SustainPineDB

Assembly Name: SustainPine v3.0

UniGene Name: sp_v3.0_unigene27500

Length: 1076 nt

UniGene Fasta

Ace file of the UniGene sp_v3.0_unigene27500

Annotations

Source	Descriptions	Term	Type	e value	Identity
AutoFact	RecName: Full=Homeobox-leucine zipper protein HOX11; AltName: Full=HD-ZIP protein HOX11; AltName: Full=Homeodomain transcription factor HOX11; AltName: Full=OsHox11 dbj\|BAD38229.1\| putative homeodomain leucine zipper protein CPHB-3 [Oryza sativa Japonica	-	-	0.0	50%
FL-Next	tr=Putative uncharacterized protein; Picea sitchensis (Sitka spruce) (Pinus sitchensis).	-	-	0.0	52%
Sma3	Homeobox protein, putative	-	-	7.534e-17	-

Source	Gene names
Sma3	24.t00025; 25.t00036; 31.t00070; 40.t00018; 57h21.15; ATHB-17; ATHB-2; ATHB-4; ATHB-X; ATHB18; At1g70920; At2g01430; At2g22800; At2g44910; At3g60390; At4g16780; At4g17460; At4g37790; At5g06710; At5g47370; CPHB-3; Crhb10; Crhb2; Crhb3; Crhb9; EcHB1; F2I9.5

Source	GOs	Term	Type	Identity
Sma3	nucleus	GO:0005634	Cellular Component	-
Sma3	sequence-specific DNA binding transcription factor activity	GO:0003700	Molecular Function	-
Sma3	transcription activator activity	GO:0016563	Molecular Function	-
Sma3	transcription repressor activity	GO:0016564	Molecular Function	-
Sma3	sequence-specific DNA binding	GO:0043565	Molecular Function	-
Sma3	regulation of transcription, DNA-dependent	GO:0006355	Biological Process	-
Sma3	shade avoidance	GO:0009641	Biological Process	-
Sma3	auxin mediated signaling pathway	GO:0009734	Biological Process	-
Sma3	response to cytokinin stimulus	GO:0009735	Biological Process	-
Sma3	unidimensional cell growth	GO:0009826	Biological Process	-
Sma3	response to far red light	GO:0010218	Biological Process	-

Source	InterPros	Term	Type	Identity
Sma3	Helix-turn-helix motif	IPR000047	-	-
Sma3	Major intrinsic protein	IPR000425	-	-
Sma3	Homeodomain	IPR001356	-	-
Sma3	Leucine zipper, homeobox-associated	IPR003106	-	-
Sma3	HD-ZIP protein, N-terminal	IPR006712	-	-
Sma3		IPR012287	-	-
Sma3	Homeobox, conserved site	IPR017970	-	-
Sma3	Chaperonin Cpn60, conserved site	IPR018370	-	-

Source	Species	ID	Description	Identity
ATG	Arabidoptis thaliana	AT5G47370.1	HAT2 Homeobox-leucine zipper protein 4 (HB-4) / HD-ZIP protein chr5:19216482-19217647 REVERSE LENGTH=283	52%
RefSeq	Arabidopsis thaliana	NP_199548.1	homeobox-leucine zipper protein HAT2 [Arabidopsis thaliana]	52%
RefSeq	Populus trichocarpa	XP_002322729.1	predicted protein [Populus trichocarpa]	59%

Full-Lengther Next Prediction

Fln status: Complete

Fln database: coniferopsida.fasta

Fln subject: A9NKN4

Fln msg: your sequence is shorter than subject: 269 - 309

Fln protein: MEFWQRECNTRLGLGRDLGAEDEAEKHSLNHVPVQLDLLPLRPVPLNSIAPPGSGQRAIDVNQVPNLCDQALLSSPNSTLSMSMFQLDPYRYNNTNASKHDTLEVVAERASDEEEGIASTCRKKLRLSKDQSALLEESFRQHSTLNPKQKLDLAQRLNLSLRQVEVWFQNRRARTKLKQTEVDCEFLKRCCDTLTEENRKLKKELYELRALKVESPFYMQLPAATLTMCPSCERIVTTDHNVNTPKSQLALISSNPAARKLTQPSARP*

