RetrogeneDB ID: retro_acar_5

Retrocopy location

• Organism: Anole lizard (Anolis carolinensis)
• Coordinates: GL343343.1:194928..196683(-)
• Located in intron of: None

Retrocopy information

• Ensembl ID: ENSACAG00000009794
• Aliases: None
• Status: KNOWN_PROTEIN_CODING

Parental gene information

• Parental gene symbol: FZD8
• Ensembl ID: ENSACAG00000001137
• Aliases: None
• Description: None

Sequence

>retro_acar_5
ATGGCTGGCTTCATCCTGAGGGAAGGCGCTCTCCTGGGCCTCTTCCTGATGCTGACTGAGGCGTTTGCTCCCCTCTCTGC
AGCCTCCTCCTCCTCCAAAGCGGTGACCTGCCAGGAGATCACGGTGCCCATGTGCAAAGGCATCGGCTACAACCTGACCT
ACATGCCCAACCAGTTCAACCACGACACGCAGGACGAGGCCGGACTGGAGGTGCACCAGTTCTGGCCCCTGGTGGAGATC
CAGTGCTCGCCAGACCTCAAGTTCTTCCTGTGTGCCATGTACACCCCCATCTGCCTGCTGGACTATGCCAAGCCCCTGCC
CCCCTGCCGCTCGGTCTGCGAGAGGGCCAAGGCCGGCTGCTCCCCACTCATGCGCCAGTACGGTTTCGCCTGGCCCGAGC
GCATGGGCTGCGACAAACTGCCCCTCCTGGGTGATGCCGAGCAGCTCTGCATGGACTACAACCGCACTGAGGCCGCCCCT
GCTTCCGCCACTACCACTTTCCCCCCCATTGGCACCAAGCCCACACGCTCAAAGGCCAAAGGGGGCTACAAGGAGAAAGC
GCCCTTTGACAGTAGCAGTGGTACATGCAAGAGGGTGTGCGAATGCCGGGAGCCCTTGGTCCCCATCTCTAAAGAGACCC
ACCCGCTCTACAACAAGATTGAGACGGGCCACGTCCGCAACTGTGCCATCCCGTGCTTCCAGCCCTACTTCACCCAGCAC
GAGAAGACCTTTGCCACCTTCTGGATCGGCCTGTGGTCCGTCCTCTGCTTCGTGGCCACCTTTGCCACGGTGGCCACATT
CCTCATTGACATGGAGCGCTTCCGCTACCCGGAGCGGCCCATCATCTTCTTGTCCGCCTGCTACCTTTTTGTCTCCATTG
GTTACATCATCCGGCTGGTTGTGGGCCACGCCAACGTGGCCTGCAACAAGGACTACAATCACATCCACTATGAGACCACG
GGGCCAGCTCTCTGCACTGTGGTCTTCCTCCTCATCTACTTCTTCGGCATGGCCAGCTCCATCTGGTGGGTGATCTTGTC
GCTCACTTGGTTCCTGGCCGCTGGGATGAAGTGGGGCAATGAGGCCATTGCCAGCTACTCCCAATATTTCCACATGGCTG
CCTGGCTCATTCCAAGCATCAAGTCCATAGCGGTGCTGGCTCTGAGCTCAGTGGACGGTGACCCGGTCGCTGGCATCTGC
TATGTTGGCAATCAAAACTTAGACAAGCTCCGGGGCTTTGTTTTGGCTCCGTTGGTGGTCTACCTTTTCACTGGGACCAT
GTTTCTGCTGGCAGGGATTGTGTCGCTCTTCAGGATCCGGAGTGTCATTAAACAAGGAGGCACCAAAACGGACAAGTTGG
AGAAGCTCATGATCCGTATTGGCATCTTCACCGTCCTTTATACCGTCCCGGCGACGATCGTGGTGGGATGCTACATCTAC
GAGCAGCACTATCGGGAGACGTGGGAGATGGCCCAGAACTGCTCCTGCCCCGGGGACAAGAACAGGTTGAGGCCGGACTA
TGCGGTCTTCATGTTGAAGTACTTTATGTGCCTGGTGGTGGGAATCACCTCGGGGGTCTGGATTTGGTCTGGCAAAACCT
TTGAGTCGTGGAAGCGGTTCACGGGGAGGTGTTGTCGGAGTGGAAAGCCTGTGAGTTCTGCCATGTATGGGGAAGCCACT
GCGGCTCTAACGGGGAGGTCTGGGATGCCCAGTTCTGCTTCATACCACAAACAAGTCCCGCTCTCCCATGTATGA

