		C. elegans Genome Browser

File
Help

no error

no details

C. elegans Genomic Browser: 37 kbp from I:143,000..180,000

A mirror of this site is also available at mod1.modencode.org

Browser Select Tracks Community Tracks Custom Tracks Preferences

Search

Landmark or Region: Examples: I:110643..112642, V:625000..675000, X:120000..140000, lin-12.
Data Source	Scroll/Zoom: Flip

Overview

Overview Scale

Collapse

Turn off

Configure

Favorite

Download

About track

Region

Region Scale

Collapse

Turn off

Configure

Favorite

Download

About track

Details

Detail Scale

Collapse

Turn off

Configure

Favorite

Download

About track

Curated WormBase WS220 Genes

Collapse

Turn off

Configure

Favorite

Download

About track

Transcription Factors ChIP-Seq (Showing 10 of 10 subtracks)

Transcription Factors ChIP-Seq

Collapse

Turn off

Configure

Favorite

Download

About track

early embryo

Collapse

Turn off

Configure

Favorite

Download

About track

Young Adult 25dC 46hrs

Collapse

Turn off

Configure

Favorite

Download

About track

Clear highlighting

<< Back to Browser Show Favorites Only

Clear All Favorites

Search for Specific Tracks

Search: Stick to top when scrolled

Tracks

Annotations for Curated and Predicted Genes from WormBase

All on All off

Curated WormBase WS220 Genes [?]

Non-coding RNAs [?]

Chromatin Structure

Chromatin Modifying Enzymes

All on All off

Centromere Specificaton ChIP-chip arrays [?] [showing 2/2 subtracks]

Chromatin Silencing ChIP-chip arrays [?] [showing 2/2 subtracks]

Chromosome-Nuclear Envelope Interaction [?] [showing 6/6 subtracks]

Histone Modifications and Variants

All on All off

Core Histones ChIP-chip arrays [?] [showing 7/7 subtracks]	Histone Modifications (H3K36) ChIP-Seq [?]	Histone Modifications (H3K9) ChIP-chip arrays [?] [showing 11/11 subtracks]
Core Histones ChIP-Seq [?]	Histone Modifications (H3K4) ChIP-chip arrays [?] [showing 14/14 subtracks]	Histone Modifications (H4) ChIP-chip arrays [?] [showing 9/9 subtracks]
Histone Modifications (H3K27) ChIP-chip arrays [?] [showing 9/9 subtracks]	Histone Modifications (H3K4) ChIP-Seq [?]	Histone Modifications (H4) ChIP-Seq [?]
Histone Modifications (H3K36) ChIP-chip arrays [?] [showing 16/16 subtracks]	Histone Modifications (H3K79) ChIP-chip arrays [?] [showing 9/9 subtracks]	Histone Variants ChIP-chip arrays [?]

Nucleosome Structure

All on All off

Chromatin fractions extracted with NaCl [?] [showing 3/3 subtracks]	Mononucleosomes [?] [showing 3/3 subtracks]
H3.3 Chromatin fractions extracted with NaCl [?] [showing 3/3 subtracks]	Mononucleosomes 80mM NaCl [?] [showing 2/2 subtracks]

Gene Structure

Single Exon Genes

All on All off

Mass-spec MRM [?]

3-ends and UTRS

3RACE polyA-capture 3-UTR 454 alignments

All on All off

Adult Hermaphrodite 454 alignments [?]	daf-7 Dauer 454 alignments [?]	L2 454 alignments [?]
Adult Male 454 alignments [?]	daf-9 Dauer 454 alignments [?]	L3 454 alignments [?]
daf-11 Dauer 454 alignments [?]	Embryo 454 alignments [?]	L4 454 alignments [?]
daf-2 Dauer 454 alignments [?]	L1 454 alignments [?]

3RACE polyA-capture 3-UTR 454 sequencing pilot (alignments)

All on All off

Adult Hermaphrodite seq.pilot [?]	L1 seq.pilot [?]	L3 seq.pilot [?]
Embryo seq.pilot [?]	L2 seq.pilot [?]	L4 seq.pilot [?]

