RetrogeneDB ID: retro_acar_32

Retrocopy location

• Organism: Anole lizard (Anolis carolinensis)
• Coordinates: GL343304.1:558792..560001(-)
• Located in intron of: None

Retrocopy information

• Ensembl ID: ENSACAG00000011253
• Aliases: None
• Status: KNOWN_PROTEIN_CODING

Parental gene information

• Parental gene symbol: None
• Ensembl ID: ENSACAG00000001349
• Aliases: None
• Description: None

Sequence

>retro_acar_32
GGCGCCGAGGAGATCGTGGAAGTGGTGGACCTGGAGCCGCCTGGGCCCGATGATCTGGCTGGTGAGATGGAAGATGTGGA
TCTCGATGAAGAACAGGGCGCTTGGGTGACTGAAGAGGAGGATGAGGGAGTAGAAGAGGGCATGGCGGCCCAAGATGACA
GCGAGGTCACCTTCTCAAAACATACTGCTTCTGTTTTCTGTGTCAGCCTTGATCCCAAGACTAACACGCTGGCAGTGACA
GGTGGTGAAGATGACAAGGCCTTTGTGTGGCGCCTCAGTGATGGAGAACTCCTTTTTGAATGCTCAGGTCATAAAGACTC
TGTCACATGTACTGGGTTTAGCCATGACTCCACCTTTGTGGCTACAGGTGACATGAGCGGATTGATCAAAGTCTTGACCA
AAGAGGAGATCTGGTCTTTTGAAGTGGGTGACTTGGAGTGGATGGAGTGGCACCCTCAATCCCATATCCTTCTGGCTGGA
ACAGCAGATGGAAACTCCTGGATGTGGAAAATCCCCAGTGGGGAATGCAAGACGTTCCAAGGGCCAAACTGCCCTGCTAC
CTGTGGACGTGTCCTTTCCGATGGAAAGAGAGCTGTGGTTGGCTATGAAGATGGAACAGTTCGCATCTGGGATCTGAAGC
AGGGGAGTCCACTACATGTCCTTAAAGGTCAGGATGGTCATCAGGGCCCTTTGACATGTGTGGCCAGCAATAAGGATGGC
AGCCTAATCCTGACAGGTTCTGTTGACTGCCATGCCAAGCTGGTGAACTCTGCAACGGGCAAGGTTGTGTCTGTGTTCAA
GGCAGAGAGCATTGTCCCCAAGCCTTCAGTGGGAGAGACTGAGGAGGCTGAATCCAACTCAGTGGAGTCGCTGGGTTTCT
GCAATGTGATGCCACTGGCAGCTGTTGGCTATTTAGATGGGACCTTGGCCATTTATGACCGTGCTACCCAGACCTTAAGA
CACAAGTGCCAGCATGAGTCAGGGATTGTACAGCTCCTGTGGGAGGACAGCTCACCTGTGGTTTATACCTGCAGCCTAGA
TGGGGCTGTGTCCCTCTGGGATGCCCGTTCAGGAAAGTTGATCAGTGAGTACCGGGGCTACTCAGCAGAAATCCTGGACT
TGGCTTTGTACAAAGATGCTTCCATTGTAGTTACTACTTCCGGCGATCACCAGGCCAAGGTGTTCTGTGTGCAGCGCCCA
GATCGCTAA

Alignment

ORF - retro_acar_32 Open Reading Frame is conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 96.79 %
• Parental protein coverage: 93.1 %
• Number of stop codons detected: 0
• Number of frameshifts detected: 0

Retrocopy - Parental Gene Alignment:

Parental  GAEEIVEVVDLEPPGPDDLAGEMEDVDLDEEQGAWVTEEEDEGVEEGMEAQDDSEVTFSKHTASVFCVSL
          GAEEIVEVVDLEPPGPDDLAGEMEDVDLDEEQGAWVTEEEDEGVEEGM.AQDDSEVTFSKHTASVFCVSL
Retrocopy GAEEIVEVVDLEPPGPDDLAGEMEDVDLDEEQGAWVTEEEDEGVEEGMAAQDDSEVTFSKHTASVFCVSL

Parental  DPKTNTLAVTGGEDDKAFVWRLSDGELLFECSGHKDSVTCTGFSHDSTFVATGDMSGLIKVWRVDTKEEI
          DPKTNTLAVTGGEDDKAFVWRLSDGELLFECSGHKDSVTCTGFSHDSTFVATGDMSGLIKV....TKEEI
Retrocopy DPKTNTLAVTGGEDDKAFVWRLSDGELLFECSGHKDSVTCTGFSHDSTFVATGDMSGLIKVL---TKEEI

Parental  WSFDVGDLEWMEWHPQSHVLLAGTADGNSWMWKIPSGECKTFQGPNCPATCGRVLSDGKRAVVGYEDGTV
          WSF.VGDLEWMEWHPQSH.LLAGTADGNSWMWKIPSGECKTFQGPNCPATCGRVLSDGKRAVVGYEDGTV
Retrocopy WSFEVGDLEWMEWHPQSHILLAGTADGNSWMWKIPSGECKTFQGPNCPATCGRVLSDGKRAVVGYEDGTV

Parental  RIWDLKQGSPVHVLKGQDGHQGPLTCVASNKDGSLILTGSVDCHAKLVNSATGKVVSVFKAESIVPKPSV
          RIWDLKQGSP.HVLKGQDGHQGPLTCVASNKDGSLILTGSVDCHAKLVNSATGKVVSVFKAESIVPKPSV
Retrocopy RIWDLKQGSPLHVLKGQDGHQGPLTCVASNKDGSLILTGSVDCHAKLVNSATGKVVSVFKAESIVPKPSV

Parental  GETEETESNSVESLGFCNVMPLAAVGYLDGTLAIYDLATQTLRHKCQHESGIVQLLWEDSSPVVYTCSLD
          GETEE.ESNSVESLGFCNVMPLAAVGYLDGTLAIYD.ATQTLRHKCQHESGIVQLLWEDSSPVVYTCSLD
Retrocopy GETEEAESNSVESLGFCNVMPLAAVGYLDGTLAIYDRATQTLRHKCQHESGIVQLLWEDSSPVVYTCSLD

Parental  GAVSLWDARSGKLISEYRGHSAEILDFALNKDASIVVTTSGDHQAKVFCVQRPDR
          GAVSLWDARSGKLISEYRG.SAEILD.AL.KDASIVVTTSGDHQAKVFCVQRPDR
Retrocopy GAVSLWDARSGKLISEYRGYSAEILDLALYKDASIVVTTSGDHQAKVFCVQRPDR

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	0.98 RPM	16.61 RPM
SRP009831_brain	1.99 RPM	15.72 RPM
SRP009831_dewlap	1.77 RPM	17.21 RPM
SRP009831_embryo	2.85 RPM	30.88 RPM
SRP009831_heart	3.06 RPM	25.84 RPM
SRP009831_liver	1.27 RPM	12.64 RPM
SRP009831_lung	1.81 RPM	14.81 RPM
SRP009831_ovary	2.01 RPM	19.42 RPM
SRP009831_skeletal_muscle	2.26 RPM	18.50 RPM

ChIP-Seq

Anolis carolinensis was not studied using ChIP-Seq data.

EST

No EST(s) were mapped for retro_acar_32 retrocopy.

TSS

Anolis carolinensis was not studied using FANTOM5 data.

Lab

retro_acar_32 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 1 parental gene, and 1 retrocopy.

Species	Parental gene accession	Retrocopies number
Anolis carolinensis	ENSACAG00000001349	1 retrocopy	retro_acar_32 ,