SustainPineDB

Assembly Name: SustainPine v3.0

UniGene Name: sp_v3.0_unigene3130

Length: 1552 nt

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

UniGene Fasta (sense)

Ace file of the UniGene sp_v3.0_unigene3130 (antisense)

Annotations

Source	Descriptions	Term	Type	e value	Identity
AutoFact	leucine-rich repeat extensin-like protein 4 [Arabidopsis thaliana] sp\|Q9LHF1.1\|LRX4_ARATH RecName: Full=Leucine-rich repeat extensin-like protein 4; Short=AtLRX4; Short=LRR/EXTENSIN4; AltName: Full=Cell wall hydroxyproline-rich glycoprotein; Flags: Precur	-	-	0.0	69%
FL-Next	tr=Uncharacterized protein; Cryptomeria japonica (Japanese cedar) (Cupressus japonica).	-	-	0.0	29%
Sma3	Extensin-like protein	-	-	5.36e-31	-

Source	Gene names
Sma3	AT4g13340; AT4g18670; AT4g28380; AT4g33970; At1g12040; At1g49490; At2g15880; At2g19780; At3g19020; At3g22800; At3g24480; At4g06744; At4g13340; At4g18670; At4g28380; At4g29240; At4g33970; At5g25550; B1103C09.1-1; B1103C09.1-2; F12F1.9; F13F21.7; F17I5.160;

Source	GOs	Term	Type	Identity
Sma3	nucleosome	GO:0000786	Cellular Component	-
Sma3	extracellular region	GO:0005576	Cellular Component	-
Sma3	nucleus	GO:0005634	Cellular Component	-
Sma3	ribosome	GO:0005840	Cellular Component	-
Sma3	plant-type cell wall	GO:0009505	Cellular Component	-
Sma3	DNA binding	GO:0003677	Molecular Function	-
Sma3	structural constituent of ribosome	GO:0003735	Molecular Function	-
Sma3	structural constituent of cell wall	GO:0005199	Molecular Function	-
Sma3	protein binding	GO:0005515	Molecular Function	-
Sma3	kinase activity	GO:0016301	Molecular Function	-
Sma3	cell morphogenesis involved in differentiation	GO:0000904	Biological Process	-
Sma3	nucleosome assembly	GO:0006334	Biological Process	-
Sma3	translation	GO:0006412	Biological Process	-
Sma3	plant-type cell wall organization	GO:0009664	Biological Process	-
Sma3	unidimensional cell growth	GO:0009826	Biological Process	-
Sma3	trichoblast differentiation	GO:0010054	Biological Process	-

Source	InterPros	Term	Type	Identity
Sma3	Histone H2B	IPR000558	-	-
Sma3	Intradiol ring-cleavage dioxygenase, C-terminal	IPR000627	-	-
Sma3	Flavodoxin, conserved site	IPR001226	-	-
Sma3	Ribosomal protein S3Ae	IPR001593	-	-
Sma3	Leucine-rich repeat	IPR001611	-	-
Sma3	Pistil-specific extensin-like protein	IPR003882	-	-
Sma3	Repetitive proline-rich cell wall protein repeat	IPR003883	-	-
Sma3	Extensin repeat	IPR006706	-	-
Sma3	Leucine-rich repeat-containing N-terminal, type 2	IPR013210	-	-
Sma3	Ribosomal protein S3Ae, conserved site	IPR018281	-	-

Source	Species	ID	Description	Identity
ATG	Arabidoptis thaliana	AT3G24480.1	Leucine-rich repeat (LRR) family protein chr3:8901154-8902638 REVERSE LENGTH=494	69%
RefSeq	Arabidopsis thaliana	NP_189091.1	leucine-rich repeat extensin-like protein 4 [Arabidopsis thaliana]	69%
RefSeq	Populus trichocarpa	XP_002324974.1	predicted protein [Populus trichocarpa]	70%

Full-Lengther Next Prediction

Fln status: N-terminus

Fln database: coniferopsida.fasta

Fln subject: I4DUG2

Fln msg: Distance to subject end: 324 aas, your sequence is shorter than subject: 430 - 743

Fln protein: MWVNMRGRLKIKQFPAMQEAGLVVLLVLGFVLGLTAAQSDFNGKLSDEDVKYITHRQLLYHKDEFGDRGESVVVDPRFKFPNPKLRDAYIALQAWKEAIFSDPLNITGNWVGPNVCNYTGVFCSAPPYNKSILVVAGIDLNHADIAGYLPTELGLLTDLALFHINTNRFCGIVPHSFKNMTLLYELDISNNRFAGPFPKVVIGLPSLKYLDIRFNEFEGKLPTKLFDKDLDAIFVNNNRFHLEIPSNLGNSPVSVIVFANNNLKGCVPPSLGKMAATLNEIIFLNNNLSACLPSEIGLLKNLTVFDVSFNKLVGSLPDSIGQMVSLEQLDVAHNMLTGKIPQSICALPNLDNFTYSYNFFTGEAPNCLALPSRGVTFDDKRNCIPSRPLQRTLQQCSAFLSRPGVDCSASSCNPRRIFPSPPPPSPPPPS

