RetrogeneDB ID: | retro_acar_148 | ||
Retrocopy location | Organism: | Anole lizard (Anolis carolinensis) | |
| Coordinates: | 6:67068949..67069564(-) | ||
| Located in intron of: | ENSACAG00000017346 | ||
Retrocopy information | Ensembl ID: | ENSACAG00000017358 | |
| Aliases: | None | ||
| Status: | KNOWN_PSEUDOGENE | ||
Parental gene information | Parental gene summary: | ||
| Parental gene symbol: | PARP16 | ||
| Ensembl ID: | ENSACAG00000004437 | ||
| Aliases: | None | ||
| Description: | None |
Retrocopy-Parental alignment summary:
>retro_acar_148
AGCGTGCTGGTGGCTGAGCCAGACTTCCTGTTTGAGATCACCTATTCCAGCCAGATGAATGCCAAATTCAATGAGACCAA
AGCGGGGAGAGATCTCTATTCTTTTCATGGGAGCCGCCTCAAGAACTTCCACTCCATCGTCCACAATGGGCTGCAATGCC
ACCTGAACTGGACCTCCTTGTTCGGGGAAGATACCTACCTGACCAGTGACTTGAGTCTTGCTCTCCTCTATAGCCCCCAC
GGACTCGGCTGGCAGTGGTGCCTCATGGGCTCCGTCCTGAGCTGCATCGCCGTTTGCAAAATCATAGATCACCTGGATGT
CAAGTGCCCAGACCAAAAGAAAGATTCTAAAGAAATCAACAAGACTAGAGCCAGAGTGAAGAACAGCGAAGACAGCAATG
TCCCTCGGAAATACTCTCTGGTAACAAACAACCAGCTGATCCAAGTGAAGTACTTGCTGGTATATTTGGAGAAGCAATAT
CGCAGGTGTTCCAACCAGTTGTGGCTCTCCTTCGCACTGCTTTGCCTTGATGATGAGCCTCTCCCATCTGCTCCTGATGC
TCATTGGCACCAGCAACTCCCCAGCTTTCCTGTCCTATTGAGCAGACTCTTTGAT
ORF - retro_acar_148 Open Reading Frame is not conserved.
Retrocopy - Parental Gene Alignment summary:
| Percent Identity: | 75.6 % |
| Parental protein coverage: | 64.29 % |
| Number of stop codons detected: | 0 |
| Number of frameshifts detected: | 2 |
Retrocopy - Parental Gene Alignment:
| Parental | SVPVAEPDFLFEITYSSQMNAKFEETKAGRDLLYAFHGSRLENFHSIVHNGLQCHLNRTSLFGEGTYLTS |
| SV.VAEPDFLFEITYSSQMNAKF.ETKAGRDL.Y.FHGSRL.NFHSIVHNGLQCHLN.TSLFGE.TYLTS | |
| Retrocopy | SVLVAEPDFLFEITYSSQMNAKFNETKAGRDL-YSFHGSRLKNFHSIVHNGLQCHLNWTSLFGEDTYLTS |
| Parental | DLSLALLYSPHGLGWQRSLMGPVLSCVAVCEIIDHPDVKCQVQKKVDSKEIDKKRARVRNSEGGDVPPMY |
| DLSLALLYSPHGLGWQ..LMG.VLSC.AVC.IIDH.DVKC..QKK.DSKEI.K.RARV.NSE...VP..Y | |
| Retrocopy | DLSLALLYSPHGLGWQWCLMGSVLSCIAVCKIIDHLDVKCPDQKK-DSKEINKTRARVKNSEDSNVPRKY |
| Parental | FLDEDYKLVQDVDLLRHCLPLPFRCSSQSWLS-SHRFALMMSLYLLLLMLIGASNSPAFLSY-WSRLFD |
| .L.....L.Q...LL........RCS.Q.WLS.SH.FALMMSL..LLLMLIG.SNSPAFLSY..SRLFD | |
| Retrocopy | SLVTNNQLIQVKYLLVYLEKQYRRCSNQLWLS>SHCFALMMSLSHLLLMLIGTSNSPAFLSY<LSRLFD |
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 |
|---|---|---|
| SRP009831_adrenal | 0 .10 RPM | 9 .12 RPM |
| SRP009831_brain | 0 .09 RPM | 5 .07 RPM |
| SRP009831_dewlap | 0 .00 RPM | 21 .94 RPM |
| SRP009831_embryo | 0 .06 RPM | 21 .46 RPM |
| SRP009831_heart | 0 .10 RPM | 12 .40 RPM |
| SRP009831_liver | 0 .00 RPM | 8 .59 RPM |
| SRP009831_lung | 0 .45 RPM | 8 .76 RPM |
| SRP009831_ovary | 0 .00 RPM | 29 .42 RPM |
| SRP009831_skeletal_muscle | 0 .00 RPM | 2 .51 RPM |
Anolis carolinensis was not studied using ChIP-Seq data.
No EST(s) were mapped for retro_acar_148 retrocopy.
Anolis carolinensis was not studied using FANTOM5 data.
retro_acar_148 was not experimentally validated.
Retrocopy orthology:
Anolis carolinensis 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 2 parental genes, and 2 retrocopies.| Species | Parental gene accession | Retrocopies number | |
|---|---|---|---|
| Anolis carolinensis | ENSACAG00000004437 | 1 retrocopy |
retro_acar_148 ,
|
| Macropus eugenii | ENSMEUG00000001881 | 1 retrocopy |