RetrogeneDB ID: retro_acar_188

Retrocopy location

• Organism: Anole lizard (Anolis carolinensis)
• Coordinates: GL343406.1:162990..163526(-)
• Located in intron of: None

Retrocopy information

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

Parental gene information

• Parental gene symbol: None
• Ensembl ID: ENSACAG00000004685
• Aliases: None
• Description: Ferritin [Source:UniProtKB/TrEMBL;Acc:H9G9D6]

Sequence

>retro_acar_188
ACCATCATGGAATCCCAAATCCGCCAGAACTACCACTGCAGCTGCGAAGCTGCCATCAACTTCATGGCCAACATGGAGCT
GTACACCAGCTACATCTACCTCTCCATGTTGTCCTACTTTGACTGGGATGATGTTTCTCTTCAACATGTTACCGAATTCT
TCCTTTCACAGTCACATGAGGAGCCAGAACATGCTGAGAAGCTGATGAAGTTCCAGAGCAGGCGTGGTGGATGGGTTCTT
CTGCAAGATATCAAGAAATCAGAAAAAGATTCTTGGGGAAAACTATTGATGCCATGGAGGCAGCCCTTCATCTAGAAAAG
AGTGTGAATCAAGCATTCTTGCATCTGTACCGACTAGCAAGCGATCAAGGTGATCCACATCTGTGTGACTTCTTGGAAAC
ACACTACCTCGATGAGCGAGTCAAAGCCATCAAAGTCCTGGGTGACTACATTGCCAACCTTCAGTGACTGGAATCAGACC
AGAGCTGGTTTGGAGAATATCTCTTTAACAAGCACACCTTGTGGGAGAGCAGCAGC

Alignment

ORF - retro_acar_188 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 82.22 %
• Parental protein coverage: 77.83 %
• Number of stop codons detected: 1
• Number of frameshifts detected: 1

Retrocopy - Parental Gene Alignment:

Parental  TAMESQIRQNYHRDCEAAINRMVNMELYASYVYLSMSSYFDRDDVSLRHVAEFFRSQSHEEREHAEKLLK
          T.MESQIRQNYH..CEAAIN.M.NMELY.SY.YLSM.SYFD.DDVSL.HV.EFF.SQSHEE.EHAEKL.K
Retrocopy TIMESQIRQNYHCSCEAAINFMANMELYTSYIYLSMLSYFDWDDVSLQHVTEFFLSQSHEEPEHAEKLMK

Parental  FQSQRGGRVLLQDIKKPEKDSW-GKTVDAMEAALHLEKSVNQALLDLHRLASDQGDPHLCDFLETHYLDE
          FQS.RGG.VLLQDIKK.EKDSW.GKT.DAMEAALHLEKSVNQA.L.L.RLASDQGDPHLCDFLETHYLDE
Retrocopy FQSRRGGWVLLQDIKKSEKDSW<GKTIDAMEAALHLEKSVNQAFLHLYRLASDQGDPHLCDFLETHYLDE

Parental  QVKAIKVLGDYITNLRRLGADQSGLGEYLFDKHTLGESSS
          .VKAIKVLGDYI.NL..L..DQS..GEYLF.KHTL.ESSS
Retrocopy RVKAIKVLGDYIANLQ*LESDQSWFGEYLFNKHTLWESSS

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	1416.86 RPM
SRP009831_brain	0.00 RPM	249.25 RPM
SRP009831_dewlap	0.00 RPM	478.69 RPM
SRP009831_embryo	0.00 RPM	679.75 RPM
SRP009831_heart	0.00 RPM	2035.96 RPM
SRP009831_liver	0.00 RPM	703.60 RPM
SRP009831_lung	0.00 RPM	3435.43 RPM
SRP009831_ovary	0.00 RPM	565.57 RPM
SRP009831_skeletal_muscle	0.00 RPM	360.03 RPM

ChIP-Seq

Anolis carolinensis was not studied using ChIP-Seq data.

EST

No EST(s) were mapped for retro_acar_188 retrocopy.

TSS

Anolis carolinensis was not studied using FANTOM5 data.

Lab

retro_acar_188 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 3 parental genes, and 8 retrocopies.

Species	Parental gene accession	Retrocopies number
Anolis carolinensis	ENSACAG00000004685	1 retrocopy	retro_acar_188 ,
Macropus eugenii	ENSMEUG00000011453	2 retrocopies	retro_meug_1070, retro_meug_876,
Monodelphis domestica	ENSMODG00000001863	5 retrocopies	retro_mdom_1250, retro_mdom_302, retro_mdom_551, retro_mdom_789, retro_mdom_848,