Alignment

ORF - retro_acar_5 Open Reading Frame is conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 72.34 %
• Parental protein coverage: 55.86 %
• Number of stop codons detected: 0
• Number of frameshifts detected: 0

Retrocopy - Parental Gene Alignment:

Parental  NERAFTAFWIGLWTIICFLSTFATVSTFLIDMERFKYPERPIVFLAACYLFVSLGYLVRLVAGHEKVACS
          .E..F..FWIGLW...CF..TFATV.TFLIDMERF.YPERPI.FL.ACYLFVS.GY..RLV.GH..VAC.
Retrocopy HEKTFATFWIGLWSVLCFVATFATVATFLIDMERFRYPERPIIFLSACYLFVSIGYIIRLVVGHANVACN

Parental  AGAEHVRYESTGPALCTVVFLLVYFFGMASSIWWVILSLTWFLAAGMKWGNEAIASYAQYFHLAAWLLPS
          ....H..YE.TGPALCTVVFLL.YFFGMASSIWWVILSLTWFLAAGMKWGNEAIASY.QYFH.AAWL.PS
Retrocopy KDYNHIHYETTGPALCTVVFLLIYFFGMASSIWWVILSLTWFLAAGMKWGNEAIASYSQYFHMAAWLIPS

Parental  VKSIAVLALSSVDGDPVAGICYVGNQSLENLRGFVLAPLLIYLAIGSMFLLAGFVSLFRIRSVIKQQGGP
          .KSIAVLALSSVDGDPVAGICYVGNQ.L..LRGFVLAPL..YL..G.MFLLAG.VSLFRIRSVIKQ..G.
Retrocopy IKSIAVLALSSVDGDPVAGICYVGNQNLDKLRGFVLAPLVVYLFTGTMFLLAGIVSLFRIRSVIKQ--GG

Parental  TKTHKLEKLMIRLGLFTVLYTVPAASVVACLFYEQHNRPRWEATHNCPCLRDQQPDQARRPDYAVFMLKY
          TKT.KLEKLMIR.G.FTVLYTVPA..VV.C..YEQH.R..WE...NC.C..D.......RPDYAVFMLKY
Retrocopy TKTDKLEKLMIRIGIFTVLYTVPATIVVGCYIYEQHYRETWEMAQNCSCPGDK---NRLRPDYAVFMLKY

Parental  FMCLVVGITSGVWVWSGKTLESWKALCTRCCWASKAAAVGGLGGGAGSM
          FMCLVVGITSGVW.WSGKT.ESWK....RCC...K.......G......
Retrocopy FMCLVVGITSGVWIWSGKTFESWKRFTGRCCRSGKPVSSAMYGEATAAL

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	5.25 RPM
SRP009831_brain	0.71 RPM	4.45 RPM
SRP009831_dewlap	1.77 RPM	79.94 RPM
SRP009831_embryo	18.94 RPM	22.73 RPM
SRP009831_heart	0.47 RPM	5.81 RPM
SRP009831_liver	15.83 RPM	3.52 RPM
SRP009831_lung	10.73 RPM	1.01 RPM
SRP009831_ovary	1.74 RPM	109.45 RPM
SRP009831_skeletal_muscle	0.04 RPM	4.30 RPM

ChIP-Seq

Anolis carolinensis was not studied using ChIP-Seq data.

EST

No EST(s) were mapped for retro_acar_5 retrocopy.

TSS

Anolis carolinensis was not studied using FANTOM5 data.

Lab

retro_acar_5 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 4 parental genes, and 4 retrocopies.

Species	Parental gene accession	Retrocopies number
Anolis carolinensis	ENSACAG00000001137	1 retrocopy	retro_acar_5 ,
Callithrix jacchus	ENSCJAG00000014119	1 retrocopy	retro_cjac_213,
Ficedula albicollis	ENSFALG00000007019	1 retrocopy	retro_falb_7,
Petromyzon marinus	ENSPMAG00000005873	1 retrocopy	retro_pmar_8,