3UTR Annotation

All on All off

3prime UTRs - CEUP1 [?]	USTs - CEUP1 [?]	UTRome polyA sites [?]
polyA sites - CEUP1 [?]	UTRome 3prime UTRs [?]
RSTs - CEUP1 [?]	UTRome polyA signal sequence [?]

Mixed-stage 3RACE 3-UTR 454 sequencing (alignments)

All on All off

large RACE products -pool A [?]	large RACE products -pool H [?]	small RACE products -pool G [?]
large RACE products -pool B [?]	small RACE products -pool A [?]	small RACE products -pool H [?]
large RACE products -pool C [?]	small RACE products -pool B [?]	small RACE products -pool V1 [?]
large RACE products -pool D [?]	small RACE products -pool C [?]	Utrome minipool 1 [?]
large RACE products -pool E [?]	small RACE products -pool D [?]	Utrome minipool 2 [?]
large RACE products -pool F [?]	small RACE products -pool E [?]
large RACE products -pool G [?]	small RACE products -pool F [?]

Mixed-stage 3RACE 3-UTR Illumina sequencing (alignments)

All on All off

pool A [?]	pool D [?]	pool G [?]
pool C [?]	pool F [?]	pool H [?]

MiRNAs 454 sequencing (alignments)

All on All off

eri-1 (mg366) [?]	glp-4 (bn2) [?]	N2 whole worms [?]
fer-1 unfertilized oocytes [?]	him-8 [?]

MiRNAs Illumina sequencing (alignments)

All on All off

eri-1 (mg366) [?]	glp-4 (bn2) [?]	N2 embryos [?]
fer-1 unfertilized oocytes	him-8 [?]	N2 mixed stages [?]

Gene Models

Exons

All on All off

non-redundant exons from 14 stages [?]

non-redundant exons from 19 stages [?]

Integrated Transcripts

Developmental Timecourse

All on All off

Adult spe-9 (colored by exon)	embryo him-8 (colored by mRNA)	mid-L3 (colored by exon)
Adult spe-9 (colored by mRNA)	late embryo (colored by exon)	mid-L3 (colored by mRNA)
dauer daf-2 25dC 91hrs (colored by exon)	late embryo (colored my mRNA)	mid-L4 (colored by exon)
dauer daf-2 25dC 91hrs (colored by mRNA)	male mid-L4 dpy28 him-8 25dC 30hrs (colored by exon)	mid-L4 (colored by mRNA)
dauer entry daf-2 25dC 48hrs (colored by exon)	male mid-L4 dpy28 him-8 25dC 30hrs (colored by mRNA)	RNAseq Aggregate fourteen stages (colored by exon)
dauer entry daf-2 25dC 48hrs (colored by mRNA)	mid-L1 (colored by exon)	RNAseq Aggregate fourteen stages (colored by mRNA)
dauer exit daf-2 25dC 91hrs 15dC 12hrs (colored by exon)	mid-L1 (colored by mRNA)	RNAseq Aggregate nineteen stages (colored by exon)
dauer exit daf-2 25dC 91hrs 15dC 12hrs (colored by mRNA)	mid-L1 lin-35 (colored by exon)	RNAseq Aggregate nineteen stages (colored by mRNA)
early embryo (colored by exon)	mid-L1 lin-35 (colored by mRNA)	Young Adult (colored by exon)
early embryo (colored by mRNA)	mid-L2 (colored by exon)	Young Adult (colored by mRNA)
embryo him-8 (colored by exon)	mid-L2 (colored by mRNA)

Introns

All on All off

Adult spe-9 confirmed introns [?]	late embryo confirmed introns [?]	mid-L4 confirmed introns [?]
dauer daf-2 25dC 91hrs confirmed introns [?]	male mid-L4 dpy28 him-8 25dC 30hrs confirmed introns [?]	RNAseq Aggregate fourteen stages confirmed introns [?]
dauer entry daf-2 25dC 48hrs confirmed introns [?]	mid-L1 confirmed introns [?]	RNAseq Aggregate nineteen stages confirmed introns [?]
dauer exit daf-2 25dC 91hrs 15dC 12hrs confirmed introns [?]	mid-L1 lin-35 confirmed introns [?]	Young Adult confirmed introns [?]
early embryo confirmed introns [?]	mid-L2 confirmed introns [?]
embryo him-8 confirmed introns [?]	mid-L3 confirmed introns [?]

