SustainPineDB

Assembly Name: SustainPine v3.0

UniGene Name: sp_v3.0_unigene127882

Length: 1225 nt

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

UniGene Fasta (sense)

Ace file of the UniGene sp_v3.0_unigene127882 (antisense)

Annotations

Source	Descriptions	Term	Type	e value	Identity
AutoFact	Charged multivesicular body protein 4b, putative n=4 Tax=rosids RepID=B9RKD5_RICCO	-	-	0.0	63%
FL-Next	tr=Putative uncharacterized protein; Picea sitchensis (Sitka spruce) (Pinus sitchensis).	-	-	0.0	98%
Sma3	Charged multivesicular body protein 4b	-	-	1.778e-11	-

Source	Gene names
Sma3	At2g19830; At4g29160; CHMP4-1; CHMP4-2; F19B15.190; F6F22.14; GSVIVT00016618001; GSVIVT00032145001; GSVIVT00034232001; LOC_Os11g03060; LOC_Os12g02830; MICPUCDRAFT_46014; MICPUN_108335; OSTLU_28171; Os06g0608500; Os09g0267600; Os11g0123500; Os12g0121400; O

Source	GOs	Term	Type	Identity
Sma3	cytoplasm	GO:0005737	Cellular Component	-
Sma3	plasma membrane	GO:0005886	Cellular Component	-
Sma3	serine-tRNA ligase activity	GO:0004828	Molecular Function	-
Sma3	ATP binding	GO:0005524	Molecular Function	-
Sma3	seryl-tRNA aminoacylation	GO:0006434	Biological Process	-
Sma3	protein transport	GO:0015031	Biological Process	-

Source	InterPros	Term	Type	Identity
Sma3	WD40 repeat	IPR001680	-	-
Sma3	Snf7	IPR005024	-	-
Sma3	Seryl-tRNA synthetase, class IIa, N-terminal	IPR015866	-	-
Sma3	WD40/YVTN repeat-like-containing domain	IPR015943	-	-
Sma3	WD40-repeat-containing domain	IPR017986	-	-
Sma3	WD40 repeat, conserved site	IPR019775	-	-
Sma3		IPR019782	-	-

Source	Species	ID	Description	Identity
ATG	Arabidoptis thaliana	AT4G29160.1	SNF7.1 SNF7 family protein chr4:14381019-14382342 FORWARD LENGTH=219	73%
RefSeq	Arabidopsis thaliana	NP_001078468.1	vacuolar protein sorting-associated protein 32-2 [Arabidopsis thaliana]	73%
RefSeq	Populus trichocarpa	XP_002308308.1	predicted protein [Populus trichocarpa]	82%

Full-Lengther Next Prediction

Fln status: Complete

Fln database: coniferopsida.fasta

Fln subject: D5AE50

Fln msg: Overlapping hits, possible frame ERROR between 412 and 403,

Fln protein: MFNKLFKKPKEETSALATIDKLSETLEMLEKKEKVLQKKISVEIEKAKEFTRRKNKRAAIQCxxxxxLYETQVEQLGNFQLRIHDQMIMLEGAKATTETVDALRTGALAMKTIQKAMNIDDIDKTMDEVNEHTENLKQIQEALATPIGSAADIDEDELEAELEELEGAELEEQLLQPATTAPSSQIPAVPASQRPVTVPPQRTAPQSRSEDDELAALQAEMAL*

Protein Length: 225

Fln nts: ATATGGGGATTTAGACGGGAAACCTACTCAACATGGGGATCCTTTTCTGCTCTGAATTCCCCCATAGAATCTGCGAACGAGTGACAACGAGCGACGGAATTTGGAAATTCCCGTGGAGAGGGTTTTATGCTCGGAATTGAAATAATTGTGAGGGTTTAGTGTTGATTGAGGGTTTAACGGGGTCCAATCCAGCCGATAATCGCAGTAATTCAAG_-_ATGTTTAACAAGCTCTTCAAAAAGCCGAAGGAGGAAACTTCGGCACTTGCCACTATAGACAAGCTCAGCGAGACATTAGAAATGTTGGAGAAGAAAGAGAAAGTTTTGCAGAAAAAAATCTCTGTTGAAATTGAAAAAGCTAAGGAGTTTACGCGGCGGAAAAATAAGAGGGCTGCAATTCAGTGTxxxxxxxxxxxxxxxTTGTATGAAACTCAAGTAGAGCAGCTTGGTAACTTCCAGCTACGAATACATGATCAGATGATTATGTTGGAAGGTGCAAAAGCAACAACAGAAACTGTAGACGCTCTCAGAACAGGAGCATTGGCAATGAAGACCATCCAAAAAGCAATGAATATAGATGACATTGATAAAACAATGGATGAGGTCAATGAGCACACAGAGAACTTGAAACAAATTCAAGAGGCTCTTGCTACTCCAATTGGTTCTGCAGCTGATATTGATGAGGATGAATTGGAGGCTGAGCTTGAAGAGCTAGAAGGAGCAGAGCTGGAAGAACAATTATTACAGCCAGCAACCACAGCACCTTCATCTCAGATACCTGCTGTGCCTGCTTCTCAACGACCTGTGACAGTTCCTCCACAGAGAACAGCTCCTCAAAGTAGATCTGAAGATGATGAGCTTGCTGCTCTTCAAGCAGAGATGGCTTTGTGA___TCAATATAAGGTCAAAGCAAAAAATGACGGTGTACTACTCACTTGTAGCTATATATCCTTATTTTCAATTAAAGTGGCCAAAATCAGGATGACACTGCAGTTCCTGCTGATGTATAAAAATATCTAAATATTCCAGCTGCATTTTAATGCTACGACATTATGTAGTTTATTTCTTAGAATTTTACAACTTGTTTATGAAGACAACCTGGGTAGAGCCCCCAGTTCCATATACATTGAGAAGCATTAGCCCCTTGCTTGGGACATTGCTTAATCTGTTGAAGAACCTAGGGCTGTCATATTAAGGTGATTCTTCTTTAACATGAAAGCAATTTGTGAAGCA

Fln Alignment:

AllPine_a_rep_c74069___MFNKLFKKPKEETSALATIDKLSETLEMLEKKEKVLQKKISVEIEKAKEFTRRKNKRAAIQCLxxxKLYETQVEQLGNFQLRIHDQMIMLEGAKATTETVDALRTGALAMKTIQKAMNIDDIDKTMDEVNEHTENLKQIQEALATPIGSAADIXXXXXXXXXXXXXXXXXXXXXXQPATTAPSSQIPAVPASQRPVTVPPQRTAPQSRS
D5AE50________________MFNKLFKKPKEETSALATIDKLNETLEMLEKKEKVLQKKISVEIEKAKEFTRRKNKRAAIQCLxxxKLYETQVEQLGNFQLRIHDQMIMLEGAKATTETVDALRTGALAMKTIQKAMNIDDIDKTMDEVNEHTENMKQIQEALATPIGSAADIDEDELEAELEELEGAELEEQLLQPATTAPSSQIPAVPASQRPVPAAPQRTAPQSRT

SNPs (tot: 8)

Position	A %	C %	G %	T %	Probability
1167	91	8			0.999807
1168		8	86	4	0.999539
1179	33		66		1.0
1202		7	30		1.0
1203		76	15		0.999984
1204	15	84			0.999986
1205	15	84			0.999986
1208	15			84	0.999986

Back

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