RetrogeneDB ID: retro_acar_126

Retrocopy location

• Organism: Anole lizard (Anolis carolinensis)
• Coordinates: 4:115276374..115276721(+)
• Located in intron of: ENSACAG00000008779

Retrocopy information

• Ensembl ID: None
• Aliases: None
• Status: NOVEL

Parental gene information

• Parental gene symbol: FKBP2
• Ensembl ID: ENSACAG00000000758
• Aliases: None
• Description: Peptidyl-prolyl cis-trans isomerase [Source:UniProtKB/TrEMBL;Acc:H9G457]

Sequence

>retro_acar_126
CAAAAGCTCCAGATCAGAGTCAAGAAATGGGTCGACAACTGCCCCATCAAGTCCTGCAAAGTAGATGTGCTCTGCATGCA
TTACCTGGGGAAGCTGGAAGACAGGACAGAATTTGACAACAGTTTGGCTCATAACCAGCCATTTGTTTTCTCCTTGGAGA
TGGGACAAGTAATTAAAAGCTGGGGTCAGGGCCTGCTTGGGAGGGCGAGGGTGAGGGCGAGAAGGGGGAGTTGGTGATTC
CATCAGAATTGGGCTATGGGAACCGAGCAGCGCCAACCAAAGTCCCTGGTAGGGCAATGTTAATTTTTGAAGTAGAACTG
TTGAAGATTGAGCAGCAGCAGGAATTG

Alignment

ORF - retro_acar_126 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 75.21 %
• Parental protein coverage: 80.28 %
• Number of stop codons detected: 0
• Number of frameshifts detected: 1

Retrocopy - Parental Gene Alignment:

Parental  RKLQIGVKKRVDNCPIKSRKGDVLHMHYLGKLEDGTEFDSSLARGQPFVFSLGTGQVIKGWDQGLLGMC-
          .KLQI.VKK.VDNCPIKS.K.DVL.MHYLGKLED.TEFD.SLA..QPFVFSL..GQVIK.W.QGLLG...
Retrocopy QKLQIRVKKWVDNCPIKSCKVDVLCMHYLGKLEDRTEFDNSLAHNQPFVFSLEMGQVIKSWGQGLLGRA<

Parental  EG--EKRKLVIPSELGYGDRGAPPKIPGGATLIFEVELLKIERRQEL
          EG..EK..LVIPSELGYG.R.AP.K.PG.A.LIFEVELLKIE..QEL
Retrocopy EGEGEKGELVIPSELGYGNRAAPTKVPGRAMLIFEVELLKIEQQQEL

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	62.36 RPM
SRP009831_brain	0.00 RPM	149.45 RPM
SRP009831_dewlap	0.00 RPM	52.69 RPM
SRP009831_embryo	0.00 RPM	41.82 RPM
SRP009831_heart	0.00 RPM	181.69 RPM
SRP009831_liver	0.00 RPM	67.04 RPM
SRP009831_lung	0.00 RPM	86.59 RPM
SRP009831_ovary	0.00 RPM	53.01 RPM
SRP009831_skeletal_muscle	0.00 RPM	67.78 RPM

ChIP-Seq

Anolis carolinensis was not studied using ChIP-Seq data.

EST

No EST(s) were mapped for retro_acar_126 retrocopy.

TSS

Anolis carolinensis was not studied using FANTOM5 data.

Lab

retro_acar_126 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 6 parental genes, and 9 retrocopies.

Species	Parental gene accession	Retrocopies number
Anolis carolinensis	ENSACAG00000000758	1 retrocopy	retro_acar_126 ,
Bos taurus	ENSBTAG00000013606	3 retrocopies	retro_btau_1418, retro_btau_69, retro_btau_916,
Callithrix jacchus	ENSCJAG00000018124	2 retrocopies	retro_cjac_2030, retro_cjac_3853,
Cavia porcellus	ENSCPOG00000002928	1 retrocopy	retro_cpor_39,
Macaca mulatta	ENSMMUG00000012945	1 retrocopy	retro_mmul_1397,
Rattus norvegicus	ENSRNOG00000021153	1 retrocopy	retro_rnor_1034,