Protein Length: 431

Fln nts: GTGGGAATGCACCGTTCAGTATTAGTATGAGAGCATGAGCACGAGAACCACCACAGAAGTGAAGCTACATCTACTTAATGGTGGAGATGGAATAGCATTCGATTAGCGTTGCTATTTACCGATATCAAGGCGAACAACTGGCCCCTGGGAACTCCCCAGCCAATAAATTTCCAGTGGGTCTGCCTGAGTAGCCTAGATTAGCTCTTTAAAGGGAGCGGTCCGAGCCTCCTGAATTGATAATCCTGCAACCCAAATGAGAGA_-_ATGTGGGTTAACATGAGAGGAAGACTCAAAATCAAGCAATTTCCTGCAATGCAGGAAGCGGGTCTTGTTGTTTTGCTTGTTTTGGGCTTCGTTCTTGGGCTTACAGCAGCTCAGTCAGATTTTAATGGCAAGCTGTCCGATGAAGATGTCAAGTACATTACCCACAGGCAGCTGCTGTATCACAAGGATGAGTTTGGGGACAGAGGAGAAAGTGTAGTGGTCGATCCAAGGTTCAAGTTCCCTAATCCGAAGCTTAGAGATGCCTACATTGCTCTCCAGGCTTGGAAAGAAGCTATATTCTCAGACCCATTGAACATAACTGGGAACTGGGTCGGCCCTAATGTCTGTAACTACACTGGTGTCTTTTGTTCTGCTCCACCGTACAACAAATCCATTTTGGTTGTAGCGGGCATTGATCTGAACCATGCAGACATTGCAGGGTATCTGCCTACGGAGCTCGGCCTTCTCACAGATCTGGCATTGTTCCATATCAATACTAACAGGTTCTGTGGGATTGTGCCTCATAGTTTCAAGAATATGACCCTGCTGTATGAGCTTGATATCAGTAATAACAGGTTTGCTGGGCCATTCCCAAAGGTAGTTATCGGTCTACCTTCACTGAAGTACTTGGACATTCGGTTCAATGAGTTCGAGGGAAAGCTGCCCACGAAGCTGTTTGACAAAGATCTTGATGCCATCTTTGTCAACAATAACAGGTTTCATCTTGAAATCCCTTCTAATCTTGGAAATTCTCCTGTTTCTGTTATTGTTTTCGCGAACAATAATCTCAAAGGATGCGTTCCTCCCAGTCTGGGAAAAATGGCTGCCACTCTTAATGAGATCATATTCTTGAATAATAATCTGTCAGCCTGCCTGCCATCTGAGATTGGCTTGCTGAAAAACCTGACTGTTTTTGATGTGAGTTTTAATAAGCTAGTTGGGTCTCTGCCAGACAGCATTGGGCAGATGGTCAGCTTGGAACAATTGGATGTTGCCCACAATATGTTAACTGGAAAGATCCCTCAGAGCATCTGTGCACTGCCCAATTTGGATAATTTTACTTACTCCTACAACTTCTTTACTGGGGAGGCACCCAATTGCCTGGCCCTTCCTAGCAGAGGCGTTACCTTTGATGACAAGAGAAATTGTATCCCCAGCAGGCCTCTTCAGAGAACACTCCAACAATGTTCCGCGTTCCTGTCTCGGCCTGGCGTAGATTGCTCTGCATCCTCCTGTAATCCTCGGAGGATTTTCCCATCTCCCCCACCACCTTCCCCACCACCACCATCAC

Fln Alignment:

Contig3130___FKFPNPKLRDAYIALQAWKEAIFSDPLNITGNWVGP-NVCNYTGVFCSAPPYN---------------KSIL----VVAGIDLNHADIAGYLPTELGLLTDLALFHINTNRFCGIVPHSFKNMTLLYELDISNNRFAGPFPKVVIGLPSLKYLDIRFNEFEGKLPTK-----------LFDKDLDA--------------IFVNNNRFHLEIPSNLGN-SPVSVIVFANNNLKGCVPPSLGKMAATLNEIIFLNNNLSACLPSEIGLLKNLTVFDVSFNKLVGSLPDSIGQMVS-LEQLDVAHNMLTGKIPQSICALPNLDNFTYSYNFFTGEAP
I4DUG2______________YSFNNISHHQQQHLLLQFKAAISNNNSTSLPDWTPSLPVCNWTGIICDASSHALLTLDLSYMNLDGTISSILGNLSSLQSLDLSNNALTGTIPPQLGQLPHLRELWLHQNQLQGTIPPSLSACRSLYDLALSFNQLQGNIPPGLGSLTSLKNLYLGRNSLTGKIPRSFKNLSSLVGLYLEDNDLTGTILPELGMLTHLHELYLWGNRLSGSIPSFLGNLSSLTSLHLSTNQFQGLIPPELG-MLTHLHELRLFENHLSGSIPSSLTNLSKLNILDLYSNQLSGHVPWDIGTKLSNLTYLSLWANQLTGNIPNSIGNCSRLDILTLTQNRLDGMVP

SNPs (tot: 10)

Position	A %	C %	G %	T %	Probability
1036			33	66	0.997452
1038	66	33			0.997452
1040	33	66			0.997452
1105		63		36	1.0
1248	14		85		0.993533
1249			85	14	0.993533
1250	85		14		0.993533
1251	85			14	0.993533
1359	85			14	0.993533
1422		75		25	0.996473

SSRs (tot: 1)

Start position	End position	Sequence	Length
5	16	TGG TGG TGG TGG	12

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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