L1-5_DR (DF0002900)
L1-like non-LTR retrotransposon from zebrafish
Description
A brief description of the entry. Suggestions for modification to this description can be submitted using the adjacent pencil icon.
L1-5_DR is a family of L1-like non-LTR retrotransposon. This family was active recently (ORF1 and ORF2 have no stop codons). The element is incomplete (its ~300-bp 5' terminus is deleted). It encodes two proteins: a 373-aa L1-5_DR1p (positions 3-1121) and a 1233-aa L1-5_DR2p (positions 1225-4923). These proteins are most close to corresponding proteins encoded by other L1-like elements. This is the same element as the Tx-like non-LTR retrotransposon family MutsuDr2, specifically inserted into 5S ribosomal RNA genes [1].
References
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Cross-genome screening of novel sequence-specific non-LTR retrotransposons: various multicopy RNA genes and microsatellites are selected as targets.
Kojima KK, Fujiwara H;
Mol Biol Evol 2004;21:207-217. Pubmed
Classification
| Accession | Name | Wikipedia |
|---|---|---|
| Type | Retrotransposon | Article |
| Class | LINE | |
| Superfamily | L1-Tx1 |
Hit Statistics
Number of matches to this model that meet the "Gathering" threshold and more stringent "Trusted" threshold. For each threshold, two numbers are shown: (1) the number of matches to this model after removing redundant hits to other models ("non-redundant"), and (2) the total number of matches above threshold, including those with better scoring matches to other models ("all hits").
The model is 5551 positions long. The average length of non-redundant hits to the model is 1338.8. This table shows the number of hits above score thresholds:
| Species | Gathering | Trusted | ||
|---|---|---|---|---|
| non-redundant | all hits | non-redundant | all hits | |
| Danio rerio | 351 | 1921 | 338 | 1359 |
External Database Links
- Repbase : L1-5_DR [Requires Repbase registration]