SustainPineDB

All assemblies
Assembly info
Unigenes
SNPs
SSRs
Descriptions
GOs
ECs
KEGGs
InterPros
miRNAs

Assembly Name: SustainPine v3.0

UniGene Name: sp_v3.0_unigene126154

Length: 235 nt

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

UniGene Fasta (sense)

>sp_v3.0_unigene126154
GGCTGTATGTCTTGATCATCTAATCACACGCTGCAATGGTTTGGACTCCAATGTTGACTGGTCAAGCATACTTTCGCTGGGTGAACAGCAACGACTCGCATTTGCTCGGTTGCTACTTGCACAACCAGAACTTGCTCTGTTGGATGAGTCTACAAGTGCGCTAGATGAAGCTAACGAGGTTCGACAGTACAAAGAAATTGCAGCTGCGGGAATAACATATATAAGCGTCGGGCAT

Ace file of the UniGene sp_v3.0_unigene126154 (antisense)

If you push the Download ace button, you will download an ace file of this UniGene.

To watch this ACE file you will need an ACE viewer program as Tablet:

Go to the Tablet ACE viewer Web

Annotations

Source	Descriptions	Term	Type	e value	Identity
AutoFact	ABC transporter D family member 2, chloroplastic n=2 Tax=Arabidopsis RepID=AB2D_ARATH	-	-	7.0e-13	53%
FL-Next	sp=ABC transporter D family member 2, chloroplastic; Arabidopsis thaliana (Mouse-ear cress).	-	-	0.0	74%
Sma3	ATP-binding cassette superfamily	-	-	2.192e-07	-

Source	Gene names
Sma3	At1g54350; CHLREDRAFT_99858; F20D21.17; GSVIVT00002136001; MICPUCDRAFT_1449; MICPUCDRAFT_15978; MICPUN_66343; MtrDRAFT_AC155884g14v2; Os01g0218700; OsI_00916; OsJ_00897; P0489G09.13; P0665D10.28; PHYPADRAFT_130679; PHYPADRAFT_134601; PHYPADRAFT_144681; PH

Source	GOs	Term	Type	Identity
Sma3	chloroplast	GO:0009507	Cellular Component	-
Sma3	membrane	GO:0016020	Cellular Component	-
Sma3	integral to membrane	GO:0016021	Cellular Component	-
Sma3	nucleic acid binding	GO:0003676	Molecular Function	-
Sma3	ATP binding	GO:0005524	Molecular Function	-
Sma3	zinc ion binding	GO:0008270	Molecular Function	-
Sma3	ATPase activity	GO:0016887	Molecular Function	-
Sma3	ATPase activity, coupled to transmembrane movement of substances	GO:0042626	Molecular Function	-
Sma3	transport	GO:0006810	Biological Process	-

Source	InterPros	Term	Type	Identity
Sma3	Zinc finger, CCCH-type	IPR000571	-	-
Sma3	SET domain	IPR001214	-	-
Sma3	Zinc finger, PHD-type	IPR001965	-	-
Sma3	ABC transporter-like	IPR003439	-	-
Sma3	AAA+ ATPase domain	IPR003593	-	-
Sma3	Sugar transporter, conserved site	IPR005829	-	-
Sma3	ABC transporter, N-terminal	IPR010509	-	-
Sma3	ABC transporter, conserved site	IPR017871	-	-
Sma3	ABC transporter, integral membrane type 1	IPR017940	-	-

Source	Species	ID	Description	e value	Identity
ATG	Arabidoptis thaliana	AT1G54350.1	ABC transporter family protein chr1:20286917-20290245 FORWARD LENGTH=706	2.0e-17	74%
RefSeq	Arabidopsis thaliana	NP_175837.2	ABC transporter D family member 2 [Arabidopsis thaliana]	3.0e-17	74%
RefSeq	Populus trichocarpa	XP_002315097.1	peroxisomal membrane ABC transporter family, PMP family, partial [Populus trichocarpa]	1.0e-15	67%

Full-Lengther Next Prediction

Fln status: Internal

Fln database: sp_plants

Fln subject: Q6NLC1

Fln msg: Distance to subject end: 50 aas, your sequence is shorter than subject: 78 - 706

Fln protein: AVCLDHLITRCNGLDSNVDWSSILSLGEQQRLAFARLLLAQPELALLDESTSALDEANEVRQYKEIAAAGITYISVGH

Protein Length: 79

Fln nts: GGCTGTATGTCTTGATCATCTAATCACACGCTGCAATGGTTTGGACTCCAATGTTGACTGGTCAAGCATACTTTCGCTGGGTGAACAGCAACGACTCGCATTTGCTCGGTTGCTACTTGCACAACCAGAACTTGCTCTGTTGGATGAGTCTACAAGTGCGCTAGATGAAGCTAACGAGGTTCGACAGTACAAAGAAATTGCAGCTGCGGGAATAACATATATAAGCGTCGGGCAT

Fln Alignment:

AllPine_a_c63343___VCLDHLITRCNGLDSNVDWSSILSLGEXXXXXXXXXXXXXXXXXXLDESTSALDEANEVRQYKEIAAAGITYISVGH
Q6NLC1________________VCLGHIADRFGGLDSIHEWSSVLSLGEQQRLAFARLLLSQPKLALLDESTSALDEANEAFLYQQIQSAGITYISIGH

SNPs (tot: 4)

Position	A %	C %	G %	T %	Probability
79	66		33		0.997453
120			66	33	0.997464
159	33		66		0.997452
168		33		66	0.997452

Back

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