RetrogeneDB ID: retro_acar_36

Retrocopy location

• Organism: Anole lizard (Anolis carolinensis)
• Coordinates: 1:107626724..107627363(-)
• Located in intron of: None

Retrocopy information

• Ensembl ID: ENSACAG00000014657
• Aliases: None
• Status: KNOWN_PROTEIN_CODING

Parental gene information

• Parental gene symbol: None
• Ensembl ID: ENSACAG00000003663
• Aliases: None
• Description: None

Sequence

>retro_acar_36
ATGGAGAGCACCAGCCAAGATATCAACCTTAACTCTCCCAACAAAGGTCTGCTAGCTGATACAATGACGGACATGCATGT
CGACAACACAAGCGCTGCTGCTGCTCCTCCCCCTCCATTGAGGGCCTCTGCCTACAACGGGTTCACTGAGGCAGAGGAAG
AAGAATTAAGATCTGAGCTGGCCAAGGTGGAAGAGGAAATTGGCACTTTGCGCCAGGTGTTGGCTGCCAAAGAGAGACAT
TGTGGAGAACTGAAGAGAAAACTGGGATTAACCCCCTTGGATGGCCTGAAGCAAAACCTCTCAAAAAGCTGGCGTGATGT
CCAGATTTCCAATGCATATGTTTCGGCCAGCAGCACATTGGAAGACTGGAATGACAAATTAACCCAATCAGAAGCTTACA
AGAAGACACAAGAAACGCTGTCTCATGTGGGACAGAAAACTTCAGCTGTCCTTTCCAATGTGGGCTCCGTGATCAGCCGG
AAGCTGGGAGACATGAGAAACTCTGCAACCTTCAAGTCTTTTGAAGACCGAGTTGGAACCATAAAGTCGAAAGTGGTGGG
CAGAGACAATGGTGGTGATGAGCTCCACTCTCCTCCGGCATCTGCTGAAAAGCCCTCCCAGGACAACGTACCTTTCTAA

Alignment

ORF - retro_acar_36 Open Reading Frame is conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 80.82 %
• Parental protein coverage: 57.09 %
• Number of stop codons detected: 0
• Number of frameshifts detected: 0

Retrocopy - Parental Gene Alignment:

Parental  MESASQDINLNSPNKGLLADTMTDVPVDNTSAAA-PPPPLRASAYNGLTEAEEEELRSELAKVEEEIGTL
          MES.SQDINLNSPNKGLLADTMTD..VDNTSAAA.PPPPLRASAYNG.TEAEEEELRSELAKVEEEIGTL
Retrocopy MESTSQDINLNSPNKGLLADTMTDMHVDNTSAAAAPPPPLRASAYNGFTEAEEEELRSELAKVEEEIGTL

Parental  RQVLAAKERHCGELKRKLGLTPLDGLKQNLSKSWHDVQVSNAYMKTSEKLGEWNEKVTQSDLYVSASSTL
          RQVLAAKERHCGELKRKLGLTPLDGLKQNLSKSW.DVQ.SNAY...S..L..WN.K.TQS..Y.....TL
Retrocopy RQVLAAKERHCGELKRKLGLTPLDGLKQNLSKSWRDVQISNAYVSASSTLEDWNDKLTQSEAYKKTQETL

Parental  EDWNDK
          .....K
Retrocopy SHVGQK

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	1.08 RPM	157.28 RPM
SRP009831_brain	0.52 RPM	138.61 RPM
SRP009831_dewlap	1.31 RPM	160.94 RPM
SRP009831_embryo	2.49 RPM	218.43 RPM
SRP009831_heart	1.87 RPM	258.48 RPM
SRP009831_liver	0.29 RPM	113.14 RPM
SRP009831_lung	0.76 RPM	246.63 RPM
SRP009831_ovary	1.35 RPM	189.84 RPM
SRP009831_skeletal_muscle	0.29 RPM	98.92 RPM

ChIP-Seq

Anolis carolinensis was not studied using ChIP-Seq data.

EST

No EST(s) were mapped for retro_acar_36 retrocopy.

TSS

Anolis carolinensis was not studied using FANTOM5 data.

Lab

retro_acar_36 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	ENSACAG00000003663	1 retrocopy	retro_acar_36 ,
Dasypus novemcinctus	ENSDNOG00000014930	1 retrocopy	retro_dnov_1582,
Equus caballus	ENSECAG00000021789	1 retrocopy	retro_ecab_69,
Otolemur garnettii	ENSOGAG00000013689	1 retrocopy	retro_ogar_3142,