RetrogeneDB ID: | retro_acar_92 | ||
Retrocopy location | Organism: | Anole lizard (Anolis carolinensis) | |
| Coordinates: | 2:82225137..82225473(-) | ||
| Located in intron of: | ENSACAG00000017569 | ||
Retrocopy information | Ensembl ID: | None | |
| Aliases: | None | ||
| Status: | NOVEL | ||
Parental gene information | Parental gene summary: | ||
| Parental gene symbol: | GTSF1 | ||
| Ensembl ID: | ENSACAG00000014260 | ||
| Aliases: | None | ||
| Description: | gametocyte specific factor 1 [Source:HGNC Symbol;Acc:26565] |
Retrocopy-Parental alignment summary:
>retro_acar_92
TTGCAGTGCCCATATGACAAAAATCATCAGATTAGGGCATGTATGTTTCCCTACCACCTTGTCACATGCTGTAAGCACCA
TCCTGATATTGTGAGAAAGCTGGTCATGTGCCCATTTAATGCCTGCCATCAGGTTCCCAGAGAAGAGCTTTGCCAACACA
TAGCAAACTGTGATGATTAAAAACTCATTGTGCAGGGCATCACATTTGGGCAGAATAACAATAGAAGAAAGGTTAATGAC
AATGTCATACATTCTTCATGGCAACCTCCTCCATCTGAAGAAAACTGGGACAAAGAGATGGACAACCCACCCCCATCCTG
GGGGTCTCCTTCTTCC
ORF - retro_acar_92 Open Reading Frame is not conserved.
Retrocopy - Parental Gene Alignment summary:
| Percent Identity: | 63.48 % |
| Parental protein coverage: | 65.88 % |
| Number of stop codons detected: | 1 |
| Number of frameshifts detected: | 0 |
Retrocopy - Parental Gene Alignment:
| Parental | MQCPYDKNHQIRACRFPYHLVKCRKNHPDIVQKLVMCPFNARHYVPREEISQHISHCDDKRSIEQDIANE |
| .QCPYDKNHQIRAC.FPYHLV.C.K.HPDIV.KLVMCPFNA.H.VPREE..QHI..CDD...I.Q.I... | |
| Retrocopy | LQCPYDKNHQIRACMFPYHLVTCCKHHPDIVRKLVMCPFNACHQVPREELCQHIANCDD*KLIVQGITFG |
| Parental | QKNYRREV--NVIH-SWQSPPCEEDWDKDLEDSPATAFIWGTSRS |
| Q.N.RR.V..NVIH.SWQ.PP.EE.WDK.....P.....WG...S | |
| Retrocopy | QNNNRRKVNDNVIHSSWQPPPSEENWDKEMDNPPPS---WGSPSS |
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 .98 RPM |
| SRP009831_brain | 0 .00 RPM | 1 .28 RPM |
| SRP009831_dewlap | 0 .00 RPM | 176 .47 RPM |
| SRP009831_embryo | 0 .00 RPM | 1 .78 RPM |
| SRP009831_heart | 0 .00 RPM | 1 .19 RPM |
| SRP009831_liver | 0 .00 RPM | 1 .27 RPM |
| SRP009831_lung | 0 .05 RPM | 1 .51 RPM |
| SRP009831_ovary | 0 .00 RPM | 173 .31 RPM |
| SRP009831_skeletal_muscle | 0 .00 RPM | 0 .07 RPM |
Anolis carolinensis was not studied using ChIP-Seq data.
No EST(s) were mapped for retro_acar_92 retrocopy.
Anolis carolinensis was not studied using FANTOM5 data.
retro_acar_92 was not experimentally validated.