RetrogeneDB ID: retro_acar_91

Retrocopy location

• Organism: Anole lizard (Anolis carolinensis)
• Coordinates: 2:72451503..72452361(-)
• Located in intron of: None

Retrocopy information

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

Parental gene information

• Parental gene symbol: ARG2
• Ensembl ID: ENSACAG00000005722
• Aliases: None
• Description: None

Sequence

>retro_acar_91
ATGTCGCTTCGCAGCAGCTTCGGCCGGCTCCTTAAGCAGCGAGCGGGATCCAAGTTGAGGGTCCAGAAGAGACCGGCGCA
CTCGGTGGCCCTGATTGGAGCACCTTTCTCCCGGGGCCAGAAAAAAAGCGGAGTGGACCATGGCCCTGCCGCCATCATGG
ACGCGGGGCTGGTGGGCAAGCTCTCCCGCATGGGTTGCCAGGTATATGATCTGGGAGACTTAAATTTCACACAAGCCCCC
AATGATGAAGTCTACAACAACCTAGTGAAATATCCACGCTCTGTAGGATCAGCTAGCCAAGTTCTAGCTGACACTGTGAA
TGGAGCCGTGGCTGCTGGTCATAGCTGTGTAACTATCGGAGGTGATCACAGTTTAGCACTTGGTTTCATCAGTGGCCACA
CAAGGCAGTACCCACACCTCTGTGTAATCTGGGTAGATGCACATGCGGACATCAATACTCCACTCACCACAAATTCAGGG
AATCTCCATGGACAGCCAGTATCATTTCTTTTAAGGGAGCTTCAAGATAAGGTGCCACAGCTTCCTGGCTTCTCTTGGCT
AAAACCCTGTCTTTCGCGATCAGATATTGTATATATTGGCTTAAGAGATGTTGATCCTGCTGAACACTATATTCTGAAGA
ACTATGGCATCCAGTATTTTTCAATGAGAGACATTGATCGCTTAGGGATCCAGAAAGTGATGGAGAGAACCTTTGACTAC
CTTTTGAGCAGAGGACAAAGACCTATCCATCTCAGCTTCAACATTGATGCCTTTGATCCAACACTGGCTCCATCAACCGG
GACTCCTGTCTTGGGTGGCTTAACATATTGTGAAGGAATGTACATTTCAGAGGAAATT

Alignment

ORF - retro_acar_91 Open Reading Frame is conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 97.2 %
• Parental protein coverage: 80.11 %
• Number of stop codons detected: 0
• Number of frameshifts detected: 0

Retrocopy - Parental Gene Alignment:

Parental  MSLRSSFGRLLKQRAGSTLRVQKRPAHSVALIGAPFSRGQKKSGVDHGPAAIRDAGLVGKLSRMGCQVYD
          MSLRSSFGRLLKQRAGS.LRVQKRPAHSVALIGAPFSRGQKKSGVDHGPAAI.DAGLVGKLSRMGCQVYD
Retrocopy MSLRSSFGRLLKQRAGSKLRVQKRPAHSVALIGAPFSRGQKKSGVDHGPAAIMDAGLVGKLSRMGCQVYD

Parental  LGDLNFTQIPNDELYNNLVKYPRSVGSASQVLADTVNGAVAAGHSCVTIGGDHSLALGSISGHTRQYPHL
          LGDLNFTQ.PNDE.YNNLVKYPRSVGSASQVLADTVNGAVAAGHSCVTIGGDHSLALG.ISGHTRQYPHL
Retrocopy LGDLNFTQAPNDEVYNNLVKYPRSVGSASQVLADTVNGAVAAGHSCVTIGGDHSLALGFISGHTRQYPHL

Parental  CVIWVDAHADINTPLTTNSGNLHGQPVSFLLRELQDKVPQLPGFSWLKPCLSRSDIVYIGLRDVDPAEHY
          CVIWVDAHADINTPLTTNSGNLHGQPVSFLLRELQDKVPQLPGFSWLKPCLSRSDIVYIGLRDVDPAEHY
Retrocopy CVIWVDAHADINTPLTTNSGNLHGQPVSFLLRELQDKVPQLPGFSWLKPCLSRSDIVYIGLRDVDPAEHY

Parental  ILKNYGIQYFSMRDIDRLGIQKVMERTFDHLLSRGQRPIHLSFDIDAFDPTLAPSTGTPVLGGLTYREGM
          ILKNYGIQYFSMRDIDRLGIQKVMERTFD.LLSRGQRPIHLSF.IDAFDPTLAPSTGTPVLGGLTY.EGM
Retrocopy ILKNYGIQYFSMRDIDRLGIQKVMERTFDYLLSRGQRPIHLSFNIDAFDPTLAPSTGTPVLGGLTYCEGM

Parental  YISEEI
          YISEEI
Retrocopy YISEEI

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	9.19 RPM
SRP009831_brain	0.09 RPM	29.30 RPM
SRP009831_dewlap	0.25 RPM	91.46 RPM
SRP009831_embryo	0.30 RPM	68.02 RPM
SRP009831_heart	0.00 RPM	10.17 RPM
SRP009831_liver	0.12 RPM	20.16 RPM
SRP009831_lung	0.00 RPM	8.71 RPM
SRP009831_ovary	0.39 RPM	108.14 RPM
SRP009831_skeletal_muscle	0.04 RPM	7.36 RPM

ChIP-Seq

Anolis carolinensis was not studied using ChIP-Seq data.

EST

No EST(s) were mapped for retro_acar_91 retrocopy.

TSS

Anolis carolinensis was not studied using FANTOM5 data.

Lab

retro_acar_91 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 12 parental genes, and 16 retrocopies.

Species	Parental gene accession	Retrocopies number
Anolis carolinensis	ENSACAG00000005722	1 retrocopy	retro_acar_91 ,
Choloepus hoffmanni	ENSCHOG00000007159	1 retrocopy	retro_chof_1179,
Callithrix jacchus	ENSCJAG00000015277	4 retrocopies	retro_cjac_1933, retro_cjac_2357, retro_cjac_2561, retro_cjac_902,
Dasypus novemcinctus	ENSDNOG00000004808	1 retrocopy	retro_dnov_251,
Homo sapiens	ENSG00000081181	1 retrocopy	retro_hsap_3501,
Gorilla gorilla	ENSGGOG00000005615	1 retrocopy	retro_ggor_2367,
Microcebus murinus	ENSMICG00000010837	1 retrocopy	retro_mmur_874,
Monodelphis domestica	ENSMODG00000009978	1 retrocopy	retro_mdom_257,
Nomascus leucogenys	ENSNLEG00000000741	2 retrocopies	retro_nleu_2875, retro_nleu_792,
Oryctolagus cuniculus	ENSOCUG00000000584	1 retrocopy	retro_ocun_277,
Pongo abelii	ENSPPYG00000005926	1 retrocopy	retro_pabe_2893,
Pan troglodytes	ENSPTRG00000006467	1 retrocopy	retro_ptro_2373,