RetrogeneDB ID: | retro_ptro_55 | ||
Retrocopy location | Organism: | Chimpanzee (Pan troglodytes) | |
| Coordinates: | 17:22942152..22944405(+) | ||
| Located in intron of: | None | ||
Retrocopy information | Ensembl ID: | ENSPTRG00000039807 | |
| Aliases: | None | ||
| Status: | KNOWN_PROTEIN_CODING | ||
Parental gene information | Parental gene summary: | ||
| Parental gene symbol: | TLK2 | ||
| Ensembl ID: | ENSPTRG00000009506 | ||
| Aliases: | None | ||
| Description: | None |
Retrocopy-Parental alignment summary:
>retro_ptro_55
ATGATGGAAGAATTGCATAGCCTGGACCCACGACGGCAGAAATTATTGGAGGCCAGGTTTACTGGAGTAGGTGTTAGTAA
GGGACCACTTAATAGTGAGTCTTCCAACCAGAGCTTGTGCAGCGTCGGATCCTTGAGTGATAAAGAAGTAGAGACTCCCG
AGAAAAAGCAGAATGACCAGCGAAATCGGAAAAGAAAAGGTGAACCATATGAAACTAGCCAAGGGAAAGGCACTCCTAGG
GGACATAAAATTAGTGATTACTTTGAGTTTGCTGGGGGAAGCGGGCCAGGAACCAGCCCTGGCAGAAGTGTTCCACCAGT
TGCACGATCCTCACCGAAACATTCCTTATCCAGTCCCTTACCGCGACGAGTAGAACAGCCCCTCTATGGTTTAGATGGCA
GTGCTGCAAAGGAGGCAACGGAGGAGCAGTCTGCTCTGCCAACCCTCATGTCAGTGATGCTAGCAAAACCTCGGCTTGAC
ACAGAGCAGCTGGCGCAAAGGGGAGCTGGCCTCTGCTTCACTTTTGTTTCAGCTCAGCAAAACAGTCCCTCATCTACGGG
ATCTGGCAACACAGAGCATTCCTGCAGCTCCCAAAAACAGATCTCCATCCAGCACAGACAGACCCAGTCCGACCTCACAA
TAGAAAAAATATCTGCACTAGAAAACAGTAAGAATTCTGACTTAGAGAAGAAGGAGGGAAGAATAGATGATTTATTAAGA
GCCAACTGTGATTTGAGACGGCAGATTGATGAACAGCAAAAGATGCTAGAGAAATACAAGGAACGATTAAATAGATGTGT
GACAATGAGCAAGAAACTCCTTATAGAAAAGTCAAAACAAGAGAAGATGGCGTGTAGAGATAAGAGCATGCAAGACCGCT
TGAGACTGGGCCACTTTACTACTGTCCGACACGGAGCCTCATTTACTGAACAGTGGACAGATGGTTATGCTTTTCAGAAT
CTTATCAAGCAACAGGAAAGGATAAATTCACAGAGGGAAGAGATAGAAAGACAACGGAAAATGTTAGCAAAGCGGAAACC
TCCTGCCATGGGTCAGGCCCCTCCTGCAACCAATGAGCAGAAACAGCGGAAAAGCAAGACCAATGGAGCTGAAAATGAAA
CGTTAACGTTAGCAGAATACCATGAACAAGAAGAAATCTTCAAACTCAGATTAGGTCATCTTAAAAAGGAGGAAGCAGAG
ATCCAGGCAGAGCTGGAGAGGCTAGAAAGGGTTAGAAAGCTACATATCAGGGAACTAAAAAGGATACATAAAGAAGATAA
CTCACAATTTAAATATCATCCAACGCTAAGTGACAGATATTTGTTGTTACATCTTTTGGGTAGAGGAGGTTTCAGTGAAG
TTTACAAGGCATTTGATCTAACAGAGCAAAGATACGTAGCGGTGAAAATTCACCAGTTAAATAAAAACTGGAGAGATGAG
AAAAAGGAGAATTACCACAAGCATGCATGTAGGGAATACCGGATTCATAAAGAGCTGGATCATCCCAGAATAGTTAAGCT
GTATGATTACTTTTCACTGGATACTGACTCGTTTTGTACAGTATTAGAATACTGTGAGGGAAATGATCTGGACTTCTACC
TGAAACAGCACAAATTAATGTCGGAGAAAGAGGCCCGGTCCATTATCATGCAGACTGTGAATGCTTTAAAGTACTTAAAT
GAAATAAAACCTCCCATCATACACTATGACCTCAAACCAGGTAATATTCTTTTAGTAAATGGTACAGCATGTGGAGAGAT
AAAAATTACAGATTTTGGTCTTTCGAAGATCATGGATGATGATAGCTACAATTCAGTGGATGGCATGGAGCTAACATCAC
AAGGTGCTGGTACTTATTGGTATTTACCACCAGAGTGTTTTGTGGTTGGGAAAGAACCACCAAAGATCTCAAATAAAGTT
GATGTGTGGTCGGTGGGCATGATCTTCTATCAGTGTCTTTATGGAAGGAAGACTTTTGGCCATAACCAGTCTCAGCAAGA
CATCCTACAAGAGAATACGATTCTTAAAGCTACTGAAGTGCAGTTCCCACCAAAGCCAGTAGTAACACCTGAAGCAAAGG
CATTGATTCGACGATGCTTGGCCTACCGAAAGGAGGACCGCATTGATGTCCAGCAGCTGGCCTGTGATCCCTACTTGTTG
CCTCACATCCGAAAGTCAGTCTCTACGAGTAGCCCTGCTGGAGCTGCTATTGCATCAACCTCTGGGGCGTCCAATAACAG
TTCTTCTAATTGA
ORF - retro_ptro_55 Open Reading Frame is conserved.
