RetrogeneDB ID: retro_acar_80

Retrocopy location

• Organism: Anole lizard (Anolis carolinensis)
• Coordinates: 2:49129024..49129302(+)
• Located in intron of: None

Retrocopy information

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

Parental gene information

• Parental gene symbol: FABP1
• Ensembl ID: ENSACAG00000008459
• Aliases: None
• Description: None

Sequence

>retro_acar_80
GTCCGATGCCATGAAAATTGGAGCCATTCATGAAGGCAATTGGACTTTCTGATGAGTTGATTGAAAAAGGCAAGGATGTG
AAAAGCATCTCTAAATTGTACAGGATGGTAAGTTCAAAGTCACCGTGACAACTGCTAAGAAGTGTTGATTAATGAATTTG
CAAGTGGAGGGGAGGCTGAGTTGACACTCCTATCGAAGAAAAGATCACGGGCAATGTTCAGCTAGAAGGAGACAATAAGA
TGGTTATAAAGCTGAAAGACATCACACCTGTAAGTAAG

Alignment

ORF - retro_acar_80 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 70.71 %
• Parental protein coverage: 70.9 %
• Number of stop codons detected: 0
• Number of frameshifts detected: 4

Retrocopy - Parental Gene Alignment:

Parental  LQTHENF-EPFMKAIGLSDELIEKGKDVKSISE-IEQNGNKFKVTVTTGSK-VLINEFTIGEEAELT-TP
          ...HEN..EPFMKAIGLSDELIEKGKDVKSIS..I.Q.G.KFKVTVTT..K.VLINEF..G.EAELT.TP
Retrocopy VRCHENW<EPFMKAIGLSDELIEKGKDVKSISK<IVQDG-KFKVTVTTAKK<VLINEFASGGEAELT<TP

Parental  TGEKMKAVVHMEGDNKMVAKLKDITSVTE
          ..EK....V..EGDNKMV.KLKDIT.V..
Retrocopy IEEKITGNVQLEGDNKMVIKLKDITPVSK

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	0.16 RPM
SRP009831_brain	0.24 RPM	1.47 RPM
SRP009831_dewlap	0.25 RPM	627.19 RPM
SRP009831_embryo	0.09 RPM	3.88 RPM
SRP009831_heart	0.16 RPM	0.52 RPM
SRP009831_liver	0.00 RPM	0.00 RPM
SRP009831_lung	0.10 RPM	0.76 RPM
SRP009831_ovary	0.08 RPM	957.95 RPM
SRP009831_skeletal_muscle	0.00 RPM	0.66 RPM

ChIP-Seq

Anolis carolinensis was not studied using ChIP-Seq data.

EST

No EST(s) were mapped for retro_acar_80 retrocopy.

TSS

Anolis carolinensis was not studied using FANTOM5 data.

Lab

retro_acar_80 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	ENSACAG00000008459	1 retrocopy	retro_acar_80 ,