SustainPineDB

Assembly Name: biogeco3 v1.0

UniGene Name: biog3_v1.0_unigene7160

Length: 1369 nt

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

UniGene Fasta (sense)

Ace file of the UniGene biog3_v1.0_unigene7160 (antisense)

Annotations

Parent Assembly	Parent UniGene	Reads (related/total)
SustainPine v2.0	sp_v2.0_unigene2945	39/39

Source	Descriptions	Term	Type	e value	Identity
AutoFact	RNA recognition motif and CCHC-type zinc finger domain-containing protein [Arabidopsis thaliana] gb\|AAL11606.1\|AF424613_1 AT3g26420/F20C19_14 [Arabidopsis thaliana] dbj\|BAB02203.1\| unnamed protein product [Arabidopsis thaliana] gb\|AAK96804.1\| Unknown prot	-	-	7.0e-35	53%
FL-Next	tr=Putative uncharacterized protein; Picea sitchensis (Sitka spruce) (Pinus sitchensis).	-	-	0.0	100%
Blast2go	rna recognition motif family expressed	-	-	0.0	72%

Source	GOs	Term	Type	Identity
Blast2go	cold acclimation	GO:0009631	Biological Process	72%
Blast2go	RNA binding	GO:0003723	Molecular Function	72%
Blast2go	nucleotide binding	GO:0000166	Molecular Function	72%
Blast2go	zinc ion binding	GO:0008270	Molecular Function	72%
Blast2go	cytoplasm	GO:0005737	Cellular Component	72%
Blast2go	nucleus	GO:0005634	Cellular Component	72%

Source	InterPros	Term	Type	Identity
Sma3	Nucleotide-binding, alpha-beta plait	IPR012677	-	-
Sma3		IPR015465	-	-
Sma3	RNA recognition motif domain	IPR000504	-	-
Sma3	Zinc finger, CCHC-type	IPR001878	-	-

Full-Lengther Next Prediction

Fln status: Complete

Fln database: coniferopsida.fasta

Fln subject: A9NNN7

Fln msg: Separated hits, possible frame ERROR between 449 and 529,

Fln protein: MSDAPEYRCFVGGLSWSTSDRTLEDAFHKFGHLIEAKVVVDRDTGRSRGFGFVTFDDKKSMEDAIDSMHGMSLDGRSITVDRARPKxxxxxxxxxxxxxxxxxxxxxxxxxxxxNSECFKCGQRGHFARECPNGDGYRGVEVIDMEAEVIVMEVVVGVVNMVLIAMVVVVIGMEDAVGMEEAVVVKMIATIVTVLVHMTVQVVAGVLMMIVIEECGCFGGCDASVKKF*

Protein Length: 230

Fln nts: ACATGATTTCATTTCATTTCATTTGAGAGAGGCGTAGGGTTAGAAGTGATCGAGGTTTTCATTGCGGAGTAGCCACAGAAGCCTGCTGGGCAAGCATTTGCAGGGCAAGTTTCTTCTGTAACAGCGGTGTTTCGAGATCGAATCTGAGTGCTAAAGCTGAGATTAGGGTTTCTGAAGAAATTTCAGCC_-_ATGTCGGACGCTCCGGAATATCGCTGCTTCGTTGGAGGCCTCTCGTGGAGCACATCTGACAGGACTTTGGAAGATGCTTTTCACAAGTTTGGTCATCTCATTGAGGCAAAGGTTGTCGTTGACAGGGATACTGGTCGTTCCCGAGGTTTTGGGTTTGTCACATTTGATGACAAGAAGTCCATGGAAGATGCCATAGATTCCATGCATGGGATGAGTCTTGATGGCCGTTCTATAACCGTTGACAGAGCTCGGCCAAAGAGxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxCAATTCAGAGTGCTTTAAATGTGGTCAACGTGGTCATTTTGCCAGGGAATGCCCTAATGGAGATGGATATCGTGGGGTGGAGGTGATAGATATGGAAGCAGAAGTGATCGTTATGGAGGTGGTAGTAGGAGTAGTAAATATGGTTCTGATCGCAATGGTGGTGGTGGTGATCGGTATGGAGGACGCAGTCGGGATGGAGGAAGCCGTAGTGGTAAAGATGATCGCTACAATCGTGACCGTTCTGGTCCATATGACCGTCCAAGTGGTGGCGGGCGTTCTTATGATGATCGTGATTGAGGAATGTGGTTGTTTTGGTGGCTGTGATGCCTCAGTAAAGAAATTTTGA___AGCTGTGTTGAATATGAAAAGTGGTATAGGGATCACTGTGAAATTCACGTATCACTGGCCAAGTGTTTCTGTTGTCTATGACATTGTGTAATTGCTTTAGTAATTGTACACACTTGAATGCCAGGATTAGGCTGAACCTTGGGATATTTTATTTTCTATCGTTTCAAGATTCTTCTAAGTTGGAATGTTTGAGAGGCACTGTGCTACTTTCATTGTTTTACAGTAGTTTTTTAGATTCATTGGCTTTCTTGAGTTGGAATGTTATGGACAACGATGAGAAACTATGTTTTGAAGGTAATGGTCATGGCCTAGTGGAGTAAAGTTATTTCTGAATATTTGATATGATTCTTCAGCCTGAAGATGTGTTCTTACGAGGATGTGTGCTGAGCCTAGTGACAAGTTATCGAGGAAAAAATTTACAATTTAGTGGAAGCCCCTTAGTATTGAGAATGATTGCTTTCTATCATTGGAATGGAGCTTTTACTACTCCTACATT

Fln Alignment:

Contig7160___MSDAPEYRCFVGGLSWSTSDRTLEDAFHKFGHLIEAKVVVDRDTGRSRGFGFVTFDDKKSMEDAIDSMHGMSLDGRSITVDRARPKSxxxxxxxxxxxxxxxxxxxxxxxxxxxNSECFKCGQRGHFARECPNGDGYRG
A9NNN7_________________MSDAPEYRCFVGGLSWSTSDRTLEDAFHKFGHLIEAKVVVDRDTGRSRGFGFVTFDDKKSMEDAIDSMHGMSLDGRSITVDRARPKSxxxxxxxxxxxxxxxxxxxxxxxxxxxSSECFKCGQRGHFARECPNGDGYRG

SNPs (tot: 39)

Position	A %	C %	G %	T %	Probability
337	75	25			0.996473
339		75		25	0.996473
340			75	25	0.996473
362			80	20	0.995493
441			80	20	0.995493
447		20	80		0.995493
449	20			80	0.995493
451		80		20	0.995493
456	80	20			0.995493
457	20			80	0.995493
458	20			80	0.995493
459	20			80	0.995493
461	80	20			0.995493
464	20		80		0.995493
465	20			80	0.995493
466		25	75		0.996473
469		75		25	0.996473
541	33	66			0.997452
542	66			33	0.997452
573	33	66			0.997452
575	33	66			0.997452
576			66	33	0.997452
577		66		33	0.997452
721		88		11	0.923564
787	14	85			0.993533
805	16		83		0.994512
808	83			16	0.994512
809	83			16	0.994512
839	20			80	0.995493
840		80		20	0.995493
847	25		75		0.996473
849	33	66			0.997452
850			66	33	0.997452
851		66		33	0.997452
1303		20	80		0.995493
1304		20	80		0.995493
1306			20	80	0.995493
1371	33			66	0.997452
1372		66	33		0.997452

SSRs (tot: 2)

Start position	End position	Sequence	Length
674	687	CAC CAC CAC CAC CA	14
1346	1364	AAATG AAATG AAATG AAAT	19

Back

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