Retrocopy - Parental Gene Alignment summary:
| Percent Identity: | 98.4 % |
| Parental protein coverage: | 100.0 % |
| Number of stop codons detected: | 0 |
| Number of frameshifts detected: | 0 |
Retrocopy - Parental Gene Alignment:
| Parental | MMEELHSLDPRRQELLEARFTGVGVSKGPLNSESSNQSLCSVGSLSDKEVETPEKKQNDQRNRKRKAEPY |
| MMEELHSLDPRRQ.LLEARFTGVGVSKGPLNSESSNQSLCSVGSLSDKEVETPEKKQNDQRNRKRK.EPY | |
| Retrocopy | MMEELHSLDPRRQKLLEARFTGVGVSKGPLNSESSNQSLCSVGSLSDKEVETPEKKQNDQRNRKRKGEPY |
| Parental | ETSQGKGTPRGHKISDYFEFAGGSGPGTSPGRSVPPVARSSPQHSLSNPLPRRVEQPLYGLDGSAAKEAT |
| ETSQGKGTPRGHKISDYFEFAGGSGPGTSPGRSVPPVARSSP.HSLS.PLPRRVEQPLYGLDGSAAKEAT | |
| Retrocopy | ETSQGKGTPRGHKISDYFEFAGGSGPGTSPGRSVPPVARSSPKHSLSSPLPRRVEQPLYGLDGSAAKEAT |
| Parental | EEQSALPTLMSVMLAKPRLDTEQLAQRGAGLCFTFVSAQQNSPSSTGSGNTEHSCSSQKQISIQHRQTQS |
| EEQSALPTLMSVMLAKPRLDTEQLAQRGAGLCFTFVSAQQNSPSSTGSGNTEHSCSSQKQISIQHRQTQS | |
| Retrocopy | EEQSALPTLMSVMLAKPRLDTEQLAQRGAGLCFTFVSAQQNSPSSTGSGNTEHSCSSQKQISIQHRQTQS |
| Parental | DLTIEKISALENSKNSDLEKKEGRIDDLLRANCDLRRQIDEQQKMLEKYKERLNRCVTMSKKLLIEKSKQ |
| DLTIEKISALENSKNSDLEKKEGRIDDLLRANCDLRRQIDEQQKMLEKYKERLNRCVTMSKKLLIEKSKQ | |
| Retrocopy | DLTIEKISALENSKNSDLEKKEGRIDDLLRANCDLRRQIDEQQKMLEKYKERLNRCVTMSKKLLIEKSKQ |
| Parental | EKMACRDKSMQDRLRLGHFTTVRHGASFTEQWTDGYAFQNLIKQQERINSQREEIERQRKMLAKRKPPAM |
| EKMACRDKSMQDRLRLGHFTTVRHGASFTEQWTDGYAFQNLIKQQERINSQREEIERQRKMLAKRKPPAM | |
| Retrocopy | EKMACRDKSMQDRLRLGHFTTVRHGASFTEQWTDGYAFQNLIKQQERINSQREEIERQRKMLAKRKPPAM |
| Parental | GQAPPATNEQKQRKSKTNGAENETLTLAEYHEQEEIFKLRLGHLKKEEAEIQAELERLERVRNLHIRELK |
| GQAPPATNEQKQRKSKTNGAENETLTLAEYHEQEEIFKLRLGHLKKEEAEIQAELERLERVR.LHIRELK | |
| Retrocopy | GQAPPATNEQKQRKSKTNGAENETLTLAEYHEQEEIFKLRLGHLKKEEAEIQAELERLERVRKLHIRELK |
| Parental | RIHNEDNSQFKDHPTLNDRYLLLHLLGRGGFSEVYKAFDLTEQRYVAVKIHQLNKNWRDEKKENYHKHAC |
| RIH.EDNSQFK.HPTL.DRYLLLHLLGRGGFSEVYKAFDLTEQRYVAVKIHQLNKNWRDEKKENYHKHAC | |
| Retrocopy | RIHKEDNSQFKYHPTLSDRYLLLHLLGRGGFSEVYKAFDLTEQRYVAVKIHQLNKNWRDEKKENYHKHAC |
| Parental | REYRIHKELDHPRIVKLYDYFSLDTDSFCTVLEYCEGNDLDFYLKQHKLMSEKEARSIIMQIVNALKYLN |
| REYRIHKELDHPRIVKLYDYFSLDTDSFCTVLEYCEGNDLDFYLKQHKLMSEKEARSIIMQ.VNALKYLN | |
