SustainPineDB

Assembly Name: SustainPine v3.0

UniGene Name: sp_v3.0_unigene11677

Length: 1829 nt

UniGene Fasta

Ace file of the UniGene sp_v3.0_unigene11677

Annotations

Source	Descriptions	Term	Type	e value	Identity
AutoFact	leucine-rich repeat extensin-like protein 3 [Arabidopsis thaliana] sp\|Q9T0K5.1\|LRX3_ARATH RecName: Full=Leucine-rich repeat extensin-like protein 3; Short=AtLRX3; Short=LRR/EXTENSIN3; AltName: Full=Cell wall hydroxyproline-rich glycoprotein; Flags: Precur	-	-	0.0	48%
FL-Next	tr=Putative uncharacterized protein; Picea sitchensis (Sitka spruce) (Pinus sitchensis).	-	-	0.0	30%
Sma3	Extensin-like protein	-	-	5.595e-31	-

Source	Gene names
Sma3	AT1G49750; AT4g13340; AT4g18670; AT4g28380; AT4g33970; At1g12040; At1g49490; At1g49750; At2g15880; At2g19780; At3g19020; At3g19320; At3g22800; At3g24480; At4g13340; At4g18670; At4g28380; At4g29240; At4g33970; At5g25550; B1103C09.1-1; B1103C09.1-2; F12F1.9

Source	GOs	Term	Type	Identity
Sma3	nucleosome	GO:0000786	Cellular Component	-
Sma3	nucleus	GO:0005634	Cellular Component	-
Sma3	ribosome	GO:0005840	Cellular Component	-
Sma3	plant-type cell wall	GO:0009505	Cellular Component	-
Sma3	chloroplast	GO:0009507	Cellular Component	-
Sma3	DNA binding	GO:0003677	Molecular Function	-
Sma3	structural constituent of ribosome	GO:0003735	Molecular Function	-
Sma3	receptor activity	GO:0004872	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	AT4G13340.1	Leucine-rich repeat (LRR) family protein chr4:7758610-7760892 FORWARD LENGTH=760	50%
RefSeq	Arabidopsis thaliana	NP_193070.1	leucine-rich repeat extensin-like protein 3 [Arabidopsis thaliana]	50%
RefSeq	Populus trichocarpa	XP_002324974.1	predicted protein [Populus trichocarpa]	52%

Full-Lengther Next Prediction

Fln status: Internal

Fln database: coniferopsida.fasta

Fln subject: C0PTA1

Fln msg: Unexpected STOP codon at 3' end. Distance to subject end: 296 aas, your sequence is shorter than subject: 450 - 946

Fln protein: RRDLGCHSGFGGDFCGFRLNNAYVALQAWKKAISDDPLGITKTWVGHDVCNYTGVFCAPALDKSCDRVVAGIDLNHGMLKGLLVEELGMLTDIALFHLNTNRFSGVVPLSLKSLTLLAELDVSNNQLSGNFPTVVLELQSLVYLDLRFNFFTGSLPAELFNKKEMDAIFVNNNYFEDKIPDNLGNSPVSVVSFANNKLTGSIPSSVGNMAQRLNEVLFLNNALSGCLPEETGMLDQLNVLDVSFNDIGGQVPLSLGCLGNIEQLILARNEFCGSIPDVICSIRSLQNLTVSYNYFTAEGASCPSLPSRGVPFDDSQNCIPGRPLQRSQQECAAFRAQPKTCTDLSFSHLQCSLPPPIISPPPPPTPLQVPAVRYSSPPPPAALTVPAIRYASPPPPVPLAIPAIRYASPPPPVPLAIPAIRYASPPPPSTNLVPPPIQNCNPPLSPPFH*

