RetrogeneDB ID: retro_acar_105

Retrocopy location

• Organism: Anole lizard (Anolis carolinensis)
• Coordinates: 3:72022621..72022968(-)
• Located in intron of: None

Retrocopy information

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

Parental gene information

• Parental gene symbol: TMEM147
• Ensembl ID: ENSACAG00000010132
• Aliases: None
• Description: None

Sequence

>retro_acar_105
ATGACCCTAATCCACTCTGGGAATTTTTTGCACTGGCATATTTCCCTTATTTCATCACCTACAAATGCAGCGGCCTGTCA
GATTATAATGCTTTTTGGAGATGTATACAAGCTGGAGCCACTTATCTTTTTGTCCAGCTTTGTAAGATGCTGTTTTTAAC
AACCTTCTTTCCAACCTGGGAGGGTGGTACGGGTGTCTATGACTTCTTTGGGGAATTCATGAAGGCCACTGTGAATTTGG
CTGACCTGATGGGATTGCATCTGGTGATGTCCTGGAATGCAAACAAAGGGGAGTACAAGATCATGGTGCTGGCCATGGGG
TGGGCCACAGCAGAGATCATTTTGTCC

Alignment

ORF - retro_acar_105 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 85.47 %
• Parental protein coverage: 51.56 %
• Number of stop codons detected: 0
• Number of frameshifts detected: 1

Retrocopy - Parental Gene Alignment:

Parental  MTLFHFGNC-FALAYFPYFITYKCSGLSEYNAFWRCVQAGATYLFVQLCKMLFLATFFPTWEGGAGAYDF
          MTL.H.GN..FALAYFPYFITYKCSGLS.YNAFWRC.QAGATYLFVQLCKMLFL.TFFPTWEGG.G.YDF
Retrocopy MTLIHSGNF<FALAYFPYFITYKCSGLSDYNAFWRCIQAGATYLFVQLCKMLFLTTFFPTWEGGTGVYDF

Parental  VGEFMKATVDLADLVGLHLVMSRNAGKGEYKIMVAAMGWATAELIMS
          .GEFMKATV.LADL.GLHLVMS.NA.KGEYKIMV.AMGWATAE.I.S
Retrocopy FGEFMKATVNLADLMGLHLVMSWNANKGEYKIMVLAMGWATAEIILS

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	22.15 RPM
SRP009831_brain	0.00 RPM	25.09 RPM
SRP009831_dewlap	0.00 RPM	84.12 RPM
SRP009831_embryo	0.03 RPM	32.22 RPM
SRP009831_heart	0.00 RPM	23.71 RPM
SRP009831_liver	0.00 RPM	28.51 RPM
SRP009831_lung	0.00 RPM	15.87 RPM
SRP009831_ovary	0.04 RPM	87.91 RPM
SRP009831_skeletal_muscle	0.00 RPM	20.87 RPM

ChIP-Seq

Anolis carolinensis was not studied using ChIP-Seq data.

EST

No EST(s) were mapped for retro_acar_105 retrocopy.

TSS

Anolis carolinensis was not studied using FANTOM5 data.

Lab

retro_acar_105 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 10 parental genes, and 13 retrocopies.

Species	Parental gene accession	Retrocopies number
Anolis carolinensis	ENSACAG00000010132	1 retrocopy	retro_acar_105 ,
Ailuropoda melanoleuca	ENSAMEG00000000375	1 retrocopy	retro_amel_1193,
Bos taurus	ENSBTAG00000015920	1 retrocopy	retro_btau_1546,
Canis familiaris	ENSCAFG00000006960	2 retrocopies	retro_cfam_1070, retro_cfam_1265,
Dasypus novemcinctus	ENSDNOG00000004059	1 retrocopy	retro_dnov_1123,
Felis catus	ENSFCAG00000006373	2 retrocopies	retro_fcat_1489, retro_fcat_224,
Myotis lucifugus	ENSMLUG00000016383	1 retrocopy	retro_mluc_1889,
Mustela putorius furo	ENSMPUG00000006709	1 retrocopy	retro_mputfur_588,
Tarsius syrichta	ENSTSYG00000008207	1 retrocopy	retro_tsyr_56,
Tursiops truncatus	ENSTTRG00000015114	2 retrocopies	retro_ttru_1406, retro_ttru_219,