGTTGATTGGTTTGAGCAGTATAAACAAGAAGTTCTCCAGGCCGAACAATTATTACTCACCACTTTAGATTTTGAACTTACTGTTCAGCATCCATACAATCCTCTAATGTCGGTCTTCAACAAGATAGGACTTACCCAAACTGTTCTTGTACACGTGGCGTGGAACTTGGTCAGTGAAGGGCTTCGGAGCTCTCTGTGTCTTCAGTTTAAGCCTCAACATATTGCAGCTGGAGCGGCATTCCTTGCTGCCAAATTCCTTAATGTTGATCTGTCTTCTAATCAAACCATGTGGCAGGAATTTCAGACGACTCCGACTATACTTCAAGATATTGTACAGCAGTTGAGAGAGATCACGTTCAGGTTGTGGTCAGAAGCATTTCATCCATTTACTCACCACAATGTAAATGTTCAAGCATTCATATAAAATTGTTGCTTACCGAGATCTTTGTGTCTGGCTAAACATTAGTCATTGTTAGTATGCATTGGTATGGGGTCTTGATATGGAGATTATTTTCATTTTACTAATATTGTGGTGTTCAAAGAAATCAAAGGTTAATGCATATTTGTGCATTCAATTTGGACTGCAAAAGTAATGAACTCCATTCCCGTCATCCCATGTTTCACAGAGTAATGTTCTGGTATATGTCAGTAGCACACTATATTACTTGAACAGGGTGAAGTCCTATTGGCTTCTTGGACAGATCAACATAGCAATACTAATCATATCATGCTGTTGTCAATTTCATTTGATAGGAGTTTGTTGGCATTGGATGTTAGGAGAACTTCTGTGCAGAACTCTCGGCTGACTCCCTTATCCCAGCCAGATCTTCATTCCAAGCCACCCTCTAAATAATACATCAGGCTTTGTATTGATGGCTTGACAGTGATTAATCGGCGTACAGGCTACACCACTGGTTCAGATTGACTGAACACAGCTTTGTCTTCAGCTTTCCACTTGTGGTTTGATTGACTTATTATTTCTGTTGTGGCATCATCTTTTCTTTTCTCTTTAGGGATGTACTTTATTCCATTGTTGGGTGCTTACCCACTCTTGGGTTAACCCCACTTCTATTTGTTACTG

Fln Alignment:

Contig7002___YLSREEIERCSPSRKDGIDLQKETYFRYSYCAFLQTLGMRLQLPQTTIATAMVYCHRFSF
D5ABM5______________YVTDEQIAN-SPSRKDGIGEQTEITLRLFGCELIQESGILLRLPQAVMATGQVLFHRFYF

SNPs (tot: 20)

Position	A %	C %	G %	T %	Probability
1205		60		40	1.0
1339		12		87	0.992554
1342		12	87		0.992554
1347	87	12			0.992554
1348			75	25	1.0
1349	75			25	1.0
1350	85		14		0.993533
1355			14	85	0.993533
1405		20		80	0.995493
1710		14		85	0.993533
1713		14		85	0.993533
1716		85	14		0.993533
1718	85	14			0.993533
1721			14	85	0.993533
1722		85	14		0.993533
1723	85	14			0.993533
1725			14	85	0.993533
1727		14	85		0.993533
1730	85	14			0.993533
1731	14		85		0.993533

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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