RetrogeneDB ID: | retro_etel_788 | ||
Retrocopy location | Organism: | Lesser hedgehog tenrec (Echinops telfairi) | |
| Coordinates: | scaffold_164380:0..688(-) | ||
| Located in intron of: | None | ||
Retrocopy information | Ensembl ID: | ENSETEG00000004241 | |
| Aliases: | None | ||
| Status: | KNOWN_PSEUDOGENE | ||
Parental gene information | Parental gene summary: | ||
| Parental gene symbol: | STK40 | ||
| Ensembl ID: | ENSETEG00000005701 | ||
| Aliases: | None | ||
| Description: | serine/threonine kinase 40 [Source:HGNC Symbol;Acc:21373] |
Retrocopy-Parental alignment summary:
>retro_etel_788
ACAGAGGCCAGCCGGATGGTGAGGAAGATGAAGAAGCGCATCTGCCTGGTCCTCGACTGCCTCTGTGCACACGACTTCAG
CGACAAGACCGCCGACCTGATCAACCTGCAGCACTACGTCATCAAGGAGAAGCGGCTCAGCGAGCGGGAGACCGTGGTCA
TCTTCTACGATGTGGTACGCGTGGTGGAGGCCCTGCACCAGAAAAACATTGTGCACCGAGACCTGAAGCTCGGGAACATG
GTGCTCAATAAGAGGACTCATTGGATAACCGTCACCAACTTCTGCCTCGGTAGCATCTCGTGAGCGAGGGGGATCTCCTG
AAGGACCAGAGGGGCAGCCCCGCGTACATCAGCCCCGACGTGCTCAATGGCCGGCCGTACCGGGGCAAGCCGAGCGATGT
GTGGGCCCTGGGCGTGGTACTCTTCACCATAGCTGTATGGCCAGTTCCCCTTCTACGACAGCATCCCGCAGGAGCTCTTC
CGCAAGATCAAGGCCGCCGAGTACACCATCCCCGAGGACGGGCGAGTTTCCGAGAACACCTTGTGTCTTATCTGGAAGCT
GCTGGTGCTTGACCCCCAGCAGCGCCTGGCCGCCTCTGACGTCCTGGAGGCCCTCAGCAAACATCATCGCGTCCTGGCAG
TCCCTGTCGTCTCCTGAGCGGAACCGTTTGCAAGTGGTTCCGGACATC
ORF - retro_etel_788 Open Reading Frame is not conserved.
Retrocopy - Parental Gene Alignment summary:
| Percent Identity: | 93.1 % |
| Parental protein coverage: | 52.41 % |
| Number of stop codons detected: | 0 |
| Number of frameshifts detected: | 3 |
Retrocopy - Parental Gene Alignment:
| Parental | TEASRMVRKMKKRICLVLDCLCAHDFSDKTADLINLQHYVIKEKRLSERETVVIFYDVVRVVEALHQKNI |
| TEASRMVRKMKKRICLVLDCLCAHDFSDKTADLINLQHYVIKEKRLSERETVVIFYDVVRVVEALHQKNI | |
| Retrocopy | TEASRMVRKMKKRICLVLDCLCAHDFSDKTADLINLQHYVIKEKRLSERETVVIFYDVVRVVEALHQKNI |
| Parental | VHRDLKLGNMVLNKRTHRITVTNFCLGK-HLVSEGDLLKDQRGSPAYISPDVLSGRPYRGKPSDMWALGV |
| VHRDLKLGNMVLNKRTH.ITVTNFCLG..HLVSEGDLLKDQRGSPAYISPDVL.GRPYRGKPSD.WALGV | |
| Retrocopy | VHRDLKLGNMVLNKRTHWITVTNFCLGS<HLVSEGDLLKDQRGSPAYISPDVLNGRPYRGKPSDVWALGV |
| Parental | VLFTM-LYGQFPFYDSIPQELFRKIKAAEYTIPEDGRVSENTVCLIRKLLVLDPQQRLAASDVLEALSA- |
| VLFT..LYGQFPFYDSIPQELFRKIKAAEYTIPEDGRVSENT.CLI.KLLVLDPQQRLAASDVLEALS.. | |
| Retrocopy | VLFTI>LYGQFPFYDSIPQELFRKIKAAEYTIPEDGRVSENTLCLIWKLLVLDPQQRLAASDVLEALSK> |
| Parental | IIASWQSLSSLS-GPLQVVPDI |
| IIASWQSLSS.....LQVVPDI | |
| Retrocopy | IIASWQSLSSPERNRLQVVPDI |
Legend:
| * | Stop codon |
| > | Forward frameshift by one nucleotide |
| < | Reverse frameshift by one nucleotide |
Echinops telfairi was not studied using RNA-Seq expression data.
Echinops telfairi was not studied using ChIP-Seq data.
Echinops telfairi was not studied using EST data.
Echinops telfairi was not studied using FANTOM5 data.
retro_etel_788 was not experimentally validated.
Retrocopy orthology:
Echinops telfairi does not belong to any of the species groups (eutheria, teleost or neognath), studied for retrocopy-based homology. For more information about studied groups, please go to help section.Parental genes homology:
Parental genes homology involve 1 parental gene, and 1 retrocopy.| Species | Parental gene accession | Retrocopies number | |
|---|---|---|---|
| Echinops telfairi | ENSETEG00000005701 | 1 retrocopy |
retro_etel_788 ,
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