Protein Length: 270

Fln nts: AGGGGTGAAAGGATCAGCCACCCATGGCGTGCTTTCCTTCTTTACTCCTCTGATTTTGTCAGTATACACCTCCACTTCTTCCACATTGCAGCTTCCCAATAAATATACCTATCCCTGCGCCTTCATATATATCCCATCTCTGTGCCTCCGTTCCCTGGCTAAAGCGAGAGCAGCAGGA_-_ATGGAGTTTTGGCAGCGGGAGTGTAACACAAGGCTGGGATTGGGGAGAGATTTGGGTGCAGAAGATGAAGCTGAAAAGCATTCATTAAACCATGTCCCTGTGCAGTTGGATCTGCTACCATTGCGGCCCGTGCCGCTGAATTCCATAGCGCCTCCTGGTTCCGGCCAGAGAGCAATCGACGTAAACCAGGTACCCAACTTGTGCGATCAGGCATTGCTTTCTTCACCCAACAGCACGCTGTCGATGTCAATGTTCCAGCTTGATCCTTACAGATATAACAACACAAATGCCTCCAAGCATGACACCCTTGAGGTGGTGGCTGAGAGAGCCAGCGATGAGGAAGAAGGCATTGCTTCTACCTGCAGGAAAAAGCTTCGCCTTTCAAAGGATCAATCTGCCCTCTTGGAGGAGAGCTTCAGGCAGCACAGCACTCTCAATCCAAAACAAAAGCTGGACTTGGCCCAGAGATTGAACCTCAGCCTCCGCCAAGTTGAAGTATGGTTCCAGAACAGACGGGCAAGGACCAAGCTGAAGCAGACTGAAGTAGACTGTGAATTCTTGAAACGGTGCTGCGATACCCTGACGGAGGAGAACAGAAAGCTGAAGAAAGAGCTGTATGAGCTTCGAGCTTTGAAGGTCGAGTCCCCGTTTTATATGCAGCTTCCTGCTGCCACTCTAACCATGTGCCCTTCTTGCGAGAGGATTGTTACCACAGACCATAATGTAAATACTCCCAAATCTCAGCTCGCCCTTATTTCTTCTAACCCCGCTGCACGTAAATTAACTCAACCATCTGCTCGCCCATGA___CCACATATCACATGTAATTCTCTAGCTGGATACGTCATCCACGAGTTGCTTTGAATATATAAAAGAAAATTGGTTCTTGACAGAAGCTGCA

Fln Alignment:

Contig27500___ECNTRLGLGRDLGA------ED-EAEKHSLNHVPVQLDLLPLRP------VPLNSIAPPGSGQRA-----------IDVNQVPNLC------DQALLSSPNSTLSMSMFQLDPYRYNNTNAS---------KHDTLEVVAERA----SDEEEGIASTCRKKLRLSKDQSALLEESFRQHSTLNPKQKLDLAQRLNLSLRQVEVWFQNRRARTKLKQTEVDCEFLKRCCDTLTEENRKLKKELYELRALKVESPFYMQLPAATLTMCPSCERIVTTDHNVNTP
A9NKN4_______________DCNTGLGLGMSIGLGIGLLREDLHSHRHHVNGPPVQLDLLPLAPGLPSRDLPWGKTSPGTDGERSAGESKATVPRRIDVNKLPASCYYNEDAGTINVSSPNSALSS--FHVDSGGAINAESSCYAMSVKRERDATDELEADRACSRVSDEEADQEGGTRKKLRLSKEQSALLEESFKENSSLNPKQKQALAKRLNLRPRQVEVWFQNRRARTKLKQTEVDCEFLKRCCESLTDENRRLQKELQELRALKLASPLYMQMPAATLTMCPSCERVVPAENSRPPP

SNPs (tot: 13)

Position	A %	C %	G %	T %	Probability
242	25		75		1.0
388	42		57		1.0
609	11	88			0.923564
611		87	12		0.992554
612			12	87	0.992554
613		87	12		0.992554
614	87	12			0.992554
692		83		16	0.994512
693	16		83		0.994512
694			83	16	0.994512
695			83	16	0.994512
696		83	16		0.994512
947			50	50	1.0

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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