RetrogeneDB ID: | retro_acar_158 | ||
Retrocopy location | Organism: | Anole lizard (Anolis carolinensis) | |
| Coordinates: | GL343209.1:1224665..1225055(-) | ||
| Located in intron of: | ENSACAG00000008892 | ||
Retrocopy information | Ensembl ID: | None | |
| Aliases: | None | ||
| Status: | NOVEL | ||
Parental gene information | Parental gene summary: | ||
| Parental gene symbol: | None | ||
| Ensembl ID: | ENSACAG00000022172 | ||
| Aliases: | None | ||
| Description: | None |
Retrocopy-Parental alignment summary:
>retro_acar_158
TTCTTCCAAGGGGAGAGCTTTGACTACATTGGCAGTTCTCGCATGGTGTATGATATGCAGAATGAAAAGTTCCTTATTGG
CCTGGATAACATCCATTCCTTCATGGAGCTGAGTCGGGTTGCACTCAGGAATGGCTCAGATTTGTGGATGCATATAGATC
CTGTCTCTCAGAAGAACCACTCTGTTAACACGACCGTCAAAAACATGGTGAAGATGCTGAAAAGCAGCAGCCAAAACACC
AACGTGGTAATGAATGAGATCGGATTGACCCAGCCACTTCCACCATCTTCCTTCTAGCATTTCCTAAGGGCCAGGCAGCT
CCCAGGACTGGTATTAGCTAACCACCACTCCACTTTTCACAACAGGTACTACCAGAGCATCTATGACACA
ORF - retro_acar_158 Open Reading Frame is not conserved.
Retrocopy - Parental Gene Alignment summary:
| Percent Identity: | 68.46 % |
| Parental protein coverage: | 97.01 % |
| Number of stop codons detected: | 1 |
| Number of frameshifts detected: | 0 |
Retrocopy - Parental Gene Alignment:
| Parental | FLFQETFDYIGSSRMVYDMQNGKFPIKLDNIHSFLEISQVALRNGSDLWMHTDPVSQRNQSLQGSIQTML |
| F...E.FDYIGSSRMVYDMQN.KF.I.LDNIHSF.E.S.VALRNGSDLWMH.DPVSQ.N.S.......M. | |
| Retrocopy | FFQGESFDYIGSSRMVYDMQNEKFLIGLDNIHSFMELSRVALRNGSDLWMHIDPVSQKNHSVNTTVKNMV |
| Parental | GALKNMSVGTPLSLREIGLTQPLPPSSFQRFLRARPIPGVVLADHQTTFHNRYFQSIYDT |
| ..LK..S..T.....EIGLTQPLPPSSF..FLRAR..PG.VLA.H..TFHNRY.QSIYDT | |
| Retrocopy | KMLKSSSQNTNVVMNEIGLTQPLPPSSF*HFLRARQLPGLVLANHHSTFHNRYYQSIYDT |
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 .03 RPM | 0 .82 RPM |
| SRP009831_brain | 0 .00 RPM | 4 .97 RPM |
| SRP009831_dewlap | 0 .00 RPM | 9 .03 RPM |
| SRP009831_embryo | 0 .12 RPM | 2 .49 RPM |
| SRP009831_heart | 0 .05 RPM | 6 .69 RPM |
| SRP009831_liver | 0 .00 RPM | 3 .07 RPM |
| SRP009831_lung | 0 .25 RPM | 4 .18 RPM |
| SRP009831_ovary | 0 .08 RPM | 12 .51 RPM |
| SRP009831_skeletal_muscle | 0 .04 RPM | 1 .57 RPM |
Anolis carolinensis was not studied using ChIP-Seq data.
No EST(s) were mapped for retro_acar_158 retrocopy.
Anolis carolinensis was not studied using FANTOM5 data.
retro_acar_158 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 2 parental genes, and 2 retrocopies.| Species | Parental gene accession | Retrocopies number | |
|---|---|---|---|
| Anolis carolinensis | ENSACAG00000016223 | 1 retrocopy | |
| Anolis carolinensis | ENSACAG00000022172 | 1 retrocopy |
retro_acar_158 ,
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