Transcript — View — Lotus Base

Overview

Field	Value
Gene ID	LotjaGi2g1v0088000
Transcript ID	LotjaGi2g1v0088000.1
Lotus japonicus genome version	Gifu v1.2
Description	General transcription factor 3C polypeptide 5; TAIR: AT3G49410.1 Transcription factor IIIC, subunit 5; Swiss-Prot: sp\|Q9Y5Q8\|TF3C5_HUMAN General transcription factor 3C polypeptide 5; TrEMBL-Plants: tr\|A0A0B2SC65\|A0A0B2SC65_GLYSO General transcription factor 3C polypeptide 5; Found in the gene: LotjaGi2g1v0088000
Working Lj name	n.a.

Genomic sequence (LjG1.1_chr2:25689939..25693453) extracted from Lotus japonicus Gifu genome v1.2.

AAAAGAGTGAATTGGGAGGAGTACATACCACAAAGCTCAGATCAGTGGGAGCCGCAAATGGTCGTATCTAAAATGTTTGA TGAGCGACCTATATGGTCCAAAAATTCGCTCACTGAACGCCTGCTTGATAAGGGCTTAAGCTTTTCACATGACATGCTCA GAAGGTGACATATGAAAATTCTGCTTATTTGCTTTTTATATTGTGACAATGAATTGCTACAGCTTTGATAATTATGCAGT GGCCTTACATTCTCTCTTGTAGGCTTCTCTCTAGAATCTCTTACTACTTTTCCAGTGGACCATTTCTAAGGTTCTGGATC AAGATAGGATATGATCCACGTAAAGATCCTGATTCACGCATGTAAGACTCATTCCTGATTTCTAAATAATCTCATGAATT TTTATCATACATTTGACTCAAAACTATTTAGCTTCCAAAATAAACAGATTTCTGATGCGTTTTTCAGTTTGGTAACATTG TTGACTACTAATACGCTGAGGTGTCATGTTATCCTTTCATACATTTCAGTTGCACATGCTTCGCATGTATATCATAACAA TATAGGAAGTAGGAAATAGCGTCTGTAATTAGTGTTTTAATTGCTGAGCATGAAGAATTTTGGTTTAGCAGTTATCAGCG AATTGATTATCGAGTGCCAATCCCTTTGCGAAGTTACTGCGATACTTACTCAGCCAACAAGTAAGTCCTTTTCTTTGATT TATCTCAGGCTTTACCAAACGAAACTGTAATTTAGGAGAAACTCCATCCATGTGTATGCATAAGATAGAGGAACCGGAAT ATCAATGTAAAATCATGTAAATAGACATTACACAGGCGGAGTTGATATAACATATCTGTTTATTGTCACTATATCATAAC TATCTTGTCATTGTGTTATTTCCTCATGTGTAAAGGCTATTATTTCATGCAGATTGAAGCATAGATGGGAGGATATATGT GCCTTTCGAGCTTTCCCTTACAAGTTCCAGACATCTTTACAGTTGTTTGAGCTTGTTGATGATTATATTCAATCAGAAAT AAATAAGCCTCCATCACAGGCAACTTGCACCGTAAGATTTTCATGCGGATCTTTGTTTAATATAATAATATATCACATTT ATGACATAAATTTGCTTTACTTTGCTTTTGACATGTTTCATATTTTTCTTATCTCGTGGTATGAAAGGTGATGCATAATT GCTCATTTTTCTTTTTTCTTTAACAAACAAGAACCAACTAAGTGGACAATTTCTTGTATATAATCTTGTTCTGTCGTGAA ATTGTGTGTATATCAAGCTGCTGTAATTTATGTCTCAAGCAATAAAATATCAGAAAATTTGCTTCCTTTTATATTTTGTG CATGAAGCTATTGTAACAAATTCCATTACCTACCTGAGTTGCATCATTCATGCTAACTTTACAGTTTGCAACTGGGTGGT TCTCACAAAATACAATGAATTGTATTAGACAACGTCTAATGGTGAGGTACCTATCAATATTTCCCAAGCCTGGTGCAGAG AATTTACTTAGAGCTGCCACTTCTAGGTTTGAAAAACTGAAGCGGGAATGCATTAGGAATGCCATGAAGCTTGATGGAGA GGAATTCCAGCAAGCCAATCCAGGTTATGTCAACTTTTTTTTCTTTTCAGTTTTTCACAATTTTTTTACGAAGTTCATGG TTCTTAAAATTGATATAGCTTTAGCATATAATAACTGAAGGAACAAATTATTGCCACATCCAAGACCATGATTTAAGAAG AATTAAGAAACAGTCAACTTCCAACCTCTCTTGTTAAGAGCTGAAATTTTAAATCTTTGCTGATTTCATAGACCTGTAAT ACACTTATTGTTCAAAAAATCCCTACATAATACTTATCTTGAGTACTATATGATCTAACGTGGTAAGGGAGAACTCTATA TAGGTTCCTCCGAGCAAGTTTGTTGTCTGTTTTCTCTGAAAAAGTTTTCTAGTCTTTCCTGAAAAGTGTTATTTGTAGCA GAATGGTCATGGTATTACAAAAAAAAAATTAGTCAATTTGTTATATCTAATATGATTATGAACCAAAATGGAAGAACTTT TTGTTCCAGAACCAGAATTTAGTATCTTTTGCTGCTAAAATTTACTATTGCTGGTATGATAGTTGAGCAATAATTGAATA TTTTTATTGTATCTGGAACCCAGGTTTAGAAGAGAATGAGGAACCTGACAATGTTGAAGATGATGAAGAGGGTAATGATA GTGAGGAGGAATGGGAAGAAGAACTTGATCTGGTAATTATTATCTATGTTTTCATATTTTATGCTTTTCTCCGTAGATTG TATTGGCAGTGACTTTTAAATCGGATAGTTTTTAATCTATTATGTTGACTCGTGTAGGCTGGAGATACTGAAGTGCCTCT GCCGTCTGATTCCTGTATCCTTTTCTATTTGTATTCTAAATTTACTATTAAGTTCAAAGATTGAACCCTCTTTATTGCAT GGCACACAAGTTTATATGATGAGGATGGAATAAAGATTCTGAATGCCGTAGTTCAGGGTAACTCGCTACTGCGCTTGAGT AAACATGGTAATGATATGATAACAATCATTCTGAATTCCATTAGTTAAGTCTCCCCTAAGTATATCCTTGAATGACAAAG AGTTGTTGTTAGTCTTTCCTTGTGTTCCGGTACCACACCCTTTGGCGCTTGCACTTTATGCAGTTCCAAACTGTACCCAG TGTGTAAAGATTGATAGTGGTCTTGGCAGGATTAATGGAAAATTATTTTTTGTAGTTTAGAGAATGCTTTTTGTGGCCTC TTAGGTGCAACTCTCGTAAGGTTGCTGCAATGTGACTTTGCGGTCACAGGTTTGAGCTGTGAAATCAGTCTTGCAAAAAT ACAAGGCAAGGCTAGCTACATTGGATCCACAAAGTGGGTTTGGTCCTTCTCTGGACCTCGCTCATAGCGAGAGCTTTATA GCACCAGCTTTGCACTTTTTTAGGTATAACTCAAAACACCAACCTGGTGGTGTTTTGAGTAGAAGTTATAGGTTTAAAGG GTTACTAGTTACATCTTCATCGAAAAATAAAATGTTTTGTTTTCTTACCAAGATGTTCCTTTATACATTACTGTGAGACT GAAATTGGAGATCCTTTCAATAATTGTCTTCTCTATATGCTCAACGCGAAGACAATACTACTCAATGCAGCAATCAAATT GGGATGAATCTTGATTATTCTTCTATCATTTTGATGGCTAAGTCGATTGCTAGGTTTTCTGAAGTAACATTCGAAAGATC TCCTGGCCCTTTTGAATTCCTTTATAATTTTCAGATCTCAACATGGAGAATATTTCAAGGTCCCATTTACAGGAGCTTTT TGATAGCTTTCCATCAAATGAAGTTGGTATTGACAAAGCTCACGAAGATTGCAGTGATGAAGAATATCCCATATACGAGG AAGATAGTGATGACAACTACTCTGATGAATGATTGCTGGCATTCAGGCTTTTCAGACACAGATTTCTTCTTGAAG

