RetrogeneDB ID: retro_acar_114

Retrocopy location

• Organism: Anole lizard (Anolis carolinensis)
• Coordinates: 3:195788045..195788306(-)
• Located in intron of: ENSACAG00000014070

Retrocopy information

• Ensembl ID: None
• Aliases: None
• Status: NOVEL

Parental gene information

• Parental gene symbol: None
• Ensembl ID: ENSACAG00000027877
• Aliases: None
• Description: None

Sequence

>retro_acar_114
GCTAAAGCCTTTCAACTAGAGGACACATCCCTTGCCAAACTCCAAAAGGACCTTGCTAAGCATATGGTGGAATCCGCTGG
TAAGCTCTTTGCAATGGCGATCTCCGTCCATCAACATGCTTAGCTTCGGTCATCAGACTTGTCTGAGGAGGGACGTGCCA
TCGCAGAGGATTTCCCATTGCTTGATGGACTCTTCAATCCTGAAACTGATACTAGACTTAAACATATTTAGAAAATGCAT
CAAATGGCACATTCAGGTCAT

Alignment

ORF - retro_acar_114 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 55.68 %
• Parental protein coverage: 50.29 %
• Number of stop codons detected: 2
• Number of frameshifts detected: 0

Retrocopy - Parental Gene Alignment:

Parental  ARAFHLEAISLAKLQKDLGKHMADSAGKLFAIATSIRRHGWLRASGLSEEGRAVAEDLPMDNTGLFKQEV
          A.AF.LE..SLAKLQKDL.KHM..SAGKLFA.A.S...H..LR.S.LSEEGRA.AED.P....GLF..E.
Retrocopy AKAFQLEDTSLAKLQKDLAKHMVESAGKLFAMAISVHQHA*LRSSDLSEEGRAIAEDFPLLD-GLFNPET

Parental  EALVKEDAYFHISIHKDH
          ....K.....H...H..H
Retrocopy DTRLKHI*KMHQMAHSGH

Legend:

• *: Stop codon
• >: Forward frameshift by one nucleotide
• <: Reverse frameshift by one nucleotide

Expression

RNA-Seq

Expression validation based on RNA-Seq data:

Library	Retrocopy expression	Parental gene expression
SRP009831_adrenal	0.00 RPM	0.10 RPM
SRP009831_brain	0.00 RPM	0.05 RPM
SRP009831_dewlap	0.00 RPM	0.00 RPM
SRP009831_embryo	0.00 RPM	0.21 RPM
SRP009831_heart	0.00 RPM	0.00 RPM
SRP009831_liver	0.00 RPM	0.00 RPM
SRP009831_lung	0.00 RPM	0.35 RPM
SRP009831_ovary	0.00 RPM	0.04 RPM
SRP009831_skeletal_muscle	0.00 RPM	0.00 RPM

ChIP-Seq

Anolis carolinensis was not studied using ChIP-Seq data.

EST

No EST(s) were mapped for retro_acar_114 retrocopy.

TSS

Anolis carolinensis was not studied using FANTOM5 data.

Lab

retro_acar_114 was not experimentally validated.

Homology

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	ENSACAG00000027877	1 retrocopy	retro_acar_114 ,