Protein Length: 451

Fln nts: CGTCGTGACCTTGGCTGTCACTCAGGATTTGGTGGTGATTTTTGTGGGTTCAGGCTGAATAATGCATATGTAGCACTGCAGGCATGGAAGAAGGCCATTAGTGATGATCCCCTGGGCATCACTAAGACTTGGGTAGGACATGATGTTTGCAATTACACAGGGGTTTTCTGTGCACCTGCCTTAGACAAATCATGTGACAGAGTTGTTGCTGGGATTGACTTGAATCATGGAATGCTTAAAGGCTTATTGGTTGAGGAACTGGGCATGCTCACTGATATTGCTCTCTTCCATCTCAATACCAATCGTTTCAGTGGGGTCGTTCCTCTTAGCTTAAAGAGTCTCACACTTCTCGCAGAGCTGGATGTCAGTAACAACCAACTCTCAGGGAATTTCCCTACTGTGGTTCTGGAACTGCAGAGTCTGGTGTATTTGGATCTGAGATTCAATTTCTTTACAGGTTCTCTTCCTGCAGAGCTCTTCAACAAGAAGGAGATGGATGCTATCTTTGTGAATAACAACTATTTTGAAGATAAAATTCCTGACAACTTGGGGAACTCTCCAGTCTCTGTGGTGAGCTTTGCCAATAACAAGCTGACTGGAAGCATTCCTAGCAGTGTTGGCAACATGGCCCAGAGGCTGAATGAGGTGCTGTTTCTCAACAATGCACTGTCTGGATGCTTGCCAGAGGAAACAGGGATGCTGGATCAGCTCAATGTGTTGGATGTGAGCTTTAATGACATAGGAGGTCAGGTTCCATTATCTCTTGGCTGTCTAGGTAACATTGAGCAGCTCATTCTGGCTCGCAATGAATTCTGTGGATCCATTCCTGATGTGATTTGCTCAATAAGAAGCCTCCAGAACCTTACTGTTTCCTACAATTATTTCACAGCAGAGGGTGCAAGCTGCCCCTCACTTCCAAGCAGGGGAGTGCCATTTGATGATTCACAGAATTGCATTCCTGGTCGTCCTCTTCAGAGATCACAGCAGGAATGTGCTGCATTTCGTGCCCAACCCAAGACTTGTACTGATCTGTCTTTTTCTCATCTGCAATGTTCACTACCACCTCCCATTATATCACCGCCACCACCACCTACTCCTCTTCAAGTACCTGCTGTGAGATATTCTTCACCGCCACCTCCTGCTGCTCTCACAGTACCTGCAATCAGATATGCATCCCCACCACCTCCTGTTCCTCTTGCAATTCCTGCAATCAGATATGCATCCCCACCACCTCCTGTTCCTCTTGCAATTCCTGCAATCAGATATGCATCCCCTCCACCACCTTCAACCAATCTAGTCCCTCCACCAATCCAAAACTGTAATCCTCCCCTTTCTCCACCCTTCCATTAACGGTTAAACACTGCAGATACTTTGTTCTGAAGTCAACATACAGGAAATAATTGTGTTTTGGGCAGCAGAATAGTTTGAAGTCCGAACAGAAGATTCAATGTAGTATTTTTATGGAAGAGCTGGCATATTGCTTTCAGTTAAGGATCTGATGGCAATATATAACTAAGAGATTCATGGCTTCTCCACTACCTACTGTGTGTGTCTAATCAACTAATAGTGATAACCATCCTATTCATTTTGCAAAGTTGATAGGTATATTGTTATCTATTCATATATTGGTCAACCATAAACACCTATTTCAGGTGATGACAGCTGGTGCCAAACTGTAATGGTTTTCTGAACATTTTGTTATGTTACTCAAGAAAACTGAATCCAGTGATGCCATTTTGGTGCAGAACTGTAATAGTATGCAGCTTGATTTTTATATTTTGTTCTGTTGCAGAATCGTAATAGTATGGAGCTTGATTTTTATATACATT

Fln Alignment:

Contig11677___ALQAWKKAISDDPLGITKTWVG---HDVCNYTGVFCAPALDKSCDRVVAGIDLNHGMLKGLLVEELGMLTDIALFHLNTNRFSGVVPXXXXXXXXXXXXDVS-NNQLSGNFPTVVLELQSLVYLDLRFNFFTGSLPAELFNKKEMDAIFVNNNYF-EDKIPDNLGN-SPVSVVSFANNKLTGSIPSSVGNMAQRLNEVLFLNNALSGCLPEETGMLDQLNVLDVSFNDIGGQVPLSLGCLGNIEQLILARNEFCGSIPDVICSIRSLQNLTVSYN
C0PTA1_______________ALLAFKKAITYDPSRSLSNWTAQNSHNICSWYGVRCRPH-----SRRVVQIELSSSGLEGILSSSLGSLSFLKTLDLSANNLTGGIPPEFGRLKALRTLDLTFNEMLGGSVPKSLLNCTHLKWIGLANINLTGTIPTEFGRLVELEHLDLSSNYYLSGSIPTSLGNCTSLSHLDLSNNSLSGHIPPTLGNCIS-LSHLHLSENSLSGHIPPTLGNCTSLSHLDLSGNSLSGHIPPTLGKCISLSYIYLSGNSLSGHMPRTLGNLTQISHINLSFN

SNPs (tot: 10)

Position	A %	C %	G %	T %	Probability
400			33	66	0.997452
401			66	33	0.997452
403		33	66		0.997452
405		33		66	0.997452
615	25		75		0.996473
716	14		85		0.993533
1066	11			88	0.923564
1148		90		10	0.90298
1305		75		25	0.996473
1366	85		14		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