Project Specific Custom Tracks
Human Mar. 2006 Assembly
ncRNA Prediction and Mapping Tracks
| track name | description | items |
|---|---|---|
| fRNAdb::RNAz |
fRNAdb::RNAz track
|
35,968 |
| fRNAdb::EvoFold |
fRNAdb::EvoFold track
|
47,565 |
| fRNAdb::snoRNA |
fRNAdb::snoRNA track
|
1,646 |
| fRNAdb::rRNA |
fRNAdb::rRNA track
|
351 |
| fRNAdb::tRNA |
fRNAdb::tRNA track
|
774 |
| fRNAdb::piRNA |
fRNAdb::piRNA track
|
267,977 |
| fRNAdb::Antisense |
fRNAdb::Antisense track
|
233 |
| fRNAdb::Guide |
fRNAdb::Guide-RNA track
|
2 |
| fRNAdb::IRES |
fRNAdb::IRES track
|
75 |
| fRNAdb::Regulatory |
fRNAdb::Regulatory-region track
|
1 |
| fRNAdb::Ribozyme |
fRNAdb::Ribozyme track
|
2 |
| fRNAdb::RNase-MRP |
fRNAdb::RNase-MRP track
|
8 |
| fRNAdb::RNase-P |
fRNAdb::RNase-P track
|
7 |
| fRNAdb::scRNA |
fRNAdb::scRNA track
|
1,448 |
| fRNAdb::snRNA |
fRNAdb::snRNA track
|
2,866 |
| fRNAdb::SRP |
fRNAdb::SRP-RNA track
|
242 |
| fRNAdb::Telomerase |
fRNAdb::Telomerase-RNA track
|
4 |
| fRNAdb::Vault |
fRNAdb::Vault-RNA track
|
8 |
| fRNAdb::Y |
fRNAdb::Y-RNA track
|
1,549 |
| fRNAdb::uc-ncRNA |
fRNAdb::unclassified-ncRNA track
|
53 |
| fRNAdb::uc-transcript |
fRNAdb::unclassified-transcript track
|
2,637 |
| fRNAdb::Misc |
fRNAdb::Misc track
|
1,495 |
| fRNAdb::fly smallRNA |
fRNAdb::fly small-RNA track
|
39,634 |
| RNAz folds |
Secondary structure annotation of RNAz
|
114,962 |
| antisense ChenJ NAR2004 |
Sense-antisense pairs among UCSC known genes
|
295 |
| snoSeeker |
snoSeeker [Lifted from hg17]
|
322 |
| QRNA predictions |
mammalian ncRNAs predicted with QRNA
|
3,377 |
| intronic ncRNAs |
Human intronic noncoding RNAs
|
67,729 |
| H-inv 5 Noncoding |
H-inv release 5.0 non-protein-coding cDNA mapping track
|
2,132 |
| Sasaki and Hirose 150 ncRNA candidates |
150 ncRNA candidates by Sasaki, Y.T.F. et al. (2007) BBRC 357:991-6
|
153 |
| Jones and Eddy ncRNAs |
ncRNAs from T.A. Jones, S.R. Eddy [Lifted from hg16]
|
7,218 |
Misc Genomic Element Tracks
| track name | description | items |
|---|---|---|
| Indel-conserved segments |
Human/Mouse/Dog Indel-based Conservation
|
593,287 |
| Ultra Conserved 17way |
100% conserved elements in 17 vertebrates
|
1,388 |
| Transposon Free Region |
Transposon-Free Region
|
10,154 |
| Histone Enrichment |
Transcription Start Site (H3K4me3 enriched site)
|
57,655 |
| Fragile Sites |
Fragile Sites by GENATLAS
|
129 |
| Enhancer Candidates |
Conserved non-conding elements tested for enhancer activity in transgenic mice
|
276 |
| Tissue specific enhancer candidates |
Predicted tissue-supecific enhancers and target loci
|
7,472 |
| PReMod CRMs |
Putative transcriptional cis-regulatory modules (PReMod)
|
123,510 |
| Alu |
Alu repeat family
|
1,193,407 |
| H-inv 5 cDNA cluster |
H-inv release 5.0 cDNA cluster track
|
35,638 |
| pseudo conservation |
pseudo conservation
|
104,953 |
| Lamina Associated Domain |
Lamina associated domains by Lars Guelen et al.
|
1,344 |
miRNA-related Tracks
| track name | description | items |
|---|---|---|
| Known miRNAs |
known miRNAs
|
1,035 |
| Predicted miRNAs |
predicted miRNAs
|
11,616 |
| Known targets |
Experimentally verified miRNA target sites
|
233 |
| Predicted targets |
predicted miRNA target sites
|
2,312,386 |
| miRNA Atlas |
Mammalian miRNA Expression Atlas
|
992 |
| fRNAdb::pre-miRNA |
fRNAdb::pre-miRNA track
|
640 |
| fRNAdb::mature-miRNA |
fRNAdb::mature-miRNA track
|
1,720 |
ncRNA Candidate Probe Tracks
| track name | description | items |
|---|---|---|
| Human Accelerated Region | Probe of Human Accelerated Region | 133 |
| Inverted Duplication | Probe of Inverted Duplication | 56 |
| RNAmine | Probe of RNAmine | 277 |
| Rfam Seed mappable | Probe of Rfam Seed mappable | 581 |
| Ultra Low Z score Region | Probe of Ultra Low Z score Region | 118 |
| miRRim | Probe of miRRim | 766 |
| SelfChain RNAz EST | Probe of SelfChain RNAz EST | 9,839 |
| SelfChain RNAz Washietl | Probe of SelfChain RNAz Washietl | 16,516 |
| snoRNA | Probe of snoRNA | 387 |
| SynSeg | Probe of SynSeg | 12,939 |
| Ultra Conserved Region | Probe of Ultra Conserved Region | 3,752 |
| Known Gene | Probe of Known Gene | 40,586 |