RetrogeneDB ID: | retro_acar_14 | ||
Retrocopy location | Organism: | Anole lizard (Anolis carolinensis) | |
| Coordinates: | GL343631.1:20560..21943(+) | ||
| Located in intron of: | None | ||
Retrocopy information | Ensembl ID: | ENSACAG00000005268 | |
| Aliases: | None | ||
| Status: | KNOWN_PROTEIN_CODING | ||
Parental gene information | Parental gene summary: | ||
| Parental gene symbol: | None | ||
| Ensembl ID: | ENSACAG00000006165 | ||
| Aliases: | None | ||
| Description: | None |
Retrocopy-Parental alignment summary:
>retro_acar_14
TTTCCAGAAGCCTCGCCTCCCTTGAAGCTTTTGCCGGAGGAGAAATACAAGTCCATGTTCCTGTACAACGGCCTCTGGCT
AGGCCCCAAAAATGGCTGCGAATGTGTCAAGAAGGACAAGCTGGTGGTCTATCAAATGGAACGTTCTATCGACAAGGACA
AGCTGGCTGCGGTCACAAAGAGACGCGAGAAAGAATTCAAGGATTATCAGAGAAGATATTCCTATCGGGAAAAGGACGTC
GTCGTTGCTCGGCCCAACGTGCCTTTGAGCTACCCCATCCAAGGAGCCGAGGTGATGCCTTTCCACACCATTGTCATCCC
AGGGCTTGGCTTCCATGGAGGACATGCGGAGGAGAAACATAAGGTGACCTTAGAGGCATCCTTGGGTACTTTGGACACAC
TTGCCGACGTCCCCCAATACGTTGTGAATGGGCGAGGGAAGAAAAAACTGACCATCTCCACTGCTCACGTGGAGCTTCTC
AACCACATCTTGAAACACGTCACATACACGAGTACGGAATATTTACTGCATGCAGTGGACTTCATGAGCTTTTCAACAGG
GCATCACCACGTGATGTTCCCGGTGATGATCCGGCAGCCCTACATGCCGAAGTTGTTCGATCCAGGGCCGGATAACAACA
TCCGCGATTTAGTGACCATCACAACAAAGACTTTCTTCCGTTACCACAAGCTGCGGGCCCTGATCAAGAGCATCAGGAAG
TTCTATCCGGATATAACCATCATTGTGGCCGACGACAACGAACATCCCGAGAAGATCGAAGAACCTCACGTCGAACATTT
CATCATGCCGTTTGCAAAGGGTTGGTTTGCCGGGAGGAATCTCGCCGTCTCTCAGGTCACAACGAAATACTACCTTTGGG
TGGATGATGACTTCTTGTTCACGGAGGAAACCAAGATCGAGGAATTGGTGGCCGTGTTGGAGAACACCAACTTGGACGTG
GTTGGCGGCTCCGTTCAACGAAACGATTACAAGTTCCGGATCATTTACGAGGAAGGAGACGGCAGCAGCTGTGTACACCT
CAGGTTCGGCTCTTACCACCGCTTAGAAGGCTTTCCTCATTGCGTGGTCGCCAGCAGCGTGGTCAACTTCTTCCTTGCCC
GTATGGAGGAGACCAGATGCGTTGGGTTTGACCCAAAGCTGCGGAGAGTGGCTCACTCGGAATATTTTGTGGACGGGCTG
GGGCGTTTGCGGGTCGGTTCCTGCAATCATGTCACTGTGGACCACCAGCCTCTTGATACTGCAAAGAATTCGGACGAGCG
TAATGCTGAGCACACATATAGTAAATACCGGGACAGCACACCGGAACAGGTCCAGTTTAAGATGGCTTTGTGGTTCTTTA
AGTACAGGATGAAATGCTTGTCA
ORF - retro_acar_14 Open Reading Frame is conserved.