PolyA

All on All off

Adult spe-9 confirmed polyA [?]	late embryo confirmed polyA [?]	mid-L4 confirmed polyA [?]
dauer daf-2 25dC 91hrs confirmed polyA [?]	male mid-L4 dpy28 him-8 25dC 30hrs confirmed polyA [?]	RNAseq Aggregate fourteen stages confirmed polyA [?]
dauer entry daf-2 25dC 48hrs confirmed polyA [?]	mid-L1 confirmed polyA [?]	RNAseq Aggregate nineteen stages confirmed polyA [?]
dauer exit daf-2 25dC 91hrs 15dC 12hrs confirmed polyA [?]	mid-L1 lin-35 confirmed polyA [?]	Young Adult confirmed polyA [?]
early embryo confirmed polyA [?]	mid-L2 confirmed polyA [?]
embryo him-8 confirmed polyA [?]	mid-L3 confirmed polyA [?]

Splice Leaders

All on All off

Adult spe-9 confirmed SLs [?]	late embryo confirmed SLs [?]	mid-L4 confirmed SLs [?]
dauer daf-2 25dC 91hrs confirmed SLs [?]	male mid-L4 dpy28 him-8 25dC 30hrs confirmed SLs [?]	RNAseq Aggregate fourteen stages confirmed SLs [?]
dauer entry daf-2 25dC 48hrs confirmed SLs [?]	mid-L1 confirmed SLs [?]	RNAseq Aggregate nineteen stages confirmed SLs [?]
dauer exit daf-2 25dC 91hrs 15dC 12hrs confirmed SLs [?]	mid-L1 lin-35 confirmed SLs [?]	Young Adult confirmed SLs [?]
early embryo confirmed SLs [?]	mid-L2 confirmed SLs [?]
embryo him-8 confirmed SLs [?]	mid-L3 confirmed SLs [?]

Introns

All on All off

Green Lab confirmed introns (all) [?] [showing 6/6 subtracks]	Green Lab confirmed introns 2009-09-21 Chromosome II [?]	Green Lab ESTs 2008-12-02 set 3 [?]
Green Lab confirmed introns 2008-12-02 set 1 [?]	Green Lab confirmed introns 2010-01-26 set 5 [?]	Green Lab ESTs 2008-12-02 set 4 [?]
Green Lab confirmed introns 2008-12-02 set 2 [?]	Green Lab ESTs (all) [?] [showing 7/7 subtracks]	Green Lab ESTs 2009-09-21 Chromosome II [?]
Green Lab confirmed introns 2008-12-02 set 3 [?]	Green Lab ESTs 2008-12-02 set 1 [?]	Green Lab ESTs 2010-01-26 Chromosome I [?]
Green Lab confirmed introns 2008-12-02 set 4 [?]	Green Lab ESTs 2008-12-02 set 2 [?]

Partial Gene Models (Genelets)

All on All off

Adult Harposporium control exp. OP50 2-24hrs (colored by exon)	dauer exit daf-2 25dC 91hrs 15dC 12hrs Genelets (colored by exon)	mid-L1 lin-35 Genelets (colored by exon)
Adult Harposporium control exp. OP50 2-24hrs (colored by mRNA)	dauer exit daf-2 25dC 91hrs 15dC 12hrs Genelets (colored by mRNA)	mid-L1 lin-35 Genelets (colored by mRNA)
Adult Harposporium exp. 2-24hrs (colored by exon)	early embryo Genelets (colored by exon)	mid-L2 Genelets (colored by exon)
Adult Harposporium exp. 2-24hrs (colored by mRNA)	early embryo Genelets (colored by mRNA)	mid-L2 Genelets (colored by mRNA)
Adult S.macescens control exp. OP50 1-24hrs (colored by exon)	embryo him-8 Genelets (colored by exon)	mid-L3 Genelets (colored by exon)
Adult S.macescens control exp. OP50 1-24hrs (colored by mRNA)	embryo him-8 Genelets (colored by mRNA)	mid-L3 Genelets (colored by mRNA)
Adult S.macescens Db10 exp. 1-24hrs (colored by exon)	L4 soma no DNAse I (colored by exon)	mid-L4 Genelets (colored by exon)
Adult S.macescens Db10 exp. 1-24hrs (colored by mRNA)	L4 soma no DNAse I (colored by mRNA)	mid-L4 Genelets (colored by mRNA)
Adult spe-9 Genelets (colored by exon)	late embryo Genelets (colored by exon)	RNAseq Aggregate fourteen stages (colored by exon)
Adult spe-9 Genelets (colored by mRNA)	late embryo Genelets (colored my mRNA)	RNAseq Aggregate fourteen stages (colored by RNA)
dauer daf-2 25dC 91hrs Genelets (colored by exon)	male mid-L4 dpy28 him-8 25dC 30hrs Genelets (colored by exon)	Young Adult Genelets (colored by exon)
dauer daf-2 25dC 91hrs Genelets (colored by mRNA)	male mid-L4 dpy28 him-8 25dC 30hrs Genelets (colored by mRNA)	Young Adult Genelets (colored by mRNA)
dauer entry daf-2 25dC 48hrs Genelets (colored by exon)	mid-L1 Genelets (colored by exon)
dauer entry daf-2 25dC 48hrs Genelets (colored by mRNA)	mid-L1 Genelets (colored by mRNA)

