|
Category
|
Number of entries
|
Source
|
Example fields from this category
|
| Genes |
39,023 |
Locus Link and Refseq gene track at UCSC |
orientation, exons, CDS |
| Genes with product and function data |
21,481 |
Locus Link |
product, biological process, cellular component, molecular function |
| Expression data |
1,069,139 |
UniGene at NCBI |
tissue, gene ID |
| Microarray expression data |
14,199 |
GNF |
tissue, expression level |
| Genetic Disorders |
3,723 |
OMIM |
disorder, gene ID |
| Gene Orthologs |
mouse 10,642
rat 3,585 |
Database of evolutionary distances and Ensembl |
species, gene symbol, coordinates in mouse, percent CDS identity,percent protein identity |
| Alternate Gene Model: Acembly Genes |
195,827 |
UCSC Golden Path |
orientation, exons, CDS |
| Alternate Gene Model: Ensembl Genes |
31,296 |
UCSC Golden Path |
orientation, exons, CDS |
| Alternate Gene Model: Geneid Genes |
31,600 |
UCSC Golden Path |
orientation, exons, CDS |
| Alternate Gene Model: Genscan Genes |
42,143 |
UCSC Golden Path |
orientation, exons, CDS |
| Alternate Gene Model: MGC Genes |
14,911 |
UCSC Golden Path |
orientation, exons, CDS |
| Alternate Gene Model: RefSeq Genes |
18,664 |
UCSC Golden Path |
orientation, exons, CDS |
| Alternate Gene Model: SGP Genes |
42,696 |
UCSC Golden Path |
orientation, exons, CDS |
| Alternate Gene Model: Twinscan Genes |
25,434 |
UCSC Golden Path |
orientation, exons, CDS |
| Alternate Gene Model: UCSC Known Genes |
34,946 |
UCSC Golden Path |
orientation, exons, CDS |
| Multiple alignments |
15,770,095 |
UCSC Golden Path and Penn State - Bioinformatics Group scoring using humor |
score |
| Local alignments human vs. mouse |
1,698,637 |
UCSC Golden Path and Penn State - Bioinformatics Group |
score, lav file sequence and header fields |
| Gap free alignments human vs. mouse |
35,578,739 |
UCSC Golden Path and Penn State - Bioinformatics Group |
percent identity, local alignment ID |
| 3-way conserved |
3,351,078 |
Penn State - Bioinformatics Group |
repetitive element |
| Regulatory potential score (based on hmr alignments) |
131,086,075 |
Penn State - Bioinformatics Group |
score |
| Mouse Conservation score |
225,706,758 |
UCSC Golden Path |
score |
| Transcription factor binding sites |
186,792,740 |
Penn State - Bioinformatics Group and
TRANSFAC (free registration required) |
factor, strand, score |
| Conserved Transcription factor binding sites (hmr) |
4,188,229 |
Penn State - Bioinformatics Group and
TRANSFAC (free registration required) |
factor, strand, score |
| Known regulatory regions |
89 |
Penn State - Bioinformatics Group |
name |
| Functional promoters |
154 |
Stanford |
|
| Predicted promoters |
0 |
Stanford
Downloaded from UCSC Golden Path |
|
| Micro RNA |
168 |
Vertebrate microRNA genes |
name |
| CpG islands |
26,792 |
UCSC Golden Path |
name |
| SNPs |
3,237,433 |
dbSNP
and UCSC Golden Path |
type, allele, frequency |
| HbVar: A Database of Human Hemoglobin Variants and Thalassemias |
1,096 variants |
HbVar |
type, HbVar ID |
| Repeats |
4,931,892 |
UCSC Golden Path |
name, class, family |
| Recombination rates |
8,424 |
deCODE Genetics
Marshfield
Genethon
Downloaded from UCSC Golden Path |
recombination rate; sex averaged, F, and M |
| GC percent |
153,538 |
UCSC Golden Path |
percent |
| Restriction sites |
116,484,996 |
Penn State - Bioinformatics Group |
for 128 different enzymes |