RetrogeneDB ID: | retro_acar_55 | ||
Retrocopy location | Organism: | Anole lizard (Anolis carolinensis) | |
| Coordinates: | 2:67864601..67865633(-) | ||
| Located in intron of: | ENSACAG00000011281 | ||
Retrocopy information | Ensembl ID: | ENSACAG00000011824 | |
| Aliases: | None | ||
| Status: | KNOWN_PROTEIN_CODING | ||
Parental gene information | Parental gene summary: | ||
| Parental gene symbol: | None | ||
| Ensembl ID: | ENSACAG00000014536 | ||
| Aliases: | None | ||
| Description: | None |
Retrocopy-Parental alignment summary:
>retro_acar_55
CTAGCTGATACATGCATCTCTTTAGCTCTTGCTCAGCCAGCTATGAAAGCCCAACCGTTCAGAAAAACCACCAGCAGACT
TTGGTCTCTTTCAAAATTTTGTTCTTCTCTCATGAACGTGAGGGGGCAGCGCTCCTACGGCACAGAAGTAGAAAAGATTG
GCGAGCGACCTGTCCTCATCACTGGCTGTGACTCTGGGTTTGGTTTCCAGCTGGCCAAGCACCTACATGGAAAGGGTTTC
ATTGTCTATGCTGGTTGCCTACAGAAGGCGCAAGGCAAGGGAGGCTCCAAAGACCTGGATGACATGAAAAGCGATCGCAT
GAGAACCATTCAGCTCGATGTCTGTAGCAACGAAGATGTGGCGCGTGCATTGGACCATGTAACTGCCTCTCTGAAGAACC
CAGAGGCTGGACTGTGGGGTGTAGTCAACAACGCTGGGATCTCCACTTTTGGGGAGGTAGAGTTCACCAGCATGGACACC
TATAAAAAACTGGCTGAGGTGAATCTCTGGGGGACCGTCCGCACTACAAAGGCCTTCCTGCCTCTCATCCGGAGGGCCAA
GGGTCGCGTTGTGAATATAACCAGCATGCTGGGGCGGATGGCAAGCCCAGCTCGCTCCCCTTATTGCATCACCAAGTTTG
CTGTGGAAGCCTTCTCTGACTGTCTGCGCTATGAGATGCAACCCCATGAGGTCAAGGTCTGCATCGTGGAACCCGGAAAT
TTCATTGCAGGCACAAGCCTGTACAGCTCTGAAGGCATCAAGGCCACTGCCGAGAAGATGTGGAATGAGATGCCTGAAAC
AGTGCGGCAGGATTATGGACGGAAGTATTTTGATGAGCAAGTGGCCAAGATGGAGACATACTGCCAAAGTGGCTCCACAG
ACCTTTCTCCTGTCATCGAGAGCATCACTCATGCTCTGACTTCTCCCTCTCCCTATACTCGGTACCATCCCATGGACTAT
TACTGGTGGCTACGCATGCAAGTGATGACTCACTTGCCAGGTGCTATTTCGGATCGCCTGTACATTTATTAA
ORF - retro_acar_55 Open Reading Frame is conserved.
Retrocopy - Parental Gene Alignment summary:
| Percent Identity: | 82.53 % |
| Parental protein coverage: | 100.0 % |
| Number of stop codons detected: | 0 |
| Number of frameshifts detected: | 0 |
Retrocopy - Parental Gene Alignment:
| Parental | QIGERGVLITGCDSGFGFALAKHLHERGFIIYAGCLLKEQGRGGSKELDDMKSDRMRTVQLNVCDSEEVG |
| .IGER.VLITGCDSGFGF.LAKHLH..GFI.YAGCL.K.QG.GGSK.LDDMKSDRMRT.QL.VC..E.V. | |
| Retrocopy | KIGERPVLITGCDSGFGFQLAKHLHGKGFIVYAGCLQKAQGKGGSKDLDDMKSDRMRTIQLDVCSNEDVA |
| Parental | RAVDHVTATMKD-EAGLWGLVNNAGISTFGEVEFTSMDTYKEVAEVNLWGTIRTTKSFLPLIRRAKGRVV |
| RA.DHVTA..K..EAGLWG.VNNAGISTFGEVEFTSMDTYK..AEVNLWGT.RTTK.FLPLIRRAKGRVV | |
| Retrocopy | RALDHVTASLKNPEAGLWGVVNNAGISTFGEVEFTSMDTYKKLAEVNLWGTVRTTKAFLPLIRRAKGRVV |
| Parental | NISSMMGRMANPARSPYCITKFGVEAFSDCLRYEMRPHDVKVCIVEPGNFIAGTSLYSPERIQAIADKMW |
| NI.SM.GRMA.PARSPYCITKF.VEAFSDCLRYEM.PH.VKVCIVEPGNFIAGTSLYS.E.I.A.A.KMW | |
| Retrocopy | NITSMLGRMASPARSPYCITKFAVEAFSDCLRYEMQPHEVKVCIVEPGNFIAGTSLYSSEGIKATAEKMW |
| Parental | DELPEIVRRDYGRKYFDEQIAKMESYCNSGSADTSPVIDSITHALTSTTPYTRYHPMDYYWWLRMQVMTH |
| .E.PE.VR.DYGRKYFDEQ.AKME.YC.SGS.D.SPVI.SITHALTS..PYTRYHPMDYYWWLRMQVMTH | |
| Retrocopy | NEMPETVRQDYGRKYFDEQVAKMETYCQSGSTDLSPVIESITHALTSPSPYTRYHPMDYYWWLRMQVMTH |
| Parental | MPAAISDRLYIY |
| .P.AISDRLYIY | |
| Retrocopy | LPGAISDRLYIY |
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 .03 RPM | 8 .27 RPM |
| SRP009831_brain | 0 .05 RPM | 59 .70 RPM |
| SRP009831_dewlap | 0 .04 RPM | 16 .62 RPM |
| SRP009831_embryo | 0 .03 RPM | 43 .27 RPM |
| SRP009831_heart | 0 .26 RPM | 92 .25 RPM |
| SRP009831_liver | 0 .00 RPM | 8 .10 RPM |
| SRP009831_lung | 0 .00 RPM | 20 .35 RPM |
| SRP009831_ovary | 0 .04 RPM | 26 .10 RPM |
| SRP009831_skeletal_muscle | 0 .00 RPM | 17 .59 RPM |
Anolis carolinensis was not studied using ChIP-Seq data.
No EST(s) were mapped for retro_acar_55 retrocopy.
Anolis carolinensis was not studied using FANTOM5 data.
retro_acar_55 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 | ENSACAG00000014536 | 1 retrocopy |
retro_acar_55 ,
|
| Latimeria chalumnae | ENSLACG00000016430 | 1 retrocopy |