RetrogeneDB ID: | retro_acar_73 | ||
Retrocopy location | Organism: | Anole lizard (Anolis carolinensis) | |
| Coordinates: | 1:229491798..229492485(-) | ||
| Located in intron of: | None | ||
Retrocopy information | Ensembl ID: | None | |
| Aliases: | None | ||
| Status: | NOVEL | ||
Parental gene information | Parental gene summary: | ||
| Parental gene symbol: | None | ||
| Ensembl ID: | ENSACAG00000028325 | ||
| Aliases: | None | ||
| Description: | None |
Retrocopy-Parental alignment summary:
>retro_acar_73
AGTCCACCCCAGTGCTGCTCCCTTTTACCAGGGAAGAGGGGCTGGAGCCATAGCCATGCCTCCGGATGGCAACGAGACAT
GATACTCAAAGGGACATGGTTCAGGACAAGCCAAGGAGTGGTGAACTTCAGTGGTACACATTGAACCCGGTGCCGCCCAT
GACCTCTGACTTTTAAACACCATTTGGAGCAGAGAGATCAGGAGACCAATTCCAAGCACTTTGTCTCAGAGGACAAGATG
GTTGCTCACTTTAACTCCCTTAGCTTGGAAAACAACCACATCTACAGCTCTAATGGCTTCCCTATCCACAACAAAGATCC
CCAATGGCAGCAAGCCTAGTCATGCCTGAAAGAGCTACAACAAAGGCTCTCCCAAGACAGAACGCAAAAAGAAACCTGCT
CAGATGATTAAGATGCACTCAACAACGTTATTGTGAACAGAGAATACATCATGGGCTAGTGCCCTTGCTGACGTACCCTT
CTCTCTTATGAGCCAGACTTGAAAACGTTGTGATTACACCTGAAGAACTGCTTCTCTCTTTGAATCCTTGTACAGAGGAT
CTCATGGAGCCCTCACAATAAGTCAAGCTTACACACCATTCGGACAATGATGGGTATCCCCTCTTCCTTGAGTGCCTCTG
TAGAGGCCCAGAAAAAAGTGGTGGGAACAGAAGAGGAAATGGAAGTA
ORF - retro_acar_73 Open Reading Frame is not conserved.
Retrocopy - Parental Gene Alignment summary:
| Percent Identity: | 77.16 % |
| Parental protein coverage: | 93.88 % |
| Number of stop codons detected: | 7 |
| Number of frameshifts detected: | 2 |
Retrocopy - Parental Gene Alignment:
| Parental | SPSQRCSLLPGKRGWSHSHVSGWQRDMTRKGTWFRTSQGVVNFSGTQRSRCRPGPLTFKRHLEHRDQEPN |
| SP.Q.CSLLPGKRGWSHSH.SGWQRDM..KGTWFRTSQGVVNFSGT...RCRP.PLTFK.HLE.RDQE.N | |
| Retrocopy | SPPQCCSLLPGKRGWSHSHASGWQRDMILKGTWFRTSQGVVNFSGTH*TRCRP*PLTFKHHLEQRDQETN |
| Parental | SKHFLSEDKMAARFNSLSLENDHIYSSNGFPIHDEDPQWQQAYSRLKELQQRLSQDRAQDETCSDDEDEL |
| SKHF.SEDKM.A.FNSLSLEN.HIYSSNGFPIH..DPQWQQA.S.LKELQQRLSQDR.Q.ETCSDD.D.L | |
| Retrocopy | SKHFVSEDKMVAHFNSLSLENNHIYSSNGFPIHNKDPQWQQA*SCLKELQQRLSQDRTQKETCSDD*DAL |
| Parental | NNVIVDGEYIMGECP-LLTHPSLLRAGLGEVGITAEELLL-SLNPCTEVVLWSPHNKTSLHTIRTMMGIP |
| NNVIV..EYIMG.CP.LLT.PSLL.A.L..V.IT..E.LL.SL........WSPHNK.SLHTIRTMMGIP | |
| Retrocopy | NNVIVNREYIMG*CP<LLTYPSLL*ARLENVVITP-EELL>SL*ILVQRISWSPHNKSSLHTIRTMMGIP |
| Parental | SSASTSVEAQQKAAGAEEEMEV |
| SS.S.SVEAQ.K..G.EEEMEV | |
| Retrocopy | SSLSASVEAQKKVVGTEEEMEV |
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 .00 RPM | 14 .93 RPM |
| SRP009831_brain | 0 .05 RPM | 15 .53 RPM |
| SRP009831_dewlap | 0 .00 RPM | 34 .26 RPM |
| SRP009831_embryo | 0 .03 RPM | 5 .72 RPM |
| SRP009831_heart | 0 .05 RPM | 13 .23 RPM |
| SRP009831_liver | 0 .00 RPM | 8 .47 RPM |
| SRP009831_lung | 0 .20 RPM | 18 .59 RPM |
| SRP009831_ovary | 0 .00 RPM | 32 .89 RPM |
| SRP009831_skeletal_muscle | 0 .00 RPM | 6 .45 RPM |
Anolis carolinensis was not studied using ChIP-Seq data.
No EST(s) were mapped for retro_acar_73 retrocopy.
Anolis carolinensis was not studied using FANTOM5 data.
retro_acar_73 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 1 parental gene, and 1 retrocopy.| Species | Parental gene accession | Retrocopies number | |
|---|---|---|---|
| Anolis carolinensis | ENSACAG00000028325 | 1 retrocopy |
retro_acar_73 ,
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