Introns

All on All off

Adult Harposporium control exp. OP50 2-24hrs confirmed introns [?]	dauer exit daf-2 25dC 91hrs 15dC 12hrs confirmed introns [?]	mid-L1 lin-35 confirmed introns [?]
Adult Harposporium exp. 2-24hrs confirmed introns [?]	early embryo confirmed introns [?]	mid-L2 confirmed introns [?]
Adult S.macescens control exp. OP50 1-24hrs confirmed introns [?]	embryo him-8 confirmed introns [?]	mid-L3 confirmed introns [?]
Adult S.macescens Db10 exp. 1-24hrs confirmed introns [?]	L4 soma no DNAse I confirmed introns [?]	mid-L4 confirmed introns [?]
Adult spe-9 confirmed introns [?]	late embryo confirmed introns [?]	RNAseq Aggregate fourteen stages confirmed introns [?]
dauer daf-2 25dC 91hrs confirmed introns [?]	male mid-L4 dpy28 him-8 25dC 30hrs confirmed introns [?]	Young Adult confirmed introns [?]
dauer entry daf-2 25dC 48hrs confirmed introns [?]	mid-L1 confirmed introns [?]

PolyA

All on All off

Adult Harposporium control exp. OP50 2-24hrs confirmed polyA [?]	dauer exit daf-2 25dC 91hrs 15dC 12hrs confirmed polyA [?]	mid-L1 lin-35 confirmed polyA [?]
Adult Harposporium exp. 2-24hrs confirmed polyA [?]	early embryo confirmed polyA [?]	mid-L2 confirmed polyA [?]
Adult S.macescens control exp. OP50 1-24hrs confirmed polyA [?]	embryo him-8 confirmed polyA [?]	mid-L3 confirmed polyA [?]
Adult S.macescens Db10 exp. 1-24hrs confirmed polyA [?]	L4 soma no DNAse I confirmed polyA [?]	mid-L4 confirmed polyA [?]
Adult spe-9 confirmed polyA [?]	late embryo confirmed polyA [?]	RNAseq Aggregate fourteen stages confirmed polyA [?]
dauer daf-2 25dC 91hrs confirmed polyA [?]	male mid-L4 dpy28 him-8 25dC 30hrs confirmed polyA [?]	Young Adult confirmed polyA [?]
dauer entry daf-2 25dC 48hrs confirmed polyA [?]	mid-L1 confirmed polyA [?]

