RetrogeneDB ID: | retro_acar_19 | ||
Retrocopy location | Organism: | Anole lizard (Anolis carolinensis) | |
| Coordinates: | GL344586.1:10422..11868(-) | ||
| Located in intron of: | None | ||
Retrocopy information | Ensembl ID: | ENSACAG00000029264 | |
| Aliases: | None | ||
| Status: | KNOWN_PROTEIN_CODING | ||
Parental gene information | Parental gene summary: | ||
| Parental gene symbol: | None | ||
| Ensembl ID: | ENSACAG00000021974 | ||
| Aliases: | None | ||
| Description: | None |
Retrocopy-Parental alignment summary:
>retro_acar_19
ATGGAGGAGAAAGCATATAAATGTATCGAATGTGGAAAGAGCTTTAGTCAGCATGGAAAGCTGAAGAGACATCAAAGGAC
TCACACTGGGGAGAAACCCTATAACTCCCTCGAGTGTGGACAGAGCTTCACTGAGAAGGGAAGCTTACATAAACATCAAA
GGACTCACACTGGGGAGAAATCCTATAACTGCCTGGAGTGTGGACAGATCTTCAGTGATTGTTCAAGTCTACGTTCACAT
CAAAGGACCCACACTGGGGAGAAACCTTATAAATGCCTGGAGTGTGGACAGAGATTCTCTAATAATTCACATCTACATAG
ACATCAAAGGACTCACACTGGGGAGAAACCCTATAACTGCCTGGAGTGTGGACAGAGCTTTGCTGTTAGTTCAGGTCTAC
GTTCACATCAAAAGACGCACACTGGGGAGAAACCCTATAACTGCCTGGAGTGTGGACAGAGCTTTGCTGTTAGTTCAGGT
CTACGTTCACATCAAAAGACGCACACTGGGGAGAAACCCTATAACTGCCTGGAGTGTGGACAGAGCTTCTCTCATAGTTC
AAACCTACATAGACATCAAAGGACTCACACTGGGGAGAAACCCTATAAATGCCTGGAGTGTGGACAGAGATTCTCTAATA
ATTCACATCTACATAGACATCAAAGGACTCACACTGGGGAGAAACCCTATAACTGCCTGGAGTGTGGACAGAGCTTTGCT
GTTAGTTCAGGTCTACGTTCACATCAAAAGACGCACACTGGGGAGAAACCCTATAACTGCCTGGAGTGTGGACAGAGCTT
TGCTGTTAGTTCAGGTCTACGTTCACATCAAAAGACGCACACTGGGGAGAAACCCTATAACTGCCTGGAGTGTGGACAGA
GCTTCTCTCATAATTCAAACCTACATAGACATCAAAGGACTCACACTGGGGAGAAACCCTATAAATGCCTGGACTGTGGC
CAGAGCTTTGCTCGTAGTTCAGGTCTACGTATACATCAAAGGACTCACACTGGGGAGAAACCCTATAAATGCCTGGAGTG
TGGACAGAGCTTCACTCAGAGTTCAGGTCTACGTATACATCAAAGGACTCACACTGGGGAGAAACCCTATAAATGCCTGG
AGTGTGGACAGAGCTTCACTCAGAGTTCAGGTCTACGTATACATCAAAGGACTCACACTGGGGAGAAACCCTATAAATGC
CTGGAGTGTGGACAGAGCTTCACTCAGAGTTCAGGTCTACGTATACATCAAAGGATTCACACTGGGGAGAAACCCTATAC
ATGCCTGGAGTGTGGACAGAGCTTCATTCATAGTTCAGGCCTACGTAGACATCTAAGGACTCACACTGGGGAGAAACCCT
ATACATGCCTGCAGTGTGGACAGAGCTTTGCTCAGAGTAGAACTTTACGTTCCCATCAAAGGACTCACACTGGGGAGAAA
CCGTAG
ORF - retro_acar_19 Open Reading Frame is conserved.
