SustainPineDB

Assembly Name: SustainPine v3.0

UniGene Name: sp_v3.0_unigene236

Length: 2720 nt

This UniGene was originaly assembled in antisense
ACE File: antisense
Fasta: sense

UniGene Fasta (sense)

>sp_v3.0_unigene236
GGATAGAGAGTGAGGGATTAATGTGTGATGTGTTCCAGTTTCTGCGTATAGATCAGACTAGGCAGTTTTGAGAGTAAGTCAAAGCTTTTCATTTCTAGCTGTTAGGGTTCCAATATGCCGCAGTAAACTGTTAGGATAAGCTGAAGATTGTAACCACGCATTTCTGAAACCCTCCAGGAATTTGTGTACGGTAGCAGGGGTTCGACGTTGACGACCGTCGATCTGTTTTGGTTGTCCACTCCTGTTGGATAGAGGCTAATATCTATCCTTTCACATTTTGAGGAATCCAATCAGGGTTTTGTCATCAAATTCAAAACCCCCTCAGAAGCGGCAAACAGATATCAAATTCAAAGGAAGGAAGGAGTACAAAGCGACTATAAATCAGAGGCAAGAGATTTGATCGAGAATACAAAGATAAATTTCAAGGAAGGAGTCCAAGCGATTATACATCAGAGGTAAGAGATTTGATCGAGATAGTTGTCAGACCTTTGTTTTGAGTGTTTATTTGTCTAAAACGCTGTAGAAATGGCCGAGGATACAATGGCCGATATGTTTACAGTACAGCAGACCGCGGGTCGAGTACTGTGCTGTATGTGCGGTATTTCCATGCCACCCAACGCAGCAAACATGTGTGTTAATTGTATACGAACCCAAGTGGATATCACAGAAGGTCTACAAAAACACGTAACAATCCTTCATTGCCCTGAATGTAATTCGTATTTACAGCCCCCCAAAACATGGATAAAAGCCCAATTAGAATCCAAGGAACTCTTAACATTTTGCATTAAGAGGCTTAAGAATTTGAACAAGGTTAGGCTTGTACATGCTGAATTCATATGGACCGAACCCCATTCTAAGAGAATCAAGGTCAAGTTGCGAATACAGAAGGAAGTGCTCAATGGGGCTATATTGGAACAGGCTTACGTTGTTGAATATGTTCAGCAAGATCATATGTGTGAACACTGTACAAGGGTTCAGTCCAACCCAGATCAGTACGTGGCTGTTGTGCAAGTCAGGCAGCATGTTAGCCACAGGAGAACGTTTTTCTATCTGGAACAGTTGATTCTCAAGCACGGTGCAGCTGCTCAGGCAGTCAATGTTAAACAAGTGCATGAGGGTGTTGATTTTTTCTTTGCTAATAGAAGTCATGCAGTTAGGTTTGTGAGCTTTTTGGGCAATGTGGTGCCTATTTTGAATCGCAATGACAAACAGCTTGTGTCTCAGGATTCAAAGAGCAATACATACAATTATAAGTACACTTTCTCTGTTCAGATTTGCCCTATTTGCAAGGAGGATTTGGTTTGCCTCCCTCCAAAGGTTGCGGCAAACTTGGGAAACCTAGGTCCCCTTGTTCTGTGCACAAAAGTGAGTACCCATATTATGCTGCTTGACCCATTTACTTCGAGGCATGCTTTTATGGACGCGAATCAGTATTGGAGGGTTCCTTTTAAGGCTCTCCTTTCAAACCGGCAGTTGGCTGAATATATTGTATTGGATATTGAAGTTGAGATGGGTTTGACTACTGTGGGTGGTATCAAGTATTCATTGGCAGAGGCACAGGTAGCCCGTGTTTCAGACTTTGGAAAGAATGACACTATTTTTACAGTGAAAACTCATCTGGGCCATCTTTTGAGTCCTGGTGACTATGCTCTTGGTTTTGATCTCTATGGTGCAAATACTAATGATGTGGATTTAGATAAATACAAAGGACTTAATCTTCCAGATGTGGTTTTGGTGAAGAAAAGTTACGAAGAGAAGCGCCAGAAGAAGCGGGGCAAGCCTAGGCCTTGGAAGCTTAAGACATTGCCCATGGAGGTTGAACCATCTTCCAGAGGCAGAATGGAGGACGCAAAGGAAGGGGAAGACTATGAAAAGTTTTTGGATGAACTGGAGGAAGATCAGGAGATGCGATCCAAGATTGCATTGTACAGAAATGAAAATTATCAGCGAGCGGATACAGCGTCTATGACCGATGGTGAAGATGTTCCTTCTGTACCTTTGGATGAGCTTCTTGGTGATCTTACACTCGAGGATGATGAGCACGAAGATGAAGAAATGGAAGGCTAATTGTTAAAACACATTTCGGATGACCTCGTGTGACATTGCCAATTTTTTTATATTGTTAATCTCGTGGAAAATTTGCATCTTGCAAGAGTTAAATCTAGATTTAAGGCACGTGAGATTTTTTTTGCCGTGAAGACCCATGTAAGTATTTTAGTCTGTTTTTCACTTTTATTATTTTCCTTCCCAGATAAGGGAACGAATTTCAGAATTCAAGAGTGTATGTGGTAGTCTCAGTTAAGACTTTAAATTTTAGCGTGGTTTCATGTTATATGAATTTTCTACAAGCACCAGAAACTGACATTTTACAGAAAGTAATAACAGCCATGGGAACAGTCTAGTAGTATCTGGACTAGAAAATTAGAGCACTCTAGAAAAACTAGAAAGCTGCAATTTCTCAGAATTAATTATAGTGTTTAAAGATTTTCTTCAATTGAAAAGAGAGTGCGCCCAATTTTGCCATTAAGGTGAAATAATAAAGTGCGCCCAATTTTGCCATTAAGGTGATATAATAGTTTGGTCTGTGTTGATCATGTGTTTCAGTCCAAGTCAGGGATCCTATCCTCGTATGTTGATTGCAGTTGATGAACAAATATGGAATATTAGTTCTAGTTTGTATTTATATTTGTGGAATTTGAATGGAGATTACACTCCAGACA

