SustainPineDB

Assembly Name: SustainPine v3.0

UniGene Name: sp_v3.0_unigene1241

Length: 3153 nt

UniGene Fasta

>sp_v3.0_unigene1241
CATGAACTCAATAGTTCTTTCCTCTCCACCCAAGCAAGCTATGAGATATCTTCCAAAACAATACATGGCAAAAGATTCGTAGCAGTCCCGCAGGATTTCGACATCAACATCAATTGCAGGTTTCACTAATGAGATAAACGATTCAACTGCATAACAAGGTACCATTAAGATAACTCCAATCAGAAATTTTTGTTCCTCAGGATTCTTGTAAGCTAACAGATGCTCAAAGAGAAGAAACATTGAAAGAGAAAGCGCAATAAGTACAAAAGTGCCAGCAACAATGATTGCCCACGTACGGAACGTATTCTCTTCTCCACTGGCAAAAAAGAATCCCACCGTCTTCAACGAATTTGTATATTCTGCAATAGTTCCATTGATTCCGAAAAATTGCCATTCCCACCTCCCTACCATTGAATCAACTGTTCACAAGTCCCCTCTCCAATGCCAAAGGAGTACTGACTCTGAAATCTTATTCTGTTAAGTAAATGGCCAATTTAGCATTGCAATTAACAAATTGTCTCAAGAAATCCGACCTATGTAGATTCACAACTCAATTTCATCAGTGAACATAAATACTTGAGTTGCCTTCAACCAAATTGTACACTGAATATCAAAAGGGATCACCACCACTGTTTCTTTTTTCTGACTGGAAAATTTAGCATATATTTCAAAGGTTTTCCAGTAATACTTGACAATTTATTTTCGATCCATCAAAACAAAGCTGTTGCCTTTCATTTCCAGCAAACTGTCGATTTGCCTTAACCCTCAAAAATTTATAAAACAAATATGCAGAGTTCTACAGTAACATTCTTGTGTAACTTTAAACTGATGCTCCTTCAATTACCACGCACAACCCTGTAACTATGTATTAACCTGAAGCAGTGTATTAAAAATGGGAAGCGAAGGTGTGCGGTATGGCGCTATGTAACATGAAATGCAGCATGGAATGGTATCGCAGTGGCACTACAACGCAACATTACAATGACATCAAGTGATATATATATATATATGGCGGTATGTATTACAAAACATGCATCACGAGCATAACGAAGGAGGCAGGTTCAAGTTCAGCTCCTCACCCACGTCTCTGCCCAAGAGCGATGAGACCCGCTTCAAACGACAGGATTGTTGGCCATGTCTAAGCAGATATTACACTCAAAATCTTTAGTAGTAGAAAGAGGAGAACTCACTTCGTCGGAGGCTTTTTCGGGACTTACTGACGCCTGCTCCAGCGGCCTGTCGATGCTTCTCAAAATGACAAAATGAATATCTTCTACAAGCTTCAAATCTCTTCACCGAATGTTCATCTTCATCAAGCTGGTAGTAGGCAGGTTCAAACACATCACCTCATGCTCCACAACTCAATCAAGAAAATAGTCATTTCATAACTTTGTTCTCGTGCTCGCCTTACTCATTTGCAACCTTAATCTCCCACACTCTAAAATTCAACATGTTAGGCCACGACCTTCAAAATAAACATTGATACTCGACCAATGAACTTCTAAAACATGGATTTATGCAGAGCTTCGAGCACACGGTCTCACGGTCACTATATCAGTTGTTCCCGTTACTATTTCACATTGTAAATTTCTTCTGTTTCTCCACGGGGAGTGACAGAGTAGAGATTAAAGATGTTTGGCATGCAAAGTCAATCAGACGGAGGCTCTCTATTCTCCGGAGGCGGCTTTATGCCCTCTCAGGCCACCCAAGTTAACGAAGGTGGTTTTTCGTCTGTCAGGAAAAGCGGTACCGGCACCGGGCTTCTTCCATTGACAGTAAAACAGATAAGCCAGGCAACCCAGAAGCTCTCGGATGAGAATTCGAATTTTACAATAGATGGCGTGGATGTCAACAATGTCACCCTTGTTGGGATGGTTTTCAACAAGGAAGAGAGGGTTACTGATGTGTCGTTTTATCTCGATGACGGTACAGGGAGATTAGAAGTGAAACGATGGGTTAATGACACAATGGAATCTGCTGAGATGGCTGAAGTGCACAATGGTGCATATGTTTGTGTCCATGGGCATTTAAGGAGCTTTCAGAACAAGAAACTTGTCAATGCTTTCTCTGTAAGGCCTGTAACTGATTTTAATGAAGTCACGTTTCACTCCTTGGAATGCATTTTTGTGCATCTCTATAATATGAAAGTTCAGGTTGGTGCCACTCAGCCCAACTCAGCAAGTCCAGCTGCTAAGGTTGGATCAATGGGACCACCAACTGGATTGAGTAACACTCCTAGCTACAATCAATTCACCAATCCTGGTCCTGCCTCTGTGGGTGGAGCTAAAGACTTGAATGGGAGGGTTCAAAGCATATTTGAGGAACCTGCGAATCTAGCAATAGAGCATGGTGTTCATGTAGATGATGTCGTGAGGAGATTGCCTGGTTTCACAAAGAAGCAAATCATGGACTCTATCGCGTTCTTGATAAATGAAGGATACATCTACTCAACTATTGACGAGGACCACTACAAGTCAACTAATGGCTAATACAATAATCATACCACTGCTTCTGTGTTCTATGAGTTTGATATACAAGTCAACTAATGGCTAATACAATCATAATCATACCACTGCTTCTGTGTTCTATAAGTTTGATATCTACGTTTGGCCTCCAGACTAGGTGTATATTACTTTGAAACCTCTTCCTGTAGTCCTTGAGCTTGTGGCTATTTTTATATTCACTACCCATGTTCATTATTATTAATTTTTTGAACGAGTATGCGGTTTTGTTTGTAGGTTTCATGTTAGGAAATATTTGAGGCTAAAACATGCAATACTTGAGAATATATCTGTCTACCCGAAATATGAGAGCGATTCTTGAAATAACCATGGTTGATGTTGCAATGTTAAATATGAAATCAATCTAAAAATGATGTCATGTTCAAGTTCGACATGAAAGAGGGTTAAGCTTGATATACTTAGGGTTCATGATAAATGCTCACCACTTAAAGCTGCAATGGCAATCAGACAATGTTGGAATGGCAAAATCTAAAGACTTGCGTCAATTGCCAATCTAGGGTGGGCAACCTTTGGAAGAACGACCACAATGCACCGATAGCAAATAAATTGTTCATGGTAGAAGAATGGATTACAATTGTGTTAGTGATAACAGTTGTATTCTTAGTGGCTATAATTTGTGAAGTAGTTTGCA