Retrocopy - Parental Gene Alignment summary:
| Percent Identity: | 83.73 % |
| Parental protein coverage: | 90.55 % |
| Number of stop codons detected: | 0 |
| Number of frameshifts detected: | 0 |
Retrocopy - Parental Gene Alignment:
| Parental | FPEASPPFKLLPEKKYKSMFLYNDIWLGPKNYCECVQKDKEQIYQLDNYIDKDKLASVTKRREKEFKDYQ |
| FPEASPP.KLLPE.KYKSMFLYN..WLGPKN.CECV.KDK...YQ....IDKDKLA.VTKRREKEFKDYQ | |
| Retrocopy | FPEASPPLKLLPEEKYKSMFLYNGLWLGPKNGCECVKKDKLVVYQMERSIDKDKLAAVTKRREKEFKDYQ |
| Parental | RRYSYQKKDVLVAQPNVPLSYPIQGAEVMPLHTIVIPGLSFHGENTE-KQKVTLEASFGTLDTLADVPQD |
| RRYSY..KDV.VA.PNVPLSYPIQGAEVMP.HTIVIPGL.FHG...E.K.KVTLEAS.GTLDTLADVPQ. | |
| Retrocopy | RRYSYREKDVVVARPNVPLSYPIQGAEVMPFHTIVIPGLGFHGGHAEEKHKVTLEASLGTLDTLADVPQY |
| Parental | VMNGRGMKKLIISTAHVDLLNHILKHVTYTSTEYLLDTVDFVNFTTGDHHVKFPVTIRQPYMPKLFDPGP |
| V.NGRG.KKL.ISTAHV.LLNHILKHVTYTSTEYLL..VDF..F.TG.HHV.FPV.IRQPYMPKLFDPGP | |
| Retrocopy | VVNGRGKKKLTISTAHVELLNHILKHVTYTSTEYLLHAVDFMSFSTGHHHVMFPVMIRQPYMPKLFDPGP |
| Parental | DNNIRNLVTITTKTFFRYHKLRILIKSIRKFYPDITIIVADDSEHPEKIEEPNVEHFIMPFAKGWFAGRN |
| DNNIR.LVTITTKTFFRYHKLR.LIKSIRKFYPDITIIVADD.EHPEKIEEP.VEHFIMPFAKGWFAGRN | |
| Retrocopy | DNNIRDLVTITTKTFFRYHKLRALIKSIRKFYPDITIIVADDNEHPEKIEEPHVEHFIMPFAKGWFAGRN |
| Parental | LAISQVTTKYYLWVDDDFVFTEKTKIEEFVAVLENTNLDVVGGAVQGNDYKFRVIYEEGEDSSCVHLRFG |
| LA.SQVTTKYYLWVDDDF.FTE.TKIEE.VAVLENTNLDVVGG.VQ.NDYKFR.IYEEG..SSCVHLRFG | |
| Retrocopy | LAVSQVTTKYYLWVDDDFLFTEETKIEELVAVLENTNLDVVGGSVQRNDYKFRIIYEEGDGSSCVHLRFG |
| Parental | SYHRLEGFPHCVVTSGVVNFFLARTEESRCIGFDPKLLRVAHSEYFVDGLGRLRVGSCYHVDVGHQPHDP |
| SYHRLEGFPHCVV.S.VVNFFLAR.EE.RC.GFDPKL.RVAHSEYFVDGLGRLRVGSC.HV.V.HQP.D. | |
| Retrocopy | SYHRLEGFPHCVVASSVVNFFLARMEETRCVGFDPKLRRVAHSEYFVDGLGRLRVGSCNHVTVDHQPLDT |
| Parental | AKDLEERKAEHTYSKFRANTQEQVQFKLALQFFKNRMKCFS |
| AK...ER.AEHTYSK.R..T.EQVQFK.AL.FFK.RMKC.S | |
| Retrocopy | AKNSDERNAEHTYSKYRDSTPEQVQFKMALWFFKYRMKCLS |
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 | 0 .13 RPM |
| SRP009831_brain | 0 .05 RPM | 0 .00 RPM |
| SRP009831_dewlap | 0 .08 RPM | 412 .93 RPM |
| SRP009831_embryo | 0 .00 RPM | 1 .69 RPM |
| SRP009831_heart | 0 .05 RPM | 0 .83 RPM |
| SRP009831_liver | 0 .00 RPM | 0 .98 RPM |
| SRP009831_lung | 0 .00 RPM | 2 .22 RPM |
| SRP009831_ovary | 0 .04 RPM | 459 .28 RPM |
| SRP009831_skeletal_muscle | 0 .00 RPM | 0 .04 RPM |
Anolis carolinensis was not studied using ChIP-Seq data.
No EST(s) were mapped for retro_acar_14 retrocopy.
Anolis carolinensis was not studied using FANTOM5 data.
retro_acar_14 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 | ENSACAG00000006165 | 1 retrocopy |
retro_acar_14 ,
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