RetrogeneDB ID: retro_acar_93

Retrocopy location

• Organism: Anole lizard (Anolis carolinensis)
• Coordinates: 2:90652639..90652892(-)
• Located in intron of: None

Retrocopy information

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

Parental gene information

• Parental gene symbol: YPEL1
• Ensembl ID: ENSACAG00000001397
• Aliases: None
• Description: None

Sequence

>retro_acar_93
ATGGTAAACATGACAAAATCTGAAATGTTCCGGGCATATTTGCCAAATTGCCACCGAATTTATAGCTATATCCACTGCGG
AGTGCATCTAGCCAACCATGATGAACTAATTTTTAAGTCTTTTCAGGGAAGCCAGGGACCAGCCTATCTCTTTACTTCAG
TGGTGAATGAGCGCTGTGGTCCTGCGGAAGAGAGTTATTTTGATGGGCTTCCATACAGTAGCAGATATTTATTGTGAAAA
CTGCAAAACCACT

Alignment

ORF - retro_acar_93 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 76.74 %
• Parental protein coverage: 71.43 %
• Number of stop codons detected: 0
• Number of frameshifts detected: 1

Retrocopy - Parental Gene Alignment:

Parental  MVKMTKSKTFQAYLPNCHRTYSCIHCRAHLANHDELISKSFQGSQGRAYLFNSVVNVGCGPAEER-VLLT
          MV.MTKS..F.AYLPNCHR.YS.IHC..HLANHDELI.KSFQGSQG.AYLF.SVVN..CGPAEE...L..
Retrocopy MVNMTKSEMFRAYLPNCHRIYSYIHCGVHLANHDELIFKSFQGSQGPAYLFTSVVNERCGPAEES>ILM-

Parental  GLHAVADIYCENCKTT
          G.H.VADIYCENCKTT
Retrocopy GFHTVADIYCENCKTT

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	0.56 RPM
SRP009831_brain	0.00 RPM	8.24 RPM
SRP009831_dewlap	0.00 RPM	2.83 RPM
SRP009831_embryo	0.00 RPM	3.32 RPM
SRP009831_heart	0.00 RPM	1.76 RPM
SRP009831_liver	0.00 RPM	0.33 RPM
SRP009831_lung	0.00 RPM	3.02 RPM
SRP009831_ovary	0.00 RPM	6.02 RPM
SRP009831_skeletal_muscle	0.00 RPM	0.91 RPM

ChIP-Seq

Anolis carolinensis was not studied using ChIP-Seq data.

EST

No EST(s) were mapped for retro_acar_93 retrocopy.

TSS

Anolis carolinensis was not studied using FANTOM5 data.

Lab

retro_acar_93 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 6 parental genes, and 6 retrocopies.

Species	Parental gene accession	Retrocopies number
Anolis carolinensis	ENSACAG00000001397	1 retrocopy	retro_acar_93 ,
Callithrix jacchus	ENSCJAG00000015755	1 retrocopy	retro_cjac_597,
Dasypus novemcinctus	ENSDNOG00000024482	1 retrocopy	retro_dnov_13,
Echinops telfairi	ENSETEG00000008187	1 retrocopy	retro_etel_1965,
Pteropus vampyrus	ENSPVAG00000013638	1 retrocopy	retro_pvam_162,
Tursiops truncatus	ENSTTRG00000016725	1 retrocopy	retro_ttru_1895,