Ace file of the UniGene sp_v3.0_unigene1241

Annotations

Source	Descriptions	Term	Type	e value	Identity
AutoFact	replication protein A 30kDa [Oryza sativa Japonica Group]	-	-	0.0	46%
FL-Next	tr=Putative uncharacterized protein; Picea sitchensis (Sitka spruce) (Pinus sitchensis).	-	-	0.0	91%
Sma3	Putative replication factor A	-	-	4.155e-08	-

Source	Gene names
Sma3	AT4g38360; At1g77220; At2g24490; At3g02920; At3g02920/F13E7_13; At4g38360; B1130G10.14; F13E7.13; F22I13.130; GSVIVT00014283001; GSVIVT00016413001; GSVIVT00031357001; GSVIVT00032340001; GSVIVT00036258001; H0211B05.13; LOC_Os03g29340; OJ1124_D06.4; OJ1643_

Source	GOs	Term	Type	Identity
Sma3	nucleus	GO:0005634	Cellular Component	-
Sma3	nucleic acid binding	GO:0003676	Molecular Function	-
Sma3	protein binding	GO:0005515	Molecular Function	-
Sma3	kinase activity	GO:0016301	Molecular Function	-
Sma3	DNA replication	GO:0006260	Biological Process	-
Sma3	DNA repair	GO:0006281	Biological Process	-
Sma3	gene silencing	GO:0016458	Biological Process	-

Source	InterPros	Term	Type	Identity
Sma3	Nucleic acid binding, OB-fold, tRNA/helicase-type	IPR004365	-	-
Sma3	Organic solute transporter Ost-alpha	IPR005178	-	-
Sma3	Winged helix-turn-helix transcription repressor DNA-binding	IPR011991	-	-
Sma3	Nucleic acid-binding, OB-fold	IPR012340	-	-
Sma3	Replication protein A, subunit RPA32	IPR014646	-	-
Sma3	Replication protein A, C-terminal	IPR014892	-	-
Sma3	Glycoside hydrolase, family 11, active site	IPR018208	-	-

Source	Species	ID	Description	e value	Identity
RefSeq	Populus trichocarpa	XP_002330767.1	predicted protein [Populus trichocarpa]	0.0	47%

Full-Lengther Next Prediction

Fln status: Complete

Fln database: coniferopsida.fasta

Fln subject: D5A880

Fln msg:

