SustainPineDB

Assembly Name: SustainPine v3.0

UniGene Name: sp_v3.0_unigene10613

Length: 1512 nt

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

UniGene Fasta (sense)

Ace file of the UniGene sp_v3.0_unigene10613 (antisense)

Annotations

Source	Descriptions	Term	Type	e value	Identity
AutoFact	F-box protein [Arabidopsis thaliana] sp\|Q9M1I1.1\|FB304_ARATH RecName: Full=F-box protein At3g54460 emb\|CAB77566.1\| RING finger-like protein [Arabidopsis thaliana] gb\|AAM13867.1\| unknown protein [Arabidopsis thaliana] gb\|AAO42330.1\| unknown protein [Arabid	-	-	0.0	60%
FL-Next	tr=Putative uncharacterized protein; Picea sitchensis (Sitka spruce) (Pinus sitchensis).	-	-	0.0	23%

Source	Gene names
Sma3	At3g54455; At3g54460; CHR1501; CHR943; GSVIVT00030933001; Os01g0952200; OsI_05224; OsJ_04781; P0431G06.4; PHYPADRAFT_116197; POPTRDRAFT_800217; RCOM_1452670; T14E10.30; VITISV_032626;

Source	GOs	Term	Type	Identity
Sma3	DNA binding	GO:0003677	Molecular Function	-
Sma3	helicase activity	GO:0004386	Molecular Function	-
Sma3	protein binding	GO:0005515	Molecular Function	-
Sma3	ATP binding	GO:0005524	Molecular Function	-
Sma3	zinc ion binding	GO:0008270	Molecular Function	-

Source	InterPros	Term	Type	Identity
Sma3	SNF2-related	IPR000330	-	-
Sma3	Helicase, C-terminal	IPR001650	-	-
Sma3	F-box domain, cyclin-like	IPR001810	-	-
Sma3	Zinc finger, RING-type	IPR001841	-	-
Sma3	Zinc finger, CW-type	IPR011124	-	-
Sma3	Helicase, superfamily 1/2, ATP-binding domain	IPR014001	-	-
Sma3		IPR014021	-	-
Sma3	Zinc finger, RING-type, conserved site	IPR017907	-	-

Source	Species	ID	Description	Identity
ATG	Arabidoptis thaliana	AT3G54460.1	SNF2 domain-containing protein / helicase domain-containing protein / F-box family protein chr3:20162050-20167186 REVERSE LENGTH=1378	60%
RefSeq	Arabidopsis thaliana	NP_680129.1	F-box protein [Arabidopsis thaliana]	60%
RefSeq	Populus trichocarpa	XP_002303924.1	chromatin remodeling complex subunit [Populus trichocarpa]	66%

Full-Lengther Next Prediction

Fln status: Putative Complete

Fln database: coniferopsida.fasta

Fln subject: D5AD70

Fln msg: query STOP codon too far from subject stop. Distance to subject end: 65 aas, putative chimeric sequence, No stop codon before M and low homology subject, your sequence is shorter than subject: 281 - 377

Fln protein: MQSPEILTRPENPNPKWPVPEDLIELQPSYNQDNWDPDWHATTSSKVAYLVEKLKVLRDANREMGYCLDTEDLPNDVEVVPLSGETSYNSAAGKLGCKAPEISDNPHRKLPEKAIIFSQFLEHIHVVERQLTGAGIKYTGMYSPMHSSNKMKSLMTFQHDTDCMALIMDGSAALGLDLSFVTYVFLMEPIWDRSMEEQVISRAHRMGATRPIHVETLAMRGTIEEQMLEYLHDPVEHRRAVKEDIHTLNQEGQKFQRTLHDFAESNYLARLSFVRTKVVG*

