RetrogeneDB ID: | retro_acar_42 | ||
Retrocopy location | Organism: | Anole lizard (Anolis carolinensis) | |
| Coordinates: | AAWZ02037240:3560..4865(+) | ||
| Located in intron of: | None | ||
Retrocopy information | Ensembl ID: | ENSACAG00000004334 | |
| Aliases: | None | ||
| Status: | KNOWN_PROTEIN_CODING | ||
Parental gene information | Parental gene summary: | ||
| Parental gene symbol: | None | ||
| Ensembl ID: | ENSACAG00000023083 | ||
| Aliases: | None | ||
| Description: | None |
Retrocopy-Parental alignment summary:
>retro_acar_42
ACTTCATTGTCAAAATCACACACAGGGGAGAAGCGACATAATTGTAAGGACTGTGGGAAATGTTTCATTGAGAGAAGTTC
TCTTGCTAAACATCAACGAACTCACACAGGAGAGAAGCCATATAAATGTGTGGAATGTGGAAAGAGCTTCAATCAGAGTG
GAAATCTACACACCCATCAAAGGACTCACACAGGGGAGAAGCCACATACATGCATGGAATGTGGAAAGAGCTTCAGTCAG
AGTGGAGATCTACGCACCCATCAAAGGACTCACACAGGGGAGAAGCCACATACATGCATGGAATGTGGAAAGAGCTTCAG
TCAGAGTGGACATCTGCGTATCCATCAAAGGATGCACACAGGAGAGAAGCCACATAAATGCATGGAATGTGGAAATAGCT
TCTGTCAGAGTGGAGCTCTGCGTATCCATCAAAGGATACACACAGGAGAGAAGCCACATACATGCATGGAATGTGGAAAG
AGCTTCAGTCAGAGTGGAGATCTACGCACCCATCAAAGGATCCACACAGGGGAGAAGCCACATACATGCATGGAATGTGG
AAAGAGATTCAGTAAGAGTGGACATCTACGCACCCATCAAAGGATCCACACAGGGGAGAAGCCACATACATGCAGGGAAT
GTGGAAAGAGATTCAGTGAGAGTGGACATCTGCGTATCCATCAAAGGATGCACACAGGAGAGAGGCCACATACATGCATG
GAATGTGGAAAGAGATTCAGTCGGAGTGGAAATCTACGCACCCATCAAAGGACTCACACAGGGGAGAAGCCACATACATG
CATGGAATGTGGAAAGAGCTTCAGTAAGAGTGGACATCTGCGTATCCATCAAAGGATACACACAGGAGAGAAGCCACATA
AATGCATGGAATGTGGAAAGAGCTTCAGTCAGAGTGGAGATCTACGCACCCATCAAAGGATCCACACAGGGGAGAAGCCA
CATAAATGCGTGGAATGTGGAAAGAGCTTCATTCAGAGTGGAGATCTACGCACCCATCAAAGGATCCACACAGGGGAGAA
GCCACATAAATGCGTGGAATGTGGAAAGAGCTTCATTCAGAGTGGAGATCTACGCACCCATCAAAGGACTCACACAGGGG
AGAAGCCACATACATGCATGGAATGTGGAAACAGCTTCAGTCAGAGTGGACATCTGCGTATCCATCAAAAGACTCACACA
GGGGAGAAGCCACATAAATGCATGGAATGTGGAAAGAACTATAGTAACAGTTCGAATCTTCATACCCATCAAAAGATTCA
CACAGGAGAGAAGCCACATAAATAG
ORF - retro_acar_42 Open Reading Frame is conserved.