Fln protein: MFGMQSQSDGGSLFSGGGFMPSQATQVNEGGFSSVRKSGTGTGLLPLTVKQISQATQKLSDENSNFTIDGVDVNNVTLVGMVFNKEERVTDVSFYLDDGTGRLEVKRWVNDTMESAEMAEVHNGAYVCVHGHLRSFQNKKLVNAFSVRPVTDFNEVTFHSLECIFVHLYNMKVQVGATQPNSASPAAKVGSMGPPTGLSNTPSYNQFTNPGPASVGGAKDLNGRVQSIFEEPANLAIEHGVHVDDVVRRLPGFTKKQIMDSIAFLINEGYIYSTIDEDHYKSTNG*

Protein Length: 287

Fln nts: CATGAACTCAATAGTTCTTTCCTCTCCACCCAAGCAAGCTATGAGATATCTTCCAAAACAATACATGGCAAAAGATTCGTAGCAGTCCCGCAGGATTTCGACATCAACATCAATTGCAGGTTTCACTAATGAGATAAACGATTCAACTGCATAACAAGGTACCATTAAGATAACTCCAATCAGAAATTTTTGTTCCTCAGGATTCTTGTAAGCTAACAGATGCTCAAAGAGAAGAAACATTGAAAGAGAAAGCGCAATAAGTACAAAAGTGCCAGCAACAATGATTGCCCACGTACGGAACGTATTCTCTTCTCCACTGGCAAAAAAGAATCCCACCGTCTTCAACGAATTTGTATATTCTGCAATAGTTCCATTGATTCCGAAAAATTGCCATTCCCACCTCCCTACCATTGAATCAACTGTTCACAAGTCCCCTCTCCAATGCCAAAGGAGTACTGACTCTGAAATCTTATTCTGTTAAGTAAATGGCCAATTTAGCATTGCAATTAACAAATTGTCTCAAGAAATCCGACCTATGTAGATTCACAACTCAATTTCATCAGTGAACATAAATACTTGAGTTGCCTTCAACCAAATTGTACACTGAATATCAAAAGGGATCACCACCACTGTTTCTTTTTTCTGACTGGAAAATTTAGCATATATTTCAAAGGTTTTCCAGTAATACTTGACAATTTATTTTCGATCCATCAAAACAAAGCTGTTGCCTTTCATTTCCAGCAAACTGTCGATTTGCCTTAACCCTCAAAAATTTATAAAACAAATATGCAGAGTTCTACAGTAACATTCTTGTGTAACTTTAAACTGATGCTCCTTCAATTACCACGCACAACCCTGTAACTATGTATTAACCTGAAGCAGTGTATTAAAAATGGGAAGCGAAGGTGTGCGGTATGGCGCTATGTAACATGAAATGCAGCATGGAATGGTATCGCAGTGGCACTACAACGCAACATTACAATGACATCAAGTGATATATATATATATATGGCGGTATGTATTACAAAACATGCATCACGAGCATAACGAAGGAGGCAGGTTCAAGTTCAGCTCCTCACCCACGTCTCTGCCCAAGAGCGATGAGACCCGCTTCAAACGACAGGATTGTTGGCCATGTCTAAGCAGATATTACACTCAAAATCTTTAGTAGTAGAAAGAGGAGAACTCACTTCGTCGGAGGCTTTTTCGGGACTTACTGACGCCTGCTCCAGCGGCCTGTCGATGCTTCTCAAAATGACAAAATGAATATCTTCTACAAGCTTCAAATCTCTTCACCGAATGTTCATCTTCATCAAGCTGGTAGTAGGCAGGTTCAAACACATCACCTCATGCTCCACAACTCAATCAAGAAAATAGTCATTTCATAACTTTGTTCTCGTGCTCGCCTTACTCATTTGCAACCTTAATCTCCCACACTCTAAAATTCAACATGTTAGGCCACGACCTTCAAAATAAACATTGATACTCGACCAATGAACTTCTAAAACATGGATTTATGCAGAGCTTCGAGCACACGGTCTCACGGTCACTATATCAGTTGTTCCCGTTACTATTTCACATTGTAAATTTCTTCTGTTTCTCCACGGGGAGTGACAGAGTAGAGATTAAAG_-_ATGTTTGGCATGCAAAGTCAATCAGACGGAGGCTCTCTATTCTCCGGAGGCGGCTTTATGCCCTCTCAGGCCACCCAAGTTAACGAAGGTGGTTTTTCGTCTGTCAGGAAAAGCGGTACCGGCACCGGGCTTCTTCCATTGACAGTAAAACAGATAAGCCAGGCAACCCAGAAGCTCTCGGATGAGAATTCGAATTTTACAATAGATGGCGTGGATGTCAACAATGTCACCCTTGTTGGGATGGTTTTCAACAAGGAAGAGAGGGTTACTGATGTGTCGTTTTATCTCGATGACGGTACAGGGAGATTAGAAGTGAAACGATGGGTTAATGACACAATGGAATCTGCTGAGATGGCTGAAGTGCACAATGGTGCATATGTTTGTGTCCATGGGCATTTAAGGAGCTTTCAGAACAAGAAACTTGTCAATGCTTTCTCTGTAAGGCCTGTAACTGATTTTAATGAAGTCACGTTTCACTCCTTGGAATGCATTTTTGTGCATCTCTATAATATGAAAGTTCAGGTTGGTGCCACTCAGCCCAACTCAGCAAGTCCAGCTGCTAAGGTTGGATCAATGGGACCACCAACTGGATTGAGTAACACTCCTAGCTACAATCAATTCACCAATCCTGGTCCTGCCTCTGTGGGTGGAGCTAAAGACTTGAATGGGAGGGTTCAAAGCATATTTGAGGAACCTGCGAATCTAGCAATAGAGCATGGTGTTCATGTAGATGATGTCGTGAGGAGATTGCCTGGTTTCACAAAGAAGCAAATCATGGACTCTATCGCGTTCTTGATAAATGAAGGATACATCTACTCAACTATTGACGAGGACCACTACAAGTCAACTAATGGCTAA___TACAATAATCATACCACTGCTTCTGTGTTCTATGAGTTTGATATACAAGTCAACTAATGGCTAATACAATCATAATCATACCACTGCTTCTGTGTTCTATAAGTTTGATATCTACGTTTGGCCTCCAGACTAGGTGTATATTACTTTGAAACCTCTTCCTGTAGTCCTTGAGCTTGTGGCTATTTTTATATTCACTACCCATGTTCATTATTATTAATTTTTTGAACGAGTATGCGGTTTTGTTTGTAGGTTTCATGTTAGGAAATATTTGAGGCTAAAACATGCAATACTTGAGAATATATCTGTCTACCCGAAATATGAGAGCGATTCTTGAAATAACCATGGTTGATGTTGCAATGTTAAATATGAAATCAATCTAAAAATGATGTCATGTTCAAGTTCGACATGAAAGAGGGTTAAGCTTGATATACTTAGGGTTCATGATAAATGCTCACCACTTAAAGCTGCAATGGCAATCAGACAATGTTGGAATGGCAAAATCTAAAGACTTGCGTCAATTGCCAATCTAGGGTGGGCAACCTTTGGAAGAACGACCACAATGCACCGATAGCAAATAAATTGTTCATGGTAGAAGAATGGATTACAATTGTGTTAGTGATAACAGTTGTATTCTTAGTGGCTATAATTTGTGAAGTAGTTTGCA

