RetrogeneDB ID: retro_btau_69

Retrocopy location

• Organism: Cow (Bos taurus)
• Coordinates: 1:28611817..28612240(+)
• Located in intron of: None

Retrocopy information

• Ensembl ID: ENSBTAG00000008359
• Aliases: None
• Status: KNOWN_PROTEIN_CODING

Parental gene information

• Parental gene symbol: FKBP2
• Ensembl ID: ENSBTAG00000013606
• Aliases: FKBP2, FKBP-2
• Description: Peptidyl-prolyl cis-trans isomerase FKBP2 [Source:UniProtKB/Swiss-Prot;Acc:Q32PA9]

Sequence

>retro_btau_69
AGGAGAGAGAGCTGGGTCTTGACAGTACTGTCCATCTGCCTGAGTGCCCTGGTCATGGCCACAGGGGCCGAGGGCAAACG
GAAGCTGCAGATTGGAGTCAAGAAATGGGTAGACCACTGTCCCATCAAATCGCAGAAAGGGGACTTCCTGCAGCTGCACT
ACACGGGGAAGCTAGAAGATGGAACAGAGTTTGACAGCAGCCTGCCCCAGAACCAGCCCTTTGTCTTCTCCTTGGGCACA
GGCCAGGTCACCGAGGGCTTGGACCAGGGGCTGCTAGAGATGTGTGAGGGGGAAAAGCAGAAGCTGGTGATTCCATCAGA
GCTGGGGTATGGAGAGCAGGGAGCTTCCCCAAAGATTCCAGGTGGTGCAACCTTGGTGTTCGAGGTGGAGCTGCTCAAAA
TCAAGCGACATTCAGAACTGTAG

Alignment

ORF - retro_btau_69 Open Reading Frame is conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 87.77 %
• Parental protein coverage: 85.8 %
• Number of stop codons detected: 0
• Number of frameshifts detected: 0

Retrocopy - Parental Gene Alignment:

Parental  RLSWVLTVLSICLSALVTATGTEGKRKLQIGVKKRVDHCPIKSRKGDVLHMHYTGKLEDGTEFDSSLPQN
          R.SWVLTVLSