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_unigene104452

Length: 233 nt

UniGene Fasta

>sp_v3.0_unigene104452
GTTAAGCGAGAGATATGTGCTGTGATTACAAAAGGGACAATGACAGAGGGTGGGATGCTAGCTACATGTCCAGATGCTTCTTACTTGCTTGCAATAACTGAAAGAAGCACAGATTCTGGAAATGATAATCACACTGCCTGTGTTATTGGAATCTGTGTTGCAGATGCCTCAACAAATAGATTCATACTGGGTCAGTTTTCAGATGATTCAGCAAGGAGTCGTTTATGTTCAGT

Ace file of the UniGene sp_v3.0_unigene104452

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Annotations

Source	Descriptions	Term	Type	e value	Identity
AutoFact	ATP binding protein, putative n=1 Tax=Ricinus communis RepID=B9RNF5_RICCO	-	-	3.0e-16	59%
FL-Next	sp=DNA mismatch repair protein MSH6; Arabidopsis thaliana (Mouse-ear cress).	-	-	0.0	51%

Source	Gene names
Sma3	GSVIVT00028101001; MSH6; POPTRDRAFT_572625; POPTRDRAFT_766699; POPTRDRAFT_789980; RCOM_1347370; VITISV_032225;

Source	GOs	Term	Type	Identity
Sma3	ATP binding	GO:0005524	Molecular Function	-
Sma3	mismatched DNA binding	GO:0030983	Molecular Function	-
Sma3	mismatch repair	GO:0006298	Biological Process	-

Source	InterPros	Term	Type	Identity
Sma3	DNA mismatch repair protein MutS, C-terminal	IPR000432	-	-
Sma3	DNA mismatch repair protein MutS-like, N-terminal	IPR007695	-	-
Sma3	DNA mismatch repair protein MutS, core	IPR007696	-	-
Sma3	DNA mismatch repair protein MutS, connector	IPR007860	-	-
Sma3	DNA mismatch repair protein MutS, clamp	IPR007861	-	-
Sma3	DNA mismatch repair protein MutS-homologue MSH6	IPR015536	-	-
Sma3	DNA mismatch repair protein MutS, N-terminal	IPR016151	-	-
Sma3	DNA mismatch repair protein Msh6	IPR017261	-	-

Source	Species	ID	Description	e value	Identity
ATG	Arabidoptis thaliana	AT4G02070.1	MSH6, MSH6-1, ATMSH6 MUTS homolog 6 chr4:906079-912930 FORWARD LENGTH=1324	2.0e-17	51%
RefSeq	Arabidopsis thaliana	NP_001190656.1	DNA mismatch repair protein Msh6-1 [Arabidopsis thaliana]	3.0e-17	51%
RefSeq	Populus trichocarpa	XP_002333974.1	predicted protein [Populus trichocarpa]	5.0e-21	57%

Full-Lengther Next Prediction

Fln status: Internal

Fln database: sp_plants

Fln subject: O04716

Fln msg: Distance to subject end: 769 aas, your sequence is shorter than subject: 77 - 1324

Fln protein: VKREICAVITKGTMTEGGMLATCPDASYLLAITERSTDSGNDNHTACVIGICVADASTNRFILGQFSDDSARSRLCS

Protein Length: 78

Fln nts: GTTAAGCGAGAGATATGTGCTGTGATTACAAAAGGGACAATGACAGAGGGTGGGATGCTAGCTACATGTCCAGATGCTTCTTACTTGCTTGCAATAACTGAAAGAAGCACAGATTCTGGAAATGATAATCACACTGCCTGTGTTATTGGAATCTGTGTTGCAGATGCCTCAACAAATAGATTCATACTGGGTCAGTTTTCAGATGATTCAGCAAGGAGTCGTTTATGTTCAGT

Fln Alignment:

AllPine_a_c35417___VKREICAVITKGTMTEGGMLATCPDASYLLAITE--RSTDSGNDNHTACVIGICVADASTNRFILGQFSDDSARSRL
O04716________________VKREVCAVVTKGTLTDGEMLLTNPDASYLMALTEGGESLTNPTAEHN---FGVCLVDVATQKIILGQFKDDQDCSAL

SNPs (tot: 5)

Position	A %	C %	G %	T %	Probability
74	25		75		0.996473
104	75		25		0.996481
178	66		33		0.997452
179			33	66	0.997452
180	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