Fln Alignment:

Contig1241___MFGMQXXXXXXXXXXXXXXXXXQATQVNEGGFSSVRKSGTGTGLLPLTVKQISQATQKLSDENSNFTIDGVDVNNVTLVGMVFNKEERVTDVSFYLDDGTGRLEVKRWVNDTMESAEMAEVHNGAYVCVHGHLRSFQNKKLVNAFSVRPVTDFNEVTFHSLECIFVHLYNMKVQVGATQPNSASPAAKVGSMGPPTGLSNTPSYNQFTNPGPASVGGAKDLNGRVQSIFEEPANLAIEHGVHVDDVVRRLPGFTKKQIMDSIAFLINEGYIYSTIDEDHYKSTNG
D5A880______________MFGMQSQSDGGSLFSGGGFMPSQATQVNEGGFSSVRKSGTATGLLPLTVKQISQATQKPSDENSNFTIDGVDVNNVTLVGMVFNKEERVTDVSFYLDDGTGRMEVKRWVNDAMESAEMADVQNGSYVRVHGHLRSFQNKKLVNAFSVRPVTDFNEVTFHSLECIFVHLYNMKVQGGATQPNSASPVAK----GPPTPFSNTPSHNQFMSPGPVSVGGAKDLNRMVQSIFEEPANLAIEHGVHVDDVVRRLHGFTKKQIMESIAFLINEGYIYSTIDEDHYKSTNG

SNPs (tot: 20)

Position	A %	C %	G %	T %	Probability
2156			25	75	0.996473
2242		42		57	1.0
2244		71		28	1.0
2255		85		14	0.993533
2256		57	42		1.0
2258	57		42		1.0
2262		28		71	1.0
2311	85		14		0.993533
2328		14		85	0.993533
2331	42		57		1.0
2492	83		16		0.994512
2518	20			80	0.995493
2523		60		40	1.0
2564	80	20			0.995493
2567	20	80			0.995493
2572		80		20	0.995493
2581		25		75	0.996473
2749		16		83	0.994512
2795	40		60		1.0
2809	75		25		0.996473

SSRs (tot: 1)

Start position	End position	Sequence	Length
995	1010	AT AT AT AT AT AT AT AT	16

Back

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