Protein Length: 282

Fln nts: GCCGGCTGCCCATAATAACACCTTGTCGGCATTTGTTATGTCTCGACTGCGTTGCTCTTGACAGTGAAAAGTGCACCTTGCCTGGTTGTGGTTATGCCTACAAG_-_ATGCAGAGTCCAGAAATATTGACTCGTCCTGAAAACCCCAATCCAAAATGGCCTGTTCCTGAAGACCTTATTGAGTTACAACCATCATATAATCAGGATAACTGGGATCCTGATTGGCATGCAACAACCAGCAGCAAAGTTGCTTATTTAGTTGAAAAGTTAAAGGTATTGCGTGATGCAAACAGGGAGATGGGCTACTGTTTAGATACTGAGGATCTTCCGAATGACGTAGAAGTGGTTCCTTTATCTGGTGAAACAAGCTACAATTCTGCAGCTGGAAAGCTTGGATGCAAAGCTCCTGAAATCTCAGATAATCCCCATAGGAAATTGCCAGAGAAAGCAATAATTTTTTCTCAATTCCTTGAGCACATACATGTGGTGGAACGACAGTTGACTGGTGCAGGTATTAAATATACTGGGATGTATAGTCCAATGCATTCTAGTAATAAGATGAAGTCACTGATGACATTCCAACATGATACAGACTGCATGGCTCTAATAATGGACGGAAGTGCTGCTTTAGGACTGGATCTGAGCTTTGTGACCTATGTTTTCTTGATGGAACCAATCTGGGATAGAAGTATGGAGGAACAAGTGATCAGTCGGGCACATCGGATGGGGGCTACTCGCCCAATTCATGTAGAGACATTGGCTATGCGGGGTACAATTGAAGAACAGATGCTGGAATATCTACATGATCCAGTAGAGCACAGGAGAGCAGTCAAGGAGGATATTCATACCTTAAATCAAGAAGGACAGAAATTCCAGCGAACATTGCATGATTTTGCAGAGAGTAACTATCTGGCTCGGCTTAGCTTTGTGAGAACAAAAGTTGTAGGATGAAGGTGTGTCGGACTGGGTACTGGACAAGTTGGTTAGTAGCAGTCGGGGAAGAAGCTTTTGGAGAAGTATGTTTCTAAGCTGGAATTTGGAGTAGCTTTCAGATGGGAATTTTCTGTTATGTGCAACAACTTAGGAGAAAACTAAAGACTAATACTAACCATAGTGTAATCAGCCATTGTCATTAGGGCCCTTCAAACCAGGAGAACTGCTGATGCTTAATTGGGGTTTCAGTAAATGTGCTGGAACTACTGAAATGGTACTTCAAATTTGCAAAGTTGGATGGTTTGTATTCAGCATGCAAAGTGATGGCCATGTTTCGAGTTGAGTTATTCGAGATATTAAACAAGGAAGATTATGTATTTTTCTTTCAATTGCTCTGTATATTATTTGGCATCATGAACATGATTTTGTTGTATTATAGGTCCTGAAATTTTCTGTATCGGGACTCCAGGACTCTATTCTCAGCAACCTCATGATTATTCTTGGAAAGTTAATGGAAAGCTATTCATTCATTAGAAGTTTTTTCGAATTGGAATTTACATTAGAATGGAGCTTATCCATGTTC

Fln Alignment:

Contig10613___KAIIFSQFLEHIHVVERQLTGAGIKYTGMYSPMHSSNKMKSLMTFQHDTDCMALIMDGSAA--LGLDLSFVTYVFLMEPIWDRSMEEQVISRAHRMGATRPIHVETLAMRGTIEEQMLEYLHDPVEHRRAVKE
D5AD70_______________KVLIFSQWTRVLDLLDYCLSESGHDMCRIDGSVKLHDRQRQIKDFNDPNSNLHIFLLSTRAGGLGINLTAADTCIIYDSDWNPQMDLQAMDRCHRIGQTKPVHVYRLCTSHSAECRMLKVAFDKLKLERVVIE

SNPs (tot: 8)

Position	A %	C %	G %	T %	Probability
116		44		55	1.0
369	42		57		1.0
573	42		57		1.0
662		22		77	0.999999
704		16		83	0.994512
709		20		60	0.99255
1398	25			75	0.996473
1402			75	25	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