Ace file of the UniGene sp_v3.0_unigene236 (antisense)

Annotations

Source	Descriptions	Term	Type	Identity
AutoFact	Nonsense-mediated mRNA decary protein 3 n=1 Tax=Taiwania cryptomerioides RepID=B3ST70_9CONI	-	-	84%
FL-Next	tr=Nonsense-mediated mRNA decary protein 3; Taiwania cryptomerioides.	-	-	87%
Sma3	Nonsense-mediated mRNA decary protein 3	-	-	-

Source	Gene names
Sma3	NMD3;

Source	InterPros	Term	Type	e value	Identity
Sma3	NMD3	IPR007064	-	0.0	-

Source	Species	ID	Description	Identity
ATG	Arabidoptis thaliana	AT2G03820.1	nonsense-mediated mRNA decay NMD3 family protein chr2:1165149-1166699 REVERSE LENGTH=516	64%
RefSeq	Arabidopsis thaliana	NP_178476.1	nonsense-mediated mRNA decay protein 3 [Arabidopsis thaliana]	64%
RefSeq	Populus trichocarpa	XP_002306035.1	predicted protein [Populus trichocarpa]	67%

Full-Lengther Next Prediction

Fln status: Complete

Fln database: coniferopsida.fasta

Fln subject: B3ST70

Fln msg:

Fln protein: MAEDTMADMFTVQQTAGRVLCCMCGISMPPNAANMCVNCIRTQVDITEGLQKHVTILHCPECNSYLQPPKTWIKAQLESKELLTFCIKRLKNLNKVRLVHAEFIWTEPHSKRIKVKLRIQKEVLNGAILEQAYVVEYVQQDHMCEHCTRVQSNPDQYVAVVQVRQHVSHRRTFFYLEQLILKHGAAAQAVNVKQVHEGVDFFFANRSHAVRFVSFLGNVVPILNRNDKQLVSQDSKSNTYNYKYTFSVQICPICKEDLVCLPPKVAANLGNLGPLVLCTKVSTHIMLLDPFTSRHAFMDANQYWRVPFKALLSNRQLAEYIVLDIEVEMGLTTVGGIKYSLAEAQVARVSDFGKNDTIFTVKTHLGHLLSPGDYALGFDLYGANTNDVDLDKYKGLNLPDVVLVKKSYEEKRQKKRGKPRPWKLKTLPMEVEPSSRGRMEDAKEGEDYEKFLDELEEDQEMRSKIALYRNENYQRADTASMTDGEDVPSVPLDELLGDLTLEDDEHEDEEMEG*