Download Genomic Sequence

CDS sequence (LotjaGi2g1v0088000.1) extracted from Lotus japonicus Gifu v1.2 CDS.

ATGGTCGTATCTAAAATGTTTGATGAGCGACCTATATGGTCCAAAAATTCGCTCACTGAACGCCTGCTTGATAAGGGCTT AAGCTTTTCACATGACATGCTCAGAAGGCTTCTCTCTAGAATCTCTTACTACTTTTCCAGTGGACCATTTCTAAGGTTCT GGATCAAGATAGGATATGATCCACGTAAAGATCCTGATTCACGCATTTATCAGCGAATTGATTATCGAGTGCCAATCCCT TTGCGAAGTTACTGCGATACTTACTCAGCCAACAAATTGAAGCATAGATGGGAGGATATATGTGCCTTTCGAGCTTTCCC TTACAAGTTCCAGACATCTTTACAGTTGTTTGAGCTTGTTGATGATTATATTCAATCAGAAATAAATAAGCCTCCATCAC AGGCAACTTGCACCTTTGCAACTGGGTGGTTCTCACAAAATACAATGAATTGTATTAGACAACGTCTAATGGTGAGGTAC CTATCAATATTTCCCAAGCCTGGTGCAGAGAATTTACTTAGAGCTGCCACTTCTAGGTTTGAAAAACTGAAGCGGGAATG CATTAGGAATGCCATGAAGCTTGATGGAGAGGAATTCCAGCAAGCCAATCCAGGTTTAGAAGAGAATGAGGAACCTGACA ATGTTGAAGATGATGAAGAGGGTAATGATAGTGAGGAGGAATGGGAAGAAGAACTTGATCTGGCTGGAGATACTGAAGTG CCTCTGCCGTCTGATTCCTATCTCAACATGGAGAATATTTCAAGGTCCCATTTACAGGAGCTTTTTGATAGCTTTCCATC AAATGAAGTTGGTATTGACAAAGCTCACGAAGATTGCAGTGATGAAGAATATCCCATATACGAGGAAGATAGTGATGACA ACTACTCTGATGAATGA

