Lverage is a database repository for Lytechinus variegatus (green sea urchin) predicted DNA binding motif sequences.
Please select one of the following input types and enter a gene to view its corresponding DNA binding motifs.
To view the full database, please leave the input empty and click "Submit."
Lverage is a database repository for L. variegatus predicted DNA binding motifs utilizing ≥70% amino acid identity homology, described by Weiruch et al. 2014, with well-mapped homologous species. The Lverage database includes LvEdge IDs, which link to LvEdge, which stores the sequence and gene expression data for urchin genes for all time points.
Lverage repository houses motifs specific information from JASPAR and Cis-BP as well as transcription factor protein specific information from Uniprot and gene level information from NCBI Gene. Additionally, Lverage preserves LvEdge ID searchable in LvEdge and spid (link to about page) searchable in Echinobase. For more information on column specific information, head to the Help page.
Lverage was developed by Stephanie Hao, Yeting Li, Nofal Ouardaoui, and Priyanka Roy and supervised by Cynthia Bradham in Spring 2024. The logo was designed by Stephanie Hao.
| Column Name | Explanation |
|---|---|
| species_name | Orthologous species name |
| ncbi_aid | NCBI Accession ID |
| ncbi_gid | NCBI Gene ID |
| aa_seq | Link to amino acid sequence on UniProt |
| start_stop | Start/stop position on amino acid sequence |
| LvEDGEID | TF Gene ID in LvEDGEdb |
| SPID | TF Gene ID in Echinobase |
| gene_name | TF Gene Name |
| ncbi_pid | NCBI Protein ID or UniProt ID |
| domain_name | DNA Binding Domain Name |
| name | Gene Name |
| logo | Link to Motif Sequence Logo |
| matrix | Link to Motif Position Weight Matrix |
| Db_Source | Database Source |
| Db_ID | Database ID |