SustainPineDB

Assembly Name: SustainPine v2.0

UniGene Name: sp_v2.0_unigene28291

Length: 1840 nt

Origin of reads: Biogeco1 v2 Biogeco2 v2 Biogeco3 v1 Uma v2

UniGene Fasta

Ace file of the UniGene sp_v2.0_unigene28291

Annotations

Source	Descriptions	Term	Type	Identity
AutoFact	Double-stranded RNA-binding domain (DsRBD)-containing protein-like n=2 Tax=Oryza sativa RepID=Q6H5U8_ORYSJ	-	-	38%
FL-Next	sp=RNA polymerase II C-terminal domain phosphatase-like 1; Arabidopsis thaliana (Mouse-ear cress).	-	-	36%
Blast2go	rna polymerase ii c-terminal domain phosphatase-like 1-like	-	-	57%

Source	InterPros	Term	Type	Identity
Sma3	Double-stranded RNA-binding	IPR001159	-	-
Sma3	NLI interacting factor	IPR004274	-	-
Sma3	Double-stranded RNA-binding-like	IPR014720	-	-

Full-Lengther Next Prediction

Fln status: Putative C-terminus

Fln database: sp_plants

Fln subject: Q5YDB6

Fln msg: query STOP codon is far from subject stop. Distance to subject end: 26 aas, your sequence is shorter than subject: 541 - 967

Fln protein: VRGGFFKDFDEGLLQKMADVFYEADVKSLPPAPDVSNYLISDDDLNVNRDLPLPEGMADSEVERRLIPQESNAAVQPDTTSNGVDNQDIKMTTPPVDQMQPTVVPSTNSQAQPSRMDPAIEQNQEYCQGIAAVKPFVPQTHNAIESGVQGSPSREEGEVHDTELDPDTRRRLLILQHGQDTGKHNSVDPPFPVRPLKITLPPNQAPGGWLGPEEEMSPRQITRPSQGPPLQPDSLSFDKQRLPQPSYYHGAENSLANDRCFDESKRRLPEDGYFGDDKLKNNHLIPDSFSHSEDEDSSMNKSSSNLKPGRVNALIAPNTVGVLQEIAAKCGAKVEFISLLNTTMELEFSVEVLFSGEKVGAGIGRTKKEAQHRASEDALKYMASQYMSQPGSGAALGRVNTDSSFHAWGDDDGLRETSSSIGFVGAPKEEDMPIASTSGQSKNGEQRLPEDSKKSYNAIETLKEMCTVEGLSLLFQEPAVGNMNRRECWAQVEVAGQILGKGSGPSWEAAKLQAAEEALRNFKSTVSQRTQKRLSSPRWL*

Protein Length: 542

Fln nts: TGGTACGAGGTGGTTTTTTCAAGGATTTTGATGAGGGTCTTTTGCAAAAGATGGCTGATGTATTTTATGAAGCTGATGTAAAAAGTCTTCCTCCCGCACCTGATGTCAGCAATTATTTGATTTCAGATGATGATCTCAATGTGAATAGAGATCTACCTTTGCCAGAGGGCATGGCTGATTCAGAGGTGGAAAGGAGGCTTATCCCACAAGAATCGAATGCAGCTGTACAACCTGACACTACCTCTAACGGTGTAGACAATCAAGATATAAAAATGACAACACCTCCGGTTGATCAGATGCAACCAACTGTTGTACCTTCAACTAACAGTCAGGCACAACCTTCTCGCATGGATCCTGCAATTGAGCAGAATCAAGAATATTGTCAGGGTATTGCTGCAGTTAAACCTTTTGTTCCTCAAACTCATAATGCTATAGAATCTGGTGTGCAAGGTTCACCAAGTAGAGAAGAAGGTGAAGTCCATGATACTGAATTGGATCCGGATACAAGAAGGCGGCTTCTCATATTACAGCATGGCCAAGACACTGGGAAACATAATTCTGTTGATCCTCCTTTCCCAGTTAGGCCATTGAAAATTACATTGCCCCCAAATCAAGCTCCTGGTGGATGGCTTGGACCAGAGGAGGAGATGAGTCCTAGGCAAATTACAAGGCCATCTCAAGGACCTCCTCTTCAACCGGATTCTCTCTCTTTTGATAAGCAACGGCTCCCACAACCTTCATATTATCATGGTGCAGAGAATTCTCTTGCCAATGATAGGTGTTTTGATGAATCTAAAAGACGGTTACCTGAAGATGGATATTTTGGAGATGACAAACTCAAAAACAATCACTTGATTCCGGATTCATTTTCCCATTCAGAAGATGAAGATTCCTCTATGAACAAAAGTTCATCTAACCTCAAACCTGGACGAGTGAATGCACTGATTGCTCCCAATACTGTTGGTGTTCTGCAAGAAATTGCTGCGAAGTGTGGTGCAAAGGTGGAATTTATTTCACTGCTGAACACAACAATGGAGTTAGAGTTCTCGGTTGAGGTCCTGTTTAGTGGTGAAAAAGTGGGTGCAGGCATAGGTAGAACCAAGAAGGAAGCACAACATCGAGCATCTGAAGATGCTCTTAAATACATGGCAAGTCAATATATGTCACAACCTGGATCAGGTGCAGCACTTGGGCGCGTGAACACAGATTCAAGTTTTCATGCATGGGGTGATGATGATGGCTTAAGAGAAACTTCGAGCTCTATAGGTTTTGTTGGTGCACCTAAGGAAGAGGACATGCCCATCGCAAGTACTTCAGGGCAGTCAAAAAATGGTGAACAGAGGTTGCCTGAAGACTCTAAAAAGTCATATAATGCTATTGAAACCCTCAAAGAAATGTGCACTGTGGAAGGTCTTAGTCTTCTTTTCCAAGAACCAGCTGTTGGAAATATGAACAGGAGGGAATGCTGGGCACAAGTTGAAGTAGCTGGACAAATCTTGGGAAAAGGTAGTGGTCCAAGTTGGGAGGCAGCGAAGCTACAGGCTGCAGAGGAGGCTCTTCGTAATTTTAAGTCCACAGTCAGTCAGCGGACACAAAAGCGTTTGAGCTCTCCAAGGTGGCTCTAG___ACCATTCAACTTGCGCTCATGTGGCTATAACAAATAGGTGATCCTTTATGTGGAATGCATAAGATGTACTTTTGAAGTATTACTTTGTGTAATGCAGTATAGAACTTATGCTAGACAGCTATGTGATGGGAAGGATAATGTGCTCTGCAGAATCTCTCAGGTAGAGATCACTCCGCAAATAGCTTAGCATGCTTTGGCCCATCCAATTGCAGCTT

