SustainPineDB

Assembly Name: uagpf v2.0

UniGene Name: uagpf_v2_unigene1894

Length: 996 nt

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

UniGene Fasta (sense)

Ace file of the UniGene uagpf_v2_unigene1894 (antisense)

Annotations

Parent Assembly	Parent UniGene	Reads (related/total)
SustainPine v2.0	sp_v2.0_unigene31998	7/13
SustainPine v2.0	sp_v2.0_unigene37812	4/13

Source	Descriptions	Term	Type	e value	Identity
AutoFact	Copia-type polyprotein, putative n=1 Tax=Arabidopsis thaliana RepID=Q9C536_ARATH	-	-	9.80909e-45	50%
FL-Next	tr=Putative uncharacterized protein; Picea sitchensis (Sitka spruce) (Pinus sitchensis).	-	-	0.0	43%
Blast2go	copia-type polyprotein	-	-	0.0	62%

Source	InterPros	Term	Type	Identity
Sma3	Toll/interleukin-1 receptor homology (TIR) domain	IPR000157	-	-
Sma3	Peptidase, cysteine peptidase active site	IPR000169	-	-
Sma3	Peptidase S8/S53, subtilisin/kexin/sedolisin	IPR000209	-	-
Sma3	Ionotropic glutamate receptor	IPR001320	-	-
Sma3	Integrase, catalytic core	IPR001584	-	-
Sma3	Leucine-rich repeat	IPR001611	-	-
Sma3	Pleckstrin homology domain	IPR001849	-	-
Sma3	Zinc finger, CCHC-type	IPR001878	-	-
Sma3	Haem peroxidase, plant/fungal/bacterial	IPR002016	-	-
Sma3	NB-ARC	IPR002182	-	-
Sma3	Short-chain dehydrogenase/reductase SDR	IPR002198	-	-
Sma3		IPR010256	-	-
Sma3	Leucine-rich repeat 3	IPR011713	-	-
Sma3		IPR013084	-	-
Sma3	Reverse transcriptase, RNA-dependent DNA polymerase	IPR013103	-	-
Sma3	Leucine-rich repeat-containing N-terminal, type 2	IPR013210	-	-
Sma3	Protein kinase, ATP binding site	IPR017441	-	-
Sma3	Asp/Glu racemase, active site	IPR018187	-	-

Full-Lengther Next Prediction

Fln status: C-terminus

Fln database: coniferopsida.fasta

Fln subject: B8LKX7

Fln msg: your sequence is shorter than subject: 325 - 407

Fln protein: RRDLGCHSLWHRRLGHLHHGALKILQQITTGLPKGTLA*SDQCKGCTLGKFVKATFHEKDSRATPILERIHTNVCGPFSVASTAKHRYYVIFVDDFSRKCWIFFMQKKSETYSKFCEFKALVEKESGKKVKALRSDNGGEYISDEFKDFCKAEGIRRELIAPHNPQQNGVVERKNRTIVGAARAMLHDQGLPLHLWAEACNTTVYVQNRCPHKILGMSTPEEAYSGKRPDISHLRIFGSPVYMHVMKDSRKKLEPTTEVGIFVGYTDTPHNYRVYLPDSRKTIVRRNIKFQEEKAMKCSLEREPHLHADEELLVPKNELQDVDK*

Protein Length: 326

Fln nts: CGTCGTGACCTTGGCTGTCACTCATTGTGGCATAGGAGATTGGGTCACCTTCACCATGGAGCCTTGAAGATACTGCAACAGATCACTACAGGGCTTCCTAAAGGCACTCTTGCATAGTCAGATCAGTGCAAGGGGTGTACTTTGGGGAAGTTTGTGAAAGCCACCTTTCACGAGAAGGATAGTCGTGCCACGCCGATCCTTGAGAGAATTCACACAAACGTGTGTGGACCTTTCTCAGTTGCTTCGACAGCAAAACACAGGTATTATGTGATTTTTGTTGATGATTTCTCTCGTAAGTGTTGGATCTTCTTCATGCAGAAGAAGAGTGAGACATATTCAAAGTTCTGTGAATTCAAAGCACTGGTCGAGAAGGAGTCGGGGAAGAAGGTGAAGGCTCTTAGGAGCGATAATGGTGGTGAATACATCTCGGACGAGTTCAAGGATTTCTGCAAGGCAGAAGGGATTCGTAGAGAGCTCATAGCTCCCCATAACCCACAGCAGAACGGGGTTGTTGAGCGGAAGAATAGAACGATCGTGGGTGCTGCACGGGCGATGTTGCATGATCAGGGCCTACCCCTTCACTTGTGGGCGGAGGCATGCAATACTACAGTATATGTGCAGAACCGTTGTCCTCACAAGATACTTGGCATGAGTACACCCGAGGAGGCTTATTCTGGTAAGAGGCCTGATATTTCCCATTTGAGGATTTTTGGTTCTCCTGTTTACATGCATGTGATGAAGGATTCCAGGAAGAAGCTGGAGCCAACCACAGAGGTTGGGATATTTGTGGGGTACACTGATACGCCCCACAACTATCGTGTATATTTACCAGACAGTCGCAAGACTATTGTGCGACGAAATATCAAATTTCAGGAGGAGAAAGCCATGAAGTGTTCGCTTGAGAGGGAGCCACACTTGCATGCAGATGAGGAGCTACTAGTTCCTAAGAATGAGCTTCAGGATGTGGATAAGTGA___GTGACAGCTAAGGTCACGACG

