RetrogeneDB ID: retro_acar_39

Retrocopy location

• Organism: Anole lizard (Anolis carolinensis)
• Coordinates: 2:193191406..193192297(+)
• Located in intron of: None

Retrocopy information

• Ensembl ID: ENSACAG00000011715
• Aliases: None
• Status: KNOWN_PROTEIN_CODING

Parental gene information

• Parental gene symbol: None
• Ensembl ID: ENSACAG00000013669
• Aliases: None
• Description: None

Sequence

>retro_acar_39
ATGGATACGAGCGGCAAGGAGAAAGAAGCCCTTCAGCTCCTGGCCGAAGCGGACAAGAAAGTGTGCGGCTCCCACGGCTT
CTTCTCGGGACTCTTCGGGGGCGGCTCCTCCAGGGTTGAAGAAGCATGTGATATCTATGCAAGGGCAGCCAATATGTTTA
AAATGGCAAAGAACTGGAGTGCTGCTGGGAATGCTTTCGGCCAGGCTGCTCAGTTGCACCTCCAGTTGCAGAACAAACAT
GATGCAGCCATGAGTTTTGTGGATGCGGGTAATGCCTTCAAGAAAGCAGATCCTCAAGAGGCCATTAACTGTCTCCTCAG
ATCTATTGAGATCTACACAGACATGGGCCGTTTCACTATTGCAGCCAAACACCACATAACAATAGCAGAGATCTATGAAA
CAGAACTGGTAGACATTGAAAAGGCAATAGCTCATTATGAACAAGCTGCAGATTACTATAAAGGTGAAGAATCTAATAGC
TCTGCTAACAAGTGTTTGCTGAAAGTGGCTACTTACGCAGCTCAGCTGGAGCAGTACCAGAAGGCTATTGAGATCTATGA
GCAGGTGGGCACCAGTGCCATGGACAGTCCCCTGCTGAAGTACAGTGCAAAGGAGTACTTTTTCAAAGCGGCCCTCTGCC
ATTTCTGCATTGACATGCTCAACGCTAAGTTGGCTGTACAGAAATATGAAGAAATGTTCCCGGCTTTCTCTGACTCCAGA
GAGTGCAAACTGGTTAAAAAATTGCTGGATGCTCATGAGGAACAGAACATTGATAGCTACACTGAATCAGTGAAGGAGTA
TGATTCTATTTCTCGCCTTGACCAATGGCTCACTACCATGCTCCTGCGCATCAAGAAGACCATACAGGGTGAAGAGGAGG
ACCTGCGCTAA

Alignment

ORF - retro_acar_39 Open Reading Frame is conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 99.32 %
• Parental protein coverage: 100. %
• Number of stop codons detected: 0
• Number of frameshifts detected: 0

Retrocopy - Parental Gene Alignment:

Parental  MDTSGKEKEALQLLAEADKKVRGSHGFFSGLFGGGSSRVEEACDIYARAANMFKMAKNWSAAGNAFCQAA
          MDTSGKEKEALQLLAEADKKV.GSHGFFSGLFGGGSSRVEEACDIYARAANMFKMAKNWSAAGNAF.QAA
Retrocopy MDTSGKEKEALQLLAEADKKVCGSHGFFSGLFGGGSSRVEEACDIYARAANMFKMAKNWSAAGNAFGQAA

Parental  QLHLQLQNKHDAAMSFVDAGNAFKKADPQEAINCLLRSIEIYTDMGRFTIAAKHHITIAEIYETELVDIE
          QLHLQLQNKHDAAMSFVDAGNAFKKADPQEAINCLLRSIEIYTDMGRFTIAAKHHITIAEIYETELVDIE
Retrocopy QLHLQLQNKHDAAMSFVDAGNAFKKADPQEAINCLLRSIEIYTDMGRFTIAAKHHITIAEIYETELVDIE

Parental  KAIAHYEQAADYYKGEESNSSANKCLLKVATYAAQLEQYQKAIEIYEQVGTSAMDSPLLKYSAKEYFFKA
          KAIAHYEQAADYYKGEESNSSANKCLLKVATYAAQLEQYQKAIEIYEQVGTSAMDSPLLKYSAKEYFFKA
Retrocopy KAIAHYEQAADYYKGEESNSSANKCLLKVATYAAQLEQYQKAIEIYEQVGTSAMDSPLLKYSAKEYFFKA

Parental  ALCHFCIDMLNAKLAVQKYEEMFPAFSDSRECKLVKKLLDAHEEQNIDSYTESVKEYDSISRLDQWLTTM
          ALCHFCIDMLNAKLAVQKYEEMFPAFSDSRECKLVKKLLDAHEEQNIDSYTESVKEYDSISRLDQWLTTM
Retrocopy ALCHFCIDMLNAKLAVQKYEEMFPAFSDSRECKLVKKLLDAHEEQNIDSYTESVKEYDSISRLDQWLTTM

Parental  LLRIKKTIQGEEEDLR
          LLRIKKTIQGEEEDLR
Retrocopy LLRIKKTIQGEEEDLR

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	20.02 RPM
SRP009831_brain	0.19 RPM	170.52 RPM
SRP009831_dewlap	0.04 RPM	65.18 RPM
SRP009831_embryo	0.15 RPM	46.38 RPM
SRP009831_heart	0.05 RPM	32.22 RPM
SRP009831_liver	0.00 RPM	24.66 RPM
SRP009831_lung	0.05 RPM	27.30 RPM
SRP009831_ovary	0.04 RPM	66.10 RPM
SRP009831_skeletal_muscle	0.07 RPM	30.34 RPM

ChIP-Seq

Anolis carolinensis was not studied using ChIP-Seq data.

EST

No EST(s) were mapped for retro_acar_39 retrocopy.

TSS

Anolis carolinensis was not studied using FANTOM5 data.

Lab

retro_acar_39 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 2 parental genes, and 2 retrocopies.

Species	Parental gene accession	Retrocopies number
Anolis carolinensis	ENSACAG00000013669	1 retrocopy	retro_acar_39 ,
Macropus eugenii	ENSMEUG00000012750	1 retrocopy	retro_meug_593,