Download CDS Sequence

Protein sequence (LotjaGi2g1v0088000.1) extracted from Lotus japonicus Gifu v1.2 Proteins.

MVVSKMFDERPIWSKNSLTERLLDKGLSFSHDMLRRLLSRISYYFSSGPFLRFWIKIGYDPRKDPDSRIYQRIDYRVPIP LRSYCDTYSANKLKHRWEDICAFRAFPYKFQTSLQLFELVDDYIQSEINKPPSQATCTFATGWFSQNTMNCIRQRLMVRY LSIFPKPGAENLLRAATSRFEKLKRECIRNAMKLDGEEFQQANPGLEENEEPDNVEDDEEGNDSEEEWEEELDLAGDTEV PLPSDSYLNMENISRSHLQELFDSFPSNEVGIDKAHEDCSDEEYPIYEEDSDDNYSDE

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Domain prediction

Data for domain prediction are obtained with InterProScan, and merged with InterPro data obtained from the EB-eye REST service.

Prediction algorithm	Identifier	Start	End	Length	E-value	InterPro ID
PANTHER	PTHR13230:SF6 View details on PTHR13230:SF6 Search for proteins/transripts with this domain View external data on PTHR13230:SF6	2	294	293	5.9E-88	–
PANTHER	PTHR13230 View details on PTHR13230 Search for proteins/transripts with this domain View external data on PTHR13230	2	294	293	5.9E-88	IPR040454 Show description in modal box View details on IPR040454 Search for proteins/transripts with this domain View on EBI InterPro Service
Pfam	PF09734 View details on PF09734 Search for proteins/transripts with this domain View external data on PF09734	3	76	74	1.6E-26	IPR019136 Show description in modal box View details on IPR019136 Search for proteins/transripts with this domain View on EBI InterPro Service
MobiDBLite	mobidb-lite View details on mobidb-lite Search for proteins/transripts with this domain	194	246	53	-	–
MobiDBLite	mobidb-lite View details on mobidb-lite Search for proteins/transripts with this domain	209	236	28	-	–
MobiDBLite	mobidb-lite View details on mobidb-lite Search for proteins/transripts with this domain	269	298	30	-	–
MobiDBLite	mobidb-lite View details on mobidb-lite Search for proteins/transripts with this domain	282	298	17	-	–

Gene function (GO predictions)

GO predictions are based solely on the InterPro-to-GO mappings published by EMBL-EBI, which are in turn based on the mapping of predicted domains to the InterPro dataset. The InterPro-to-GO mapping was last updated on April 27, 2020, while the GO metadata was last updated on April 27, 2020.

GO term	Namespace	Name	Definition	Relationships
GO:0000127 View details of GO:0000127 AmiGO InterPro QuickGO	Cellular component	Transcription factor TFIIIC complex	A heterotrimeric transcription factor complex that is involved in regulating transcription from RNA polymerase III (Pol III) promoters. TFIIIC contains three conserved subunits that associate with the proximal Pol III promoter element, and additional subunits that associate with sequence elements downstream of the promoter and are more diverged among species. It also functions as a boundary element to partition genome content into distinct domains outside Pol III promoter regions.	Subterm of View details of GO:0090576
GO:0006384 View details of GO:0006384 AmiGO InterPro QuickGO	Biological process	Transcription initiation from RNA polymerase III promoter	Any process involved in the assembly of the RNA polymerase III preinitiation complex (PIC) at an RNA polymerase III promoter region of a DNA template, resulting in the subsequent synthesis of RNA from that promoter. The initiation phase includes PIC assembly and the formation of the first few bonds in the RNA chain, including abortive initiation, which occurs when the first few nucleotides are repeatedly synthesized and then released. Promoter clearance, or release, is the transition between the initiation and elongation phases of transcription.	Subterm of View details of GO:0006352 Part of View details of GO:0006383

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Expression data

Expression pattern

Expression pattern of LotjaGi2g1v0088000.1, powered by ExpAt. For advanced configuration, data transformation and export options, view expression data in the ExpAt application.

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LotjaGi2g1v0088000.1