Fln Alignment:

Contig1894___LWXXXXXXXXXGALKILQ--QITTGLPKGTLA*SDQCKGCTLGKFVKATFHE-KDSRATPILERIHTNVCGPFSVASTAKHRYYVIFVDDFSRKCWIFFMQKKSETYSKFCEFKALVEKESGKKVKALRSDNGGEYISDEFKDFCKAEGIRRELIAPHNPQQNGVVERKNRTIVGAARAMLHDQGLPLHLWAEACNTTVYVQNRCPHKILGMSTPEEAYSGKRPDISHLRIFGSPVYMHVMKDSRKKLEPTTEVGIFVGYTDTPHNYRVYLPDSRKTIVRRNIKFQE
B8LKX7_______________LWHERMGHLNYKSLSLMKRFEMVYGLPKISQS-QGVCEGCMSGKQHMEKFIKGKSWRAKTPLHLVHSDLMGPLEHPSISGSRYVLTFIDDYSRRIWVYFLKNKDEVFEKFKEFKAFVEKQSGKSIKILRTDNGKEYVNKEFDHYCKYNGIKREHTVPYTPQQNGVAERKNRTLMEMARCMLHARNMDPKFWAEAINTATYIVNRTPTIAVKHKTPEEAWSRRKPTVSHFKVFGCDVYVHIPDEKRKKLDRKSHKCIMVGYSETSKAYRVYDPEKNEILIRRDVIFDE

SNPs (tot: 84)

Position	A %	C %	G %	T %	Probability
229		33		66	0.997452
233		33		66	0.997452
234	33		66		0.997452
239		66		33	0.997452
242	33	66			0.997452
253	66	33			0.997452
261	75		25		0.996473
277		75		25	0.996473
279	50		50		1.0
288	75	25			0.996473
291	75		25		0.996473
302	25		75		0.996473
303	50		50		1.0
307			20	80	0.995493
311	80		20		0.995493
312	20		80		0.995493
315		80		20	0.995493
322		80		20	0.995493
326	80		20		0.995493
339	20		80		0.995493
355			80	20	0.995493
359		80		20	0.995493
360		20		80	0.995493
362	20		80		0.995493
369	25	50		25	0.995533
372		75		25	0.996473
373	25		75		0.996473
378		33		66	0.997452
386	33			66	0.997452
390	33		66		0.997452
391		33		66	0.997452
392	66			33	0.997452
403	25	75			0.996473
404		75		25	0.996473
407		75		25	0.996473
408	25		75		0.996473
409		75		25	0.996473
410		75		25	0.996473
430	16	83			0.994512
440	16	83			0.994512
446		50		50	1.0
448		83		16	0.994512
449		83		16	0.994512
450		66		33	1.0
456	16		83		0.994512
463		83		16	0.994512
466			16	83	0.994512
468	33		66		1.0
473	33		66		1.0
480		80		20	0.995493
486	60		40		1.0
488	60			40	1.0
492		80		20	0.995493
493		40		60	1.0
494	20		80		0.995493
499	20		80		0.995493
500		80		20	0.995493
502	40		60		1.0
506	20		80		0.995493
530	50			50	1.0
541		66		33	0.997452
545	33	66			0.997452
546		33		66	0.997452
554	66		33		0.997452
566	33		66		0.997452
567		33		66	0.997452
569	33	66			0.997452
576	33			66	0.997452
582		66		33	0.997452
586		66		33	0.997452
590	66		33		0.997452
620		80		20	0.995493
622	80			20	0.995493
623		80		20	0.995493
647		20		80	0.995493
662	80		20		0.995493
668		80		20	0.995493
682	20		80		0.995493
698	25		75		0.996473
781		33		66	1.0
805			60	40	1.0
811		80		20	0.995493
812	60		40		1.0
841		25		75	0.996473

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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