RetrogeneDB ID: retro_acar_43

Retrocopy location

• Organism: Anole lizard (Anolis carolinensis)
• Coordinates: LGc:1196945..1197491(+)
• Located in intron of: None

Retrocopy information

• Ensembl ID: ENSACAG00000026158
• Aliases: None
• Status: KNOWN_PROTEIN_CODING

Parental gene information

• Parental gene symbol: None
• Ensembl ID: ENSACAG00000006351
• Aliases: None
• Description: None

Sequence

>retro_acar_43
CTGCCAAAGACTCCCACCACTCCCAAAATCACCACCTTTCCACCAGTGCCTATCACATGTGACACTGTACGTAGCAAATG
TAGAGAAATGTTGACGTCTTCCCTACAAACAGACAATGACTATGTTGCCATCGGTGCTGACTGTGAAGAGATGGCAGCTC
AAATTGAAGAATTTATATACCAAGATGTCAAGAACACAGACCTGAAGTACAAAAACCGTGTTAGGAGTCACATCTCTAAT
CTGAAAGATTCTAAGAATCCTGACCTCCGAAAGAATGTCTTATGCGGGGTGATCACTCCAGAAGAAATTGCAGTGATGAC
TTCAGAGGAAATGGCCAGCAATGAGCTGAAGGAGATCTGGAAAGCCATGACCAAGGAGGCTATTAGGGAACATCAAATGG
CTAAAACAGGAGGAACCCAGACTGACCTCTTCACCTGCAGAAAGTGTAGGAAGAAGAATTGTACCTACACCCAAGTACAA
ACCCGCAGTTCAGACGAGCCAATGACCACTTTTGTTGTGTGTAATGAATGTGGGAACCACTGGAAG

Alignment

ORF - retro_acar_43 Open Reading Frame is conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 94.57 %
• Parental protein coverage: 60.93 %
• Number of stop codons detected: 0
• Number of frameshifts detected: 0

Retrocopy - Parental Gene Alignment:

Parental  LPKTPTTPKITTFPPVPITCDTVRSKCREMLTSALQTDNDYVAIGVDCEEMAAQIEAFELIYQDVKNTDL
          LPKTPTTPKITTFPPVPITCDTVRSKCREMLTS.LQTDNDYVAIG.DCEEMAAQIE.F..IYQDVKNTDL
Retrocopy LPKTPTTPKITTFPPVPITCDTVRSKCREMLTSSLQTDNDYVAIGADCEEMAAQIEEF--IYQDVKNTDL

Parental  KYKNRVRSRISNLKDSKNPDLRKNVLCGVITPEQIAVMTSEEMASNELKEIRKAMTKEAIREHQMAKTGG
          KYKNRVRS.ISNLKDSKNPDLRKNVLCGVITPE.IAVMTSEEMASNELKEI.KAMTKEAIREHQMAKTGG
Retrocopy KYKNRVRSHISNLKDSKNPDLRKNVLCGVITPEEIAVMTSEEMASNELKEIWKAMTKEAIREHQMAKTGG

Parental  TQTDLFTCGKCRKKNCTYTQVQTRSSDEPMTTFVVCNECGNRWK
          TQTDLFTC.KCRKKNCTYTQVQTRSSDEPMTTFVVCNECGN.WK
Retrocopy TQTDLFTCRKCRKKNCTYTQVQTRSSDEPMTTFVVCNECGNHWK

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	3.71 RPM
SRP009831_brain	0.05 RPM	23.76 RPM
SRP009831_dewlap	0.00 RPM	8.02 RPM
SRP009831_embryo	0.00 RPM	8.45 RPM
SRP009831_heart	0.00 RPM	7.89 RPM
SRP009831_liver	0.00 RPM	2.13 RPM
SRP009831_lung	0.10 RPM	5.69 RPM
SRP009831_ovary	0.00 RPM	12.55 RPM
SRP009831_skeletal_muscle	0.00 RPM	1.42 RPM

ChIP-Seq

Anolis carolinensis was not studied using ChIP-Seq data.

EST

No EST(s) were mapped for retro_acar_43 retrocopy.

TSS

Anolis carolinensis was not studied using FANTOM5 data.

Lab

retro_acar_43 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	ENSACAG00000006351	1 retrocopy	retro_acar_43 ,