Fln Alignment:

AllPineV4_c1849___VRGGFFKDFDEGLLQKMADVFYEADVKSLPPAPDVSNYLISDDD---LNVNRDLPLPEGMADSEVERRLIPQESNAAVQPDTTSNGVDNQDIKMTTPPVDQMQ-------PTVVPSTNSQAQPSRMDPAIEQNQEYCQGIAAVKPFVPQTHNAIESGVQGSPSREEGEVHDTELDPDTRRRLLILQHGQDTGKHNSVDPPFPVRPLKITLPPN--QAPGGWLGPEEEMSPRQITRP-SQGPPLQPDSLSFDKQRLPQPSYYHGAENSLANDRCFDESKRRLPEDGYFGDDKLKNNHLIPXXXXXXXXXXXXMNKSSSN----LKPGRVNALIAPNTVGVLQEIAAKCGAKVEFISLLNTTMELEFSVEVLFSGEKVGAGIGRTKKEAQHRASEDALKYMASQYMSQPGSGAALGRVNTDSSFHAWGDDDGLRETSSSIGFVGAPKEEDMPIA----STSGQSKNGEQRLPEDSKKSYNAIETLKEMCTVEGLSLLFQ---EPAVGNMNRRECWAQVEVAGQILGKGSGPSWXXXXXXXXXXXXRNFKSTVSQRTQKRLSSPR
Q5YDB6_______________VRGGFFRDFDDSLLPRIAEISYENDAEDIPSPPDVSHYLVSEDDTSGLNGNKDPLSFDGMADTEVERRL-----KEAISASSAVLPAANIDPRIAAPVQFPMASASSVSVPVPVQVVQQAIQPSAMAFPSIPFQQPQQPTSIAKHLVPS-----EPSLQSSPAREEGEVPESELDPDTRRRLLILQHGQDTRDPAPSEPSFPQRP-PVQAPPSHVQSRNGWFPVEEEMDPAQIRRAVSKEYPLDSEMIHMEKHRPRHPSFFSKIDNSTQSDRMLHEN-RRPPKESLRRDEQLRSNNNLPDSHPFYGEDASWNQSSSRNSDLDFLPER-SVSATETSADVLHGIAIKCGAKVEYKPSLVSSTDLRFSVEAWLSNQKIGEGIGKSRREALHKAAEASIQNLADGYMRANGDPGPSHR-------------DATPFTNENISMGNANALNNQPFARDETALPVSSRPTDPRL-EGSMRHTGSITALRELCASEGLEMAFQSQRQLPSDMVHRDELHAQVEIDGRVVGEGVGSTWDEARMQAAERALSSVRSMLGQPLHKRQGSPR

SNPs (tot: 27)

Position	A %	C %	G %	T %	Probability
983			66	33	0.997452
984	66		33		0.997452
985	66			33	0.997452
1077			80	20	0.995493
1078			20	80	0.995493
1136		14		85	0.993533
1137	14	85			0.993533
1140	85		14		0.993533
1141	85		14		0.993533
1172	85		14		0.993533
1185	14		85		0.993533
1325	12			87	0.992554
1328			87	12	0.992554
1329			87	12	0.992554
1350	87		12		0.992554
1378	77			22	0.999999
1503	88		11		0.991528
1628		33		66	0.997452
1629		33	33	33	0.997753
1630	33		66		0.997452
1631		66	33		0.997452
1633		66	33		0.997452
1638	75			25	0.996474
1639		75		25	0.996473
1642			25	75	0.996474
1643		25		75	0.996474
1647	25	75			0.996473

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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