RetrogeneDB ID: retro_acar_77

Retrocopy location

• Organism: Anole lizard (Anolis carolinensis)
• Coordinates: 2:11722021..11722282(+)
• Located in intron of: None

Retrocopy information

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

Parental gene information

• Parental gene symbol: None
• Ensembl ID: ENSACAG00000025906
• Aliases: None
• Description: None

Sequence

>retro_acar_77
ATTGTATTGTTGGTGCATAGATGTTGTGTCTGTGGGGATGATTTAGGTTTCAATTTTTATTTTTTATATATATACATATA
TTTTCTTTTTTTCTGTTTTTGTTTTGTTCTCTCTTTCTTTCAATTTAGTTTATTTATCTCTTCCTCAGACATACACCCAA
ATACACACACACACACATTTGTACATGTAATCCATGTTATTGTTCATTACTTGTTTTTTTGCACAATGGTATGTCTGTAT
GTTCTTCACTTATGTTACATG

Alignment

ORF - retro_acar_77 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 51.69 %
• Parental protein coverage: 98.86 %
• Number of stop codons detected: 1
• Number of frameshifts detected: 2

Retrocopy - Parental Gene Alignment:

Parental  IVLLVHRCCVCGDDLGFNLYFIYINF-ILFSVIIVFYCINLLVFFIFYWVARRPSWRSVR-YFFLFLFFV
          IVLLVHRCCVCGDDLGFN.YF.YI...I.......F....L...FI.......P...............V
Retrocopy IVLLVHRCCVCGDDLGFNFYFLYIYI<IFSFFLFLFCSLFLSI*FIYLFLRHTPKYTHTH>FVHVIHVIV

Parental  FCLFFCTMVCLYVLHLCYM
          ..LFFCTMVCLYVLHLCYM
Retrocopy HYLFFCTMVCLYVLHLCYM

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	0.13 RPM	0.00 RPM
SRP009831_brain	0.05 RPM	0.00 RPM
SRP009831_dewlap	0.00 RPM	0.00 RPM
SRP009831_embryo	0.03 RPM	0.03 RPM
SRP009831_heart	0.00 RPM	0.00 RPM
SRP009831_liver	0.04 RPM	0.04 RPM
SRP009831_lung	0.10 RPM	0.05 RPM
SRP009831_ovary	0.00 RPM	0.00 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_77 retrocopy.

TSS

Anolis carolinensis was not studied using FANTOM5 data.

Lab

retro_acar_77 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.

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Parental genes homology:

Parental genes homology involve 1 parental gene, and 1 retrocopy.

Species	Parental gene accession	Retrocopies number
Anolis carolinensis	ENSACAG00000025906	1 retrocopy	retro_acar_77 ,