NDLI: A global analysis of C. elegans trans-splicing.

Please wait, while we are loading the content...

Multimodal RNA-seq using single-strand, double-strand, and CircLigase-based capture yields a refined and extended description of the C. elegans transcriptome.

High nucleosome occupancy is encoded at X-linked gene promoters in C. elegans.

A spatial and temporal map of C. elegans gene expression.

Genome-wide analysis of alternative splicing in Caenorhabditis elegans.

Deep annotation of Drosophila melanogaster microRNAs yields insights into their processing, modification, and emergence.

Polycomb preferentially targets stalled promoters of coding and noncoding transcripts.

Prediction and characterization of noncoding RNAs in C. elegans by integrating conservation, secondary structure, and high-throughput sequencing and array data.

Plasticity in patterns of histone modifications and chromosomal proteins in Drosophila heterochromatin

Chromatin signatures of the Drosophila replication program.

Year: 2011 Volume: 21 Issue: 1

Year: 2010 Volume: 20

Year: 2009 Volume: 19

Year: 2008 Volume: 18

Year: 2007 Volume: 17

Year: 2006 Volume: 16

Year: 2005 Volume: 15

Year: 2004 Volume: 14

Year: 2003 Volume: 13

Year: 2002 Volume: 12

Year: 2001 Volume: 11

Year: 2000 Volume: 10

Year: 1999 Volume: 9

Year: 1998 Volume: 8

Year: 1997 Volume: 7

A global analysis of C. elegans trans-splicing.

Content Provider	World Health Organization (WHO)-Global Index Medicus
Author	Allen, Mary Ann Hillier, LaDeana W. Waterston, Robert H. Blumenthal, Thomas
Description	Country affiliation: United States Author Affiliation: Allen MA ( Department of Molecular, Cellular, and Developmental Biology, University of Colorado at Boulder, Colorado 80309, USA.)
Abstract	Trans-splicing of one of two short leader RNAs, SL1 or SL2, occurs at the 5' ends of pre-mRNAs of many C. elegans genes. We have exploited RNA-sequencing data from the modENCODE project to analyze the transcriptome of C. elegans for patterns of trans-splicing. Transcripts of â¼70% of genes are trans-spliced, similar to earlier estimates based on analysis of far fewer genes. The mRNAs of most trans-spliced genes are spliced to either SL1 or SL2, but most genes are not trans-spliced to both, indicating that SL1 and SL2 trans-splicing use different underlying mechanisms. SL2 trans-splicing occurs in order to separate the products of genes in operons genome wide. Shorter intercistronic distance is associated with greater use of SL2. Finally, increased use of SL1 trans-splicing to downstream operon genes can indicate the presence of an extra promoter in the intercistronic region, creating what has been termed a 'hybrid' operon. Within hybrid operons the presence of the two promoters results in the use of the two SL classes: Transcription that originates at the promoter upstream of another gene creates a polycistronic pre-mRNA that receives SL2, whereas transcription that originates at the internal promoter creates transcripts that receive SL1. Overall, our data demonstrate that >17% of all C. elegans genes are in operons.
File Format	HTM / HTML
ISSN	10889051
e-ISSN	15495469
DOI	10.1101/gr.113811.110
Journal	Genome Research
Issue Number	2
Volume Number	21
Language	English
Publisher	Cold Spring Harbor Laboratory Press
Publisher Date	2011-02-01
Publisher Place	United States
Access Restriction	Open
Subject Keyword	Discipline Genetics Discipline Genomics Caenorhabditis Elegans Genetics Trans-splicing Animals Dna, Intergenic Gene Deletion Molecular Sequence Annotation Operon Promoter Regions, Genetic Rna Precursors Metabolism Rna Splice Sites Rna, Messenger Rna, Spliced Leader Research Support, N.i.h., Extramural
Content Type	Text
Resource Type	Article
Subject	Genetics Genetics (clinical)

Sl.	Authority	Responsibilities	Communication Details
1	Ministry of Education (GoI), Department of Higher Education	Sanctioning Authority	https://www.education.gov.in/ict-initiatives
2	Indian Institute of Technology Kharagpur	Host Institute of the Project: The host institute of the project is responsible for providing infrastructure support and hosting the project	https://www.iitkgp.ac.in
3	National Digital Library of India Office, Indian Institute of Technology Kharagpur	The administrative and infrastructural headquarters of the project	Dr. B. Sutradhar bsutra@ndl.gov.in
4	Project PI / Joint PI	Principal Investigator and Joint Principal Investigators of the project	Dr. B. Sutradhar bsutra@ndl.gov.in Prof. Saswat Chakrabarti will be added soon
5	Website/Portal (Helpdesk)	Queries regarding NDLI and its services	support@ndl.gov.in
6	Contents and Copyright Issues	Queries related to content curation and copyright issues	content@ndl.gov.in
7	National Digital Library of India Club (NDLI Club)	Queries related to NDLI Club formation, support, user awareness program, seminar/symposium, collaboration, social media, promotion, and outreach	clubsupport@ndl.gov.in
8	Digital Preservation Centre (DPC)	Assistance with digitizing and archiving copyright-free printed books	dpc@ndl.gov.in
9	IDR Setup or Support	Queries related to establishment and support of Institutional Digital Repository (IDR) and IDR workshops	idr@ndl.gov.in

The transcription start site landscape of C. elegans

RNA-seq analysis of the C. briggsae transcriptome.

Massively parallel sequencing of the polyadenylated transcriptome of C. elegans.

SL trans-splicing in a Caenorhabditis elegans in vitro extract.

Polycistronic pre-mRNA processing in vitro: snRNP and pre-mRNA role reversal in trans-splicing.

Core promoter T-blocks correlate with gene expression levels in C. elegans.

The landscape of RNA polymerase II transcription initiation in C. elegans reveals promoter and enhancer architectures.

A second trans-spliced RNA leader sequence in the nematode Caenorhabditis elegans.

A complex containing CstF-64 and the SL2 snRNP connects mRNA 3' end formation and trans-splicing in C. elegans operons.

A global analysis of C. elegans trans-splicing.

Similar Documents

The transcription start site landscape of C. elegans

RNA-seq analysis of the C. briggsae transcriptome.

Massively parallel sequencing of the polyadenylated transcriptome of C. elegans.

SL trans-splicing in a Caenorhabditis elegans in vitro extract.

Polycistronic pre-mRNA processing in vitro: snRNP and pre-mRNA role reversal in trans-splicing.

Core promoter T-blocks correlate with gene expression levels in C. elegans.

The landscape of RNA polymerase II transcription initiation in C. elegans reveals promoter and enhancer architectures.

A second trans-spliced RNA leader sequence in the nematode Caenorhabditis elegans.

A complex containing CstF-64 and the SL2 snRNP connects mRNA 3' end formation and trans-splicing in C. elegans operons.

A global analysis of C. elegans trans-splicing.