RetrogeneDB ID: | retro_etel_527 | ||
Retrocopy location | Organism: | Lesser hedgehog tenrec (Echinops telfairi) | |
| Coordinates: | GeneScaffold_8805:2165..2852(+) | ||
| Located in intron of: | None | ||
Retrocopy information | Ensembl ID: | ENSETEG00000016752 | |
| Aliases: | None | ||
| Status: | KNOWN_PSEUDOGENE | ||
Parental gene information | Parental gene summary: | ||
| Parental gene symbol: | THRA | ||
| Ensembl ID: | ENSETEG00000013166 | ||
| Aliases: | None | ||
| Description: | thyroid hormone receptor, alpha [Source:HGNC Symbol;Acc:11796] |
Retrocopy-Parental alignment summary:
>retro_etel_527
ATGGAACAGAAGCTAAGCAAGCTGGAGTGTGGGTCGGACCCTGAGGAGAACAGTTCCAGGTTCTCCGATGGAAAGCGAAA
AAGAAAGAATGGCCAATGTCCCCTGAAAACTTGCATGTCAGTGTATATCCCTAGCTACCTGGACAAAGACGAGCAGTGTG
TCATGTGCGGGGACAAGGCAACCGGTTATCACTACCGCTGCATCACTGTGAAGGCTGCAAGGGCTTCTTTCGCCGCACAA
TCCAGAAGAACCTCCCACCCCCACTACTCCTGCAAATATGACAGCTGCTGTGTCATCGACAAGATCACCCGCAACCAGTG
CCAGCTGTGCCGCTTCCGGAAGTGCATCGCTGTGGGCATGGCTATGGACTTGGTTCTAGATGACTCAAAGCGGGTGGCCA
AGCGCAAGCTGATCGAGCAGAACCGGGATAGGCGGCGGAAGGAGATGATCTGCTCACTGCAGCAGCGGCCAGAGCCCACT
CCTGAGGAGTGGGACCTGATCCACGTCGCCACGGAGGCCCATCGCAGCACTAACGCGCAGGGCAGCCACTGGAAGCAGAG
GCGGAAATTCCTGCCGGATGACATTGGCCAGTCCCCCATCGTCTCAATGCCGGACGGAGACAAGGTGGACCTAGAGGCCT
TCAGCGAGTTTACCAAGATCATCACCCCAGCCATCACCCGTGTGGTG
ORF - retro_etel_527 Open Reading Frame is not conserved.
Retrocopy - Parental Gene Alignment summary:
| Percent Identity: | 94.4 % |
| Parental protein coverage: | 62.84 % |
| Number of stop codons detected: | 0 |
| Number of frameshifts detected: | 2 |
Retrocopy - Parental Gene Alignment:
| Parental | MEQKPSKLECGSDPEENSARSPDGKRKRKNGQCPLKTSMSGYIPSYLDKDEQCVVCGDKATGYHYRCIT- |
| MEQK.SKLECGSDPEENS.R..DGKRKRKNGQCPLKT.MS.YIPSYLDKDEQCV.CGDKATGYHYRCIT. | |
| Retrocopy | MEQKLSKLECGSDPEENSSRFSDGKRKRKNGQCPLKTCMSVYIPSYLDKDEQCVMCGDKATGYHYRCIT< |
| Parental | CEGCKGFFRRTIQKNL-HPTYSCKYDSCCVIDKITRNQCQLCRFRKCIAVGMAMDLVLDDSKRVAKRKLI |
| CEGCKGFFRRTIQKNL.HP.YSCKYDSCCVIDKITRNQCQLCRFRKCIAVGMAMDLVLDDSKRVAKRKLI | |
| Retrocopy | CEGCKGFFRRTIQKNL>HPHYSCKYDSCCVIDKITRNQCQLCRFRKCIAVGMAMDLVLDDSKRVAKRKLI |
| Parental | EQNRERRRKEEMIRSLQQRPEPTPEEWDLIHVATEAHRSTNAQGSHWKQRRKFLPDDIGQSPIVSMPDGD |
| EQNR.RRRK.EMI.SLQQRPEPTPEEWDLIHVATEAHRSTNAQGSHWKQRRKFLPDDIGQSPIVSMPDGD | |
| Retrocopy | EQNRDRRRK-EMICSLQQRPEPTPEEWDLIHVATEAHRSTNAQGSHWKQRRKFLPDDIGQSPIVSMPDGD |
| Parental | KVDLEAFSEFTKIITPAITRVV |
| KVDLEAFSEFTKIITPAITRVV | |
| Retrocopy | KVDLEAFSEFTKIITPAITRVV |
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_527 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 | ENSETEG00000013166 | 1 retrocopy |
retro_etel_527 ,
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