| Retrocopy | REYRIHKELDHPRIVKLYDYFSLDTDSFCTVLEYCEGNDLDFYLKQHKLMSEKEARSIIMQTVNALKYLN |
| Parental | EIKPPIIHYDLKPGNILLVNGTACGEIKITDFGLSKIMDDDSYNSVDGMELTSQGAGTYWYLPPECFVVG |
| EIKPPIIHYDLKPGNILLVNGTACGEIKITDFGLSKIMDDDSYNSVDGMELTSQGAGTYWYLPPECFVVG | |
| Retrocopy | EIKPPIIHYDLKPGNILLVNGTACGEIKITDFGLSKIMDDDSYNSVDGMELTSQGAGTYWYLPPECFVVG |
| Parental | KEPPKISNKVDVWSVGVIFYQCLYGRKPFGHNQSQQDILQENTILKATEVQFPPKPVVTPEAKAFIRRCL |
| KEPPKISNKVDVWSVG.IFYQCLYGRK.FGHNQSQQDILQENTILKATEVQFPPKPVVTPEAKA.IRRCL | |
| Retrocopy | KEPPKISNKVDVWSVGMIFYQCLYGRKTFGHNQSQQDILQENTILKATEVQFPPKPVVTPEAKALIRRCL |
| Parental | AYRKEDRIDVQQLACDPYLLPHIRKSVSTSSPAGAAIASTSGASNNSSSN |
| AYRKEDRIDVQQLACDPYLLPHIRKSVSTSSPAGAAIASTSGASNNSSSN | |
| Retrocopy | AYRKEDRIDVQQLACDPYLLPHIRKSVSTSSPAGAAIASTSGASNNSSSN |
Legend:
| * | Stop codon |
| > | Forward frameshift by one nucleotide |
| < | Reverse frameshift by one nucleotide |
(Hint: click retrocopy or parental gene accession number on the plot's legend, to show / hide expression level values)
Expression validation based on RNA-Seq data:
| Library | Retrocopy expression | Parental gene expression |
|---|---|---|
| SRP007412_brain_prefrontal_cortex | 0 .54 RPM | 16 .66 RPM |
| SRP007412_cerebellum | 0 .04 RPM | 11 .08 RPM |
| SRP007412_heart | 0 .09 RPM | 10 .67 RPM |
| SRP007412_kidney | 0 .05 RPM | 11 .06 RPM |
| SRP007412_liver | 0 .10 RPM | 5 .73 RPM |
| SRP007412_testis | 1 .48 RPM | 76 .30 RPM |
Pan troglodytes was not studied using ChIP-Seq data.
No EST(s) were mapped for retro_ptro_55 retrocopy.
Pan troglodytes was not studied using FANTOM5 data.
retro_ptro_55 was not experimentally validated.
Retrocopy orthology:
Retrocopy retro_ptro_55 has 1 orthologous retrocopies within eutheria group .| Species | RetrogeneDB ID |
|---|---|
| Homo sapiens | retro_hsap_1823 |
Parental genes homology:
Parental genes homology involve 2 parental genes, and 2 retrocopies.| Species | Parental gene accession | Retrocopies number | |
|---|---|---|---|
| Homo sapiens | ENSG00000146872 | 1 retrocopy | |
| Pan troglodytes | ENSPTRG00000009506 | 1 retrocopy |
retro_ptro_55 ,
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