Protein Length: 515

Fln nts: GGATAGAGAGTGAGGGATTAATGTGTGATGTGTTCCAGTTTCTGCGTATAGATCAGACTAGGCAGTTTTGAGAGTAAGTCAAAGCTTTTCATTTCTAGCTGTTAGGGTTCCAATATGCCGCAGTAAACTGTTAGGATAAGCTGAAGATTGTAACCACGCATTTCTGAAACCCTCCAGGAATTTGTGTACGGTAGCAGGGGTTCGACGTTGACGACCGTCGATCTGTTTTGGTTGTCCACTCCTGTTGGATAGAGGCTAATATCTATCCTTTCACATTTTGAGGAATCCAATCAGGGTTTTGTCATCAAATTCAAAACCCCCTCAGAAGCGGCAAACAGATATCAAATTCAAAGGAAGGAAGGAGTACAAAGCGACTATAAATCAGAGGCAAGAGATTTGATCGAGAATACAAAGATAAATTTCAAGGAAGGAGTCCAAGCGATTATACATCAGAGGTAAGAGATTTGATCGAGATAGTTGTCAGACCTTTGTTTTGAGTGTTTATTTGTCTAAAACGCTGTAGAA_-_ATGGCCGAGGATACAATGGCCGATATGTTTACAGTACAGCAGACCGCGGGTCGAGTACTGTGCTGTATGTGCGGTATTTCCATGCCACCCAACGCAGCAAACATGTGTGTTAATTGTATACGAACCCAAGTGGATATCACAGAAGGTCTACAAAAACACGTAACAATCCTTCATTGCCCTGAATGTAATTCGTATTTACAGCCCCCCAAAACATGGATAAAAGCCCAATTAGAATCCAAGGAACTCTTAACATTTTGCATTAAGAGGCTTAAGAATTTGAACAAGGTTAGGCTTGTACATGCTGAATTCATATGGACCGAACCCCATTCTAAGAGAATCAAGGTCAAGTTGCGAATACAGAAGGAAGTGCTCAATGGGGCTATATTGGAACAGGCTTACGTTGTTGAATATGTTCAGCAAGATCATATGTGTGAACACTGTACAAGGGTTCAGTCCAACCCAGATCAGTACGTGGCTGTTGTGCAAGTCAGGCAGCATGTTAGCCACAGGAGAACGTTTTTCTATCTGGAACAGTTGATTCTCAAGCACGGTGCAGCTGCTCAGGCAGTCAATGTTAAACAAGTGCATGAGGGTGTTGATTTTTTCTTTGCTAATAGAAGTCATGCAGTTAGGTTTGTGAGCTTTTTGGGCAATGTGGTGCCTATTTTGAATCGCAATGACAAACAGCTTGTGTCTCAGGATTCAAAGAGCAATACATACAATTATAAGTACACTTTCTCTGTTCAGATTTGCCCTATTTGCAAGGAGGATTTGGTTTGCCTCCCTCCAAAGGTTGCGGCAAACTTGGGAAACCTAGGTCCCCTTGTTCTGTGCACAAAAGTGAGTACCCATATTATGCTGCTTGACCCATTTACTTCGAGGCATGCTTTTATGGACGCGAATCAGTATTGGAGGGTTCCTTTTAAGGCTCTCCTTTCAAACCGGCAGTTGGCTGAATATATTGTATTGGATATTGAAGTTGAGATGGGTTTGACTACTGTGGGTGGTATCAAGTATTCATTGGCAGAGGCACAGGTAGCCCGTGTTTCAGACTTTGGAAAGAATGACACTATTTTTACAGTGAAAACTCATCTGGGCCATCTTTTGAGTCCTGGTGACTATGCTCTTGGTTTTGATCTCTATGGTGCAAATACTAATGATGTGGATTTAGATAAATACAAAGGACTTAATCTTCCAGATGTGGTTTTGGTGAAGAAAAGTTACGAAGAGAAGCGCCAGAAGAAGCGGGGCAAGCCTAGGCCTTGGAAGCTTAAGACATTGCCCATGGAGGTTGAACCATCTTCCAGAGGCAGAATGGAGGACGCAAAGGAAGGGGAAGACTATGAAAAGTTTTTGGATGAACTGGAGGAAGATCAGGAGATGCGATCCAAGATTGCATTGTACAGAAATGAAAATTATCAGCGAGCGGATACAGCGTCTATGACCGATGGTGAAGATGTTCCTTCTGTACCTTTGGATGAGCTTCTTGGTGATCTTACACTCGAGGATGATGAGCACGAAGATGAAGAAATGGAAGGCTAA___TTGTTAAAACACATTTCGGATGACCTCGTGTGACATTGCCAATTTTTTTATATTGTTAATCTCGTGGAAAATTTGCATCTTGCAAGAGTTAAATCTAGATTTAAGGCACGTGAGATTTTTTTTGCCGTGAAGACCCATGTAAGTATTTTAGTCTGTTTTTCACTTTTATTATTTTCCTTCCCAGATAAGGGAACGAATTTCAGAATTCAAGAGTGTATGTGGTAGTCTCAGTTAAGACTTTAAATTTTAGCGTGGTTTCATGTTATATGAATTTTCTACAAGCACCAGAAACTGACATTTTACAGAAAGTAATAACAGCCATGGGAACAGTCTAGTAGTATCTGGACTAGAAAATTAGAGCACTCTAGAAAAACTAGAAAGCTGCAATTTCTCAGAATTAATTATAGTGTTTAAAGATTTTCTTCAATTGAAAAGAGAGTGCGCCCAATTTTGCCATTAAGGTGAAATAATAAAGTGCGCCCAATTTTGCCATTAAGGTGATATAATAGTTTGGTCTGTGTTGATCATGTGTTTCAGTCCAAGTCAGGGATCCTATCCTCGTATGTTGATTGCAGTTGATGAACAAATATGGAATATTAGTTCTAGTTTGTATTTATATTTGTGGAATTTGAATGGAGATTACACTCCAGACA

