RetrogeneDB ID: | retro_acar_65 | ||
Retrocopy location | Organism: | Anole lizard (Anolis carolinensis) | |
| Coordinates: | 1:55724266..55725019(-) | ||
| 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: | ENSACAG00000008637 | ||
| Aliases: | None | ||
| Description: | None |
Retrocopy-Parental alignment summary:
>retro_acar_65
CTGGTTTGTGATGGAATTGAAAGAGGAACTCACGTCTGGCTTCTAGTCTTCATGCCATTGTTCTTCGTATCTCCAGTGTC
AGTTGGAGCTTGTGTGTGGGGCTTTCACCATGACAGATCTCTGGAGCTGGAAATCCTGTGTTCCGTCAATATTCTCCAGT
TCATATTCATTGCACTCTGTCTGGATGAAATTATCAAGTGGCCATGGCTTGTTGTCTGTGTCCCTTTGTGGATCCTCATG
TCTTTTTTGTGTTTGGTTGTACTCTACTACATCGTCTGGTCTGTCCTGTTCCTGCGTTCCATGAATGTAATTGCTGAACA
AAGGAGAACACACATAACAATGGCTATCAGTTGGATGACAATCGTGGTCCCATTGCTCACCTTTGAAATCCTGCTTGTGC
ACAGACTGGATGTACATAACACATTCTCCTATATATCTATATTTGTCCCTCTTTGGCTTTCAATGATAACCTTAATGGCA
ACAACATTTAGACAGAAGGGAGGCAATCATTGGTGGTTTGGAATTTGCAAGGACTTCTGTCAATTCCTGCTTGAAATTTT
CCCCTTCGTGAGATAGTATGGCAACATTTCCTGTGATCTTCATCATGAAGACAATGATGAGGTGAAAGAAACGCCCATCC
CCGAACCTCCCAAAATTGCTCCAATGTTTTGAAAAAAGACTGGTGTGGTTATTACCCAGAGTCCCGGGAAATACGTCATT
CCGCCTCCCAAACTAAACATTGATATGCTAGAT
ORF - retro_acar_65 Open Reading Frame is not conserved.
Retrocopy - Parental Gene Alignment summary:
| Percent Identity: | 92.83 % |
| Parental protein coverage: | 89.64 % |
| Number of stop codons detected: | 2 |
| Number of frameshifts detected: | 0 |
Retrocopy - Parental Gene Alignment:
| Parental | LVCDGIERGTRFWLLVFMPLFFVSPVSVAACVWGFRHDRSLELEILCSVNILQFIFIALRLDEIIKWPWL |
| LVCDGIERGT..WLLVFMPLFFVSPVSV.ACVWGF.HDRSLELEILCSVNILQFIFIAL.LDEIIKWPWL | |
| Retrocopy | LVCDGIERGTHVWLLVFMPLFFVSPVSVGACVWGFHHDRSLELEILCSVNILQFIFIALCLDEIIKWPWL |
| Parental | VVCVPLWILMSFLCLVVLYYIVWSVLFLRSMDVIAEQRRTHITMAISWMTIVVPLLTFEILLVHRLDGHN |
| VVCVPLWILMSFLCLVVLYYIVWSVLFLRSM.VIAEQRRTHITMAISWMTIVVPLLTFEILLVHRLD.HN | |
| Retrocopy | VVCVPLWILMSFLCLVVLYYIVWSVLFLRSMNVIAEQRRTHITMAISWMTIVVPLLTFEILLVHRLDVHN |
| Parental | TFSYIPIFVPLWLSLITLMATTFGQKGGNHWWFGIRKDFCQFLLEIFPFLREYGNISYDLHHEDNDEAEE |
| TFSYI.IFVPLWLS.ITLMATTF.QKGGNHWWFGI.KDFCQFLLEIFPF.R.YGNIS.DLHHEDNDE..E | |
| Retrocopy | TFSYISIFVPLWLSMITLMATTFRQKGGNHWWFGICKDFCQFLLEIFPFVR*YGNISCDLHHEDNDEVKE |
| Parental | TPIPEPPKIAPMFRKKTGVVITQSPGKYVIPPPKLNIDMPD |
| TPIPEPPKIAPMF.KKTGVVITQSPGKYVIPPPKLNIDM.D | |
| Retrocopy | TPIPEPPKIAPMF*KKTGVVITQSPGKYVIPPPKLNIDMLD |
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 .70 RPM |
| SRP009831_brain | 0 .05 RPM | 40 .14 RPM |
| SRP009831_dewlap | 0 .00 RPM | 42 .86 RPM |
| SRP009831_embryo | 0 .15 RPM | 23 .00 RPM |
| SRP009831_heart | 0 .00 RPM | 22 .93 RPM |
| SRP009831_liver | 0 .00 RPM | 9 .33 RPM |
| SRP009831_lung | 0 .05 RPM | 20 .20 RPM |
| SRP009831_ovary | 0 .12 RPM | 52 .70 RPM |
| SRP009831_skeletal_muscle | 0 .00 RPM | 6 .08 RPM |
Anolis carolinensis was not studied using ChIP-Seq data.
No EST(s) were mapped for retro_acar_65 retrocopy.
Anolis carolinensis was not studied using FANTOM5 data.
retro_acar_65 was not experimentally validated.