Splice Leaders

All on All off

Adult Harposporium control exp. OP50 2-24hrs confirmed SLs [?]	dauer exit daf-2 25dC 91hrs 15dC 12hrs confirmed SLs [?]	mid-L1 lin-35 confirmed SLs [?]
Adult Harposporium exp. 2-24hrs confirmed SLs [?]	early embryo confirmed SLs [?]	mid-L2 confirmed SLs [?]
Adult S.macescens control exp. OP50 1-24hrs confirmed SLs [?]	embryo him-8 confirmed SLs [?]	mid-L3 confirmed SLs [?]
Adult S.macescens Db10 exp. 1-24hrs confirmed SLs [?]	L4 soma no DNAse I confirmed SLs [?]	mid-L4 confirmed SLs [?]
Adult spe-9 confirmed SLs [?]	late embryo confirmed SLs [?]	RNAseq Aggregate fourteen stages confirmed SLs [?]
dauer daf-2 25dC 91hrs confirmed SLs [?]	male mid-L4 dpy28 him-8 25dC 30hrs confirmed SLs [?]	Young Adult confirmed SLs [?]
dauer entry daf-2 25dC 48hrs confirmed SLs [?]	mid-L1 confirmed SLs [?]

Splice Leaders

All on All off

Green Lab confirmed SL acceptor sites Set 1 [?]

Green Lab ESTs SL Set 1 [?]

RNA Expression Profiling

mRNA

polyA mRNA reads, developmental timecourse

All on All off

Adult spe-9 [?]	L4 soma no DNAse I [?]	mid-L1 lin-35 cap [?]
dauer daf-2 25dC 91hrs [?]	late embryo 20dC 45hrs [?]	mid-L2 25dC 14 hrs [?]
dauer entry daf-2 25dC 48hrs [?]	late embryo cap6 [?]	mid-L3 25dC 25hrs [?]
dauer exit daf-2 25dC 91hrs 15dC 12hrs [?]	male mid-L4 cap2 [?]	mid-L4 25dC 36hrs [?]
early embryo [?]	male mid-L4 dpy28 him-8 25dC 30hrs [?]	mid-L4 cap4 [?]
early embryo cap5 [?]	mid-L1 20dC 4hrs [?]	mid-L4 RR cap3 [?]
embryo him-8 20dC [?]	mid-L1 lin-35 25dC 40hrs [?]	Young Adult 25dC 46hrs [?]

polyA mRNA reads, developmental timecourse (stranded)

All on All off

N2_EE_50-0 [?]	N2_EE_50-30 [?]	N2_EE_50-90 [?]
N2_EE_50-120 [?]	N2_EE_50-60 [?]

polyA mRNA reads, pathogen exposure

All on All off

Adult D.coniospora control OP50 exp. 2-12hrs [?]	Adult E.faecalis exp. 1-24hrs [?]	Adult P.luminescens exp. 2-24hrs [?]
Adult D.coniospora exp 1-5hr [?]	Adult Harposporium control exp. OP50 2-24hrs [?]	Adult S.macescens Db10 control exp. OP50 1-24hr [?]
Adult D.coniospora exp. 2-12hr [?]	Adult Harposporium exp. 2-24hrs [?]	Adult S.macescens Db10 exp. 1-24hr [?]

NimbleGen Array

All on All off

mRNA microarray N2 Embryos [?]

Tiling Array

All on All off

Development Stages [?] [showing 11/11 subtracks]

Pathogen Exposure [?] [showing 6/6 subtracks]

Tiling Array, FACS-sorted cells

All on All off

Embryo FACS-sorted cells [?] [showing 18/18 subtracks]

Post-Embryo FACS-sorted cells [?] [showing 18/18 subtracks]

ncRNA

RNA-Seq

miRNA, developmental timecourse

All on All off

Adult spe-9 Day 0 miRNA expression change [?]	Embryo miRNA expression change [?]	mid-L4 miRNA expression change [?]
Adult spe-9 Day 12 miRNA expression change [?]	mid-L1 Embryo miRNA expression change [?]	Young Adult male dpy-5;him-8 miRNA expression change [?]
Adult spe-9 Day 5 miRNA expression change [?]	mid-L2 miRNA expression change [?]	Young Adult miRNA expression change [?]
Adult spe-9 Day 8 miRNA expression change [?]	mid-L3 miRNA expression change [?]

small RNA, developmental timecourse

All on All off

Adult spe-9 Day 0 [?]	embryo N2 hermaphrodite [?]	L4 N2 hermaphrodite [?]
Adult spe-9 Day 5 [?]	L1 N2 hermaphrodite [?]	Young Adult dpy-28 him-8 male [?]
Adult spe-9 Day 8 [?]	L2 N2 hermaphrodite [?]	Young Adult N2 hermaphrodite [?]