Retrocopy - Parental Gene Alignment summary:
| Percent Identity: | 80.67 % |
| Parental protein coverage: | 62.22 % |
| Number of stop codons detected: | 0 |
| Number of frameshifts detected: | 0 |
Retrocopy - Parental Gene Alignment:
| Parental | YKCLECGQSFSHNSHLHRHQRTHTGEKPYNCLECGQSFSHSSSLRRHQRTHTGEKLYNCLECGQSFAHSS |
| YKC.ECG.SFS....L.RHQRTHTGEKPYN.LECGQSF....SL..HQRTHTGEK.YNCLECGQ.F...S | |
| Retrocopy | YKCIECGKSFSQHGKLKRHQRTHTGEKPYNSLECGQSFTEKGSLHKHQRTHTGEKSYNCLECGQIFSDCS |
| Parental | GLRSHQRTHTGEKPYKCLECGQSFSHNLHLHRHQRTHTGEKPYNCLECGQSFAVSSGLRSHQRTHTGEKP |
| .LRSHQRTHTGEKPYKCLECGQ.FS.N.HLHRHQRTHTGEKPYNCLECGQSFAVSSGLRSHQ.THTGEKP | |
| Retrocopy | SLRSHQRTHTGEKPYKCLECGQRFSNNSHLHRHQRTHTGEKPYNCLECGQSFAVSSGLRSHQKTHTGEKP |
| Parental | YKCLECGQSFAQSGHLRSHQRTHTGEKPYNCLECGQSFSDCLSLRSHQRTHTGEKPYKCLECGQSFSRNS |
| Y.CLECGQSFA.S..LRSHQ.THTGEKPYNCLECGQSFS....L..HQRTHTGEKPYKCLECGQ.FS.NS | |
| Retrocopy | YNCLECGQSFAVSSGLRSHQKTHTGEKPYNCLECGQSFSHSSNLHRHQRTHTGEKPYKCLECGQRFSNNS |
| Parental | HLHRHQRTHTGEKPYNCLECGQSFTLKGNLQTHQRTHTGEKPYKCLECGQSFALSSALRRHQRTHTGEKP |
| HLHRHQRTHTGEKPYNCLECGQSF.....L..HQ.THTGEKPY.CLECGQSFA.SS.LR.HQ.THTGEKP | |
| Retrocopy | HLHRHQRTHTGEKPYNCLECGQSFAVSSGLRSHQKTHTGEKPYNCLECGQSFAVSSGLRSHQKTHTGEKP |
| Parental | YNCLDCGQSFARSSGLRSHQKTHTGEKPYKCLECGQSFTQGGHLRSHERTHTGEKPYKCLECGQSFACSS |
| YNCL.CGQSF...S.L..HQ.THTGEKPYKCL.CGQSF.....LR.H.RTHTGEKPYKCLECGQSF..SS | |
| Retrocopy | YNCLECGQSFSHNSNLHRHQRTHTGEKPYKCLDCGQSFARSSGLRIHQRTHTGEKPYKCLECGQSFTQSS |
| Parental | GLRSHQRTHTGEKPYNCLECGQSFIDCSTLRSHQRTHTGEKPYKCLECGQSFARSSGLCSHQRTHTGEKP |
| GLR.HQRTHTGEKPY.CLECGQSF...S.LR.HQRTHTGEKPYKCLECGQSF..SSGL..HQR.HTGEKP | |
| Retrocopy | GLRIHQRTHTGEKPYKCLECGQSFTQSSGLRIHQRTHTGEKPYKCLECGQSFTQSSGLRIHQRIHTGEKP |
| Parental | YNCLECGQSFAHSSGLRSHQKTHTGEKPYKCLECGQSFTQGGHLRSHERTHTGEKP |
| Y.CLECGQSF.HSSGLR.H..THTGEKPY.CL.CGQSF.Q...LRSH.RTHTGEKP | |
| Retrocopy | YTCLECGQSFIHSSGLRRHLRTHTGEKPYTCLQCGQSFAQSRTLRSHQRTHTGEKP |
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 | 1 .12 RPM | 0 .20 RPM |
| SRP009831_brain | 1 .80 RPM | 0 .33 RPM |
| SRP009831_dewlap | 3 .12 RPM | 0 .76 RPM |
| SRP009831_embryo | 3 .53 RPM | 0 .95 RPM |
| SRP009831_heart | 1 .40 RPM | 0 .67 RPM |
| SRP009831_liver | 0 .37 RPM | 0 .12 RPM |
| SRP009831_lung | 0 .71 RPM | 0 .50 RPM |
| SRP009831_ovary | 2 .12 RPM | 0 .77 RPM |
| SRP009831_skeletal_muscle | 0 .22 RPM | 0 .04 RPM |
Anolis carolinensis was not studied using ChIP-Seq data.
No EST(s) were mapped for retro_acar_19 retrocopy.
Anolis carolinensis was not studied using FANTOM5 data.
retro_acar_19 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 | ENSACAG00000021974 | 1 retrocopy |
retro_acar_19 ,
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