SustainPineDB

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Assembly info
Unigenes
SNPs
SSRs
Descriptions
GOs
ECs
KEGGs
InterPros
miRNAs

Assembly Name: SustainPine v3.0

UniGene Name: sp_v3.0_unigene106519

Length: 242 nt

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

UniGene Fasta (sense)

>sp_v3.0_unigene106519
AGGGTCCCAAGTATGTGAAGACGAGGGAGGAGATTCTGGAGAGCCTCTTACGAGGGAGGAAGTCAGGCATCTCGTCGACAGCAGTTGCCACACCAACCGTCAGCTTAATATTGGTAGGGATGGTTTAACTCACAATATGTTGGAGAATATTCATCATCATTGGAAACGGAGGCGTGTTTGTAAGATAAAGTGCAAAGGGGTTGCAACAGTTGATATGGATAATGTTTGCCATCAACTACAGG

Ace file of the UniGene sp_v3.0_unigene106519 (antisense)

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

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Annotations

Source	Descriptions	Term	Type	e value	Identity
AutoFact	CRS2-associated factor 1, chloroplastic precursor [Zea mays] sp\|Q84N49.1\|CAF1P_MAIZE RecName: Full=CRS2-associated factor 1, chloroplastic; AltName: Full=Chloroplastic group IIA intron splicing facilitator CRS2-associated factor 1; Flags: Precursor gb\|AAP	-	-	4.0e-26	76%
FL-Next	sp=CRS2-associated factor 1, chloroplastic; Zea mays (Maize).	-	-	0.0	76%
Sma3	Chloroplastic group IIA intron splicing facilitator CRS2-associated factor 2	-	-	7.939e-13	-

Source	Gene names
Sma3	At1g23400; At2g20020; CAF1; CAF2; F26F24.27; F28C11.4; GSVIVT00002735001; GSVIVT00011160001; GSVIVT00016688001; GSVIVT00026315001; LOC_Os01g21990; LOC_Os01g31110; LOC_Os08g07790; OJ1126_G08.1; OJ1134_B10.1; OSJNBa0011P19.4; OSJNBa0029L04.25; OSJNBa0054L03

Source	GOs	Term	Type	Identity
Sma3	mitochondrion	GO:0005739	Cellular Component	-
Sma3	chloroplast	GO:0009507	Cellular Component	-
Sma3	ribonucleoprotein complex	GO:0030529	Cellular Component	-
Sma3	RNA binding	GO:0003723	Molecular Function	-
Sma3		GO:0031202	Molecular Function	-
Sma3	Group II intron splicing	GO:0000373	Biological Process	-
Sma3	mRNA processing	GO:0006397	Biological Process	-
Sma3	RNA splicing	GO:0008380	Biological Process	-

Source	InterPros	Term	Type	e value	Identity
Sma3	RNA-binding, CRM domain	IPR001890	-	0.0	-
Sma3	Chaperonin TCP-1, conserved site	IPR002194	-	0.0	-

Source	Species	ID	Description	e value	Identity
ATG	Arabidoptis thaliana	AT2G20020.1	CAF1, ATCAF1 RNA-binding CRS1 / YhbY (CRM) domain-containing protein chr2:8644464-8647090 FORWARD LENGTH=701	3.0e-31	79%
RefSeq	Arabidopsis thaliana	NP_565462.1	CRS2-associated factor 1 [Arabidopsis thaliana]	4.0e-31	79%
RefSeq	Populus trichocarpa	XP_002332503.1	predicted protein [Populus trichocarpa]	3.0e-31	75%

Full-Lengther Next Prediction

Fln status: Internal

Fln database: sp_plants

Fln subject: Q84N49

Fln msg: Distance to subject end: 425 aas, your sequence is shorter than subject: 80 - 674

Fln protein: GSQVCEDEGGDSGEPLTREEVRHLVDSSCHTNRQLNIGRDGLTHNMLENIHHHWKRRRVCKIKCKGVATVDMDNVCHQLQ

Protein Length: 81

Fln nts: AGGGTCCCAAGTATGTGAAGACGAGGGAGGAGATTCTGGAGAGCCTCTTACGAGGGAGGAAGTCAGGCATCTCGTCGACAGCAGTTGCCACACCAACCGTCAGCTTAATATTGGTAGGGATGGTTTAACTCACAATATGTTGGAGAATATTCATCATCATTGGAAACGGAGGCGTGTTTGTAAGATAAAGTGCAAAGGGGTTGCAACAGTTGATATGGATAATGTTTGCCATCAACTACAGG

Fln Alignment:

AllPine_a_c38380___GEPLTREEVRHLVDSSCHTNRQLNIGRDGLTHNMLENIHHHWKRRRVCKIKCKGVATVDMDNVCHQLQ
Q84N49________________GEPLTKEEVSELVKGSLKSKRQLNMGRDGLTHNMLENIHSHWKRKRVCKIKCKGVCTIDMDNICHQLE

SNPs (tot: 1)

Position	A %	C %	G %	T %	Probability
13			66	33	0.997452

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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