Fln Alignment:

Contig236___AEDTMADMFTVQQTAGRVLCCMCGISMPPNAANMCVNCIRTQVDITEGLQKHVTILHCPECNSYLQPPKTWIKAQLESKELLTFCIKRLKNLNKVRLVHAEFIWTEPHSKRIKVKLRIQKEVLNGAILEQAYVVEYVQQDHMCEHCTRVQSNPDXXXXXXXXXXXXXXXRTFFYLEQLILKHGAAAQAVNVKQVHEGVDFFFANRSHAVRFVSFLGNVVPILNRNDKQLVSQDSKSNTYNYKYTFSVQICPICKEDLVCLPPKVAANLGNLGPLVLCTKVSTHIMLLDPFTSRHAFMDANQYWRVPFKALLSNRQLAEYIVLDIEVEMGLTTVGGIKYSLAEAQVARVSDFGKNDTIFTVKTHLGHLLSPGDYALGFDLYGANTNDVDLDKYKGLNLPDVVLVKKSYEEKRQKKRGKPRPWKLKTLPMEVEPSSRGRMEDAKEGEDYEKFLDELEEDQEMRSKIALYRNENYQRADTASMTDGEDVPSVP
B3ST70_____________AEGIVADMFTVQKTMGQVLCCMCGISMPPNAANMCVNCIRSQVDITEGLQKHVTILHCPECSSYLQPPKTWIKAQLESKELLTFCIKRLKNLNKVRLVHAEFIWTEPHSKRIKIKLRIQKEVLNGAILEQAYVVEYVQQENMCDNCRRVQTNPDQYVAVVQVRQHVSHRRTFFYLEQLILKHGAASQAVNIKQVHEGVDFYFANRSHGSKFVNFLGSVVPTLNRNDKQLVSQDIKNSTYNYKYTFSVQICPICKEDLICLPPKVSSSLGNLGPLVLCTKVSTNIMLLDPFTSRHAFMDANQYWRVPFRPLLSGRQLVEYIVLDIEVNVGLITVGGMKYSLADAQVARVSDFGKNDTIFNVKTHLGHLLNPGDYALGFDLYGANTNDLEMDKYKGLNLPDVVLVKKSYEEKRQKKRGKPRPWKLNNLPMEVEPSSKGRTEDAKEVQDYEKFLEELEEDQEMRSKIALYRNKNYQPSETASMTDGEDGPAVP

SNPs (tot: 18)

Position	A %	C %	G %	T %	Probability
1609	50		50		1.0
1629		83		16	0.994512
1812	88			11	0.923564
1815		12		87	0.992554
1817			87	12	0.992554
1818		87		12	0.992554
1888	16		83		0.994512
1889	83	16			0.994512
1975	33			66	0.997452
2044	33			66	0.997452
2045	33			66	0.997452
2218	88			11	0.923564
2230	87	12			0.992554
2232		87		12	0.992554
2233	87			12	0.992554
2247		12		87	0.992554
2283		30	69		1.0
2393		83		16	0.994512

SSRs (tot: 1)

Start position	End position	Sequence	Length
2358	2370	TCCT TCCT TCCT T	13

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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