Retrocopy - Parental Gene Alignment summary:
| Percent Identity: | 86.57 % |
| Parental protein coverage: | 62.43 % |
| Number of stop codons detected: | 0 |
| Number of frameshifts detected: | 0 |
Retrocopy - Parental Gene Alignment:
| Parental | DCGKCFIERSSLAKHQRTHTGEKPYKCVECGKSFSQSGHLRIHQRIHTGEKPHTCMECGKSFSKSGNLRT |
| DCGKCFIERSSLAKHQRTHTGEKPYKCVECGKSF.QSG.L..HQR.HTGEKPHTCMECGKSFS.SG.LRT | |
| Retrocopy | DCGKCFIERSSLAKHQRTHTGEKPYKCVECGKSFNQSGNLHTHQRTHTGEKPHTCMECGKSFSQSGDLRT |
| Parental | HQRTHTGEKPYKCMECGKSFSRSDYLRSHQRTHTGEKPHTCRECGKRFSESGHLRIHQRMHTGEKPHTCM |
| HQRTHTGEKP..CMECGKSFS.S..LR.HQR.HTGEKPH.C.ECG..F..SG.LRIHQR.HTGEKPHTCM | |
| Retrocopy | HQRTHTGEKPHTCMECGKSFSQSGHLRIHQRMHTGEKPHKCMECGNSFCQSGALRIHQRIHTGEKPHTCM |
| Parental | ECGKRFSKSGHLRIHQRTHTGEKPHTCRECGKRFSESGHLRIHQRTHTGEKPHTCRECGKRFSESGHLRI |
| ECGK.FS.SG.LR.HQR.HTGEKPHTC.ECGKRFS.SGHLR.HQR.HTGEKPHTCRECGKRFSESGHLRI | |
| Retrocopy | ECGKSFSQSGDLRTHQRIHTGEKPHTCMECGKRFSKSGHLRTHQRIHTGEKPHTCRECGKRFSESGHLRI |
| Parental | HQRMHTGERPHTCMECGKSFSESGNLRTHQRTHTGEKPHTCMECGKRFSKSGHLRIHQRIHTGEKPHKCM |
| HQRMHTGERPHTCMECGK.FS.SGNLRTHQRTHTGEKPHTCMECGK.FSKSGHLRIHQRIHTGEKPHKCM | |
| Retrocopy | HQRMHTGERPHTCMECGKRFSRSGNLRTHQRTHTGEKPHTCMECGKSFSKSGHLRIHQRIHTGEKPHKCM |
| Parental | ECGKSFSQSGDLCTHQRIHTGEKPHKCVECGKSFIQSGDLRTHQRIHTGEKPHKCVECGKSFSQSGDLRT |
| ECGKSFSQSGDL.THQRIHTGEKPHKCVECGKSFIQSGDLRTHQRIHTGEKPHKCVECGKSF.QSGDLRT | |
| Retrocopy | ECGKSFSQSGDLRTHQRIHTGEKPHKCVECGKSFIQSGDLRTHQRIHTGEKPHKCVECGKSFIQSGDLRT |
| Parental | HQKSHTGEKPHKCMECGKNFSNSSNLRTHQKIHTGEKPYKCVECGKSFSQSGHLHTHQRTHTREKPH |
| HQ..HTGEKPH.CMECG..FS.S..LR.HQK.HTGEKP.KC.ECGK..S.S..LHTHQ..HT.EKPH | |
| Retrocopy | HQRTHTGEKPHTCMECGNSFSQSGHLRIHQKTHTGEKPHKCMECGKNYSNSSNLHTHQKIHTGEKPH |
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 | 2 .92 RPM | 0 .43 RPM |
| SRP009831_brain | 3 .36 RPM | 0 .38 RPM |
| SRP009831_dewlap | 0 .38 RPM | 0 .04 RPM |
| SRP009831_embryo | 2 .90 RPM | 0 .62 RPM |
| SRP009831_heart | 4 .46 RPM | 0 .52 RPM |
| SRP009831_liver | 0 .94 RPM | 0 .12 RPM |
| SRP009831_lung | 5 .64 RPM | 0 .76 RPM |
| SRP009831_ovary | 0 .27 RPM | 0 .08 RPM |
| SRP009831_skeletal_muscle | 2 .73 RPM | 0 .33 RPM |
Anolis carolinensis was not studied using ChIP-Seq data.
No EST(s) were mapped for retro_acar_42 retrocopy.
Anolis carolinensis was not studied using FANTOM5 data.
retro_acar_42 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 | ENSACAG00000023083 | 1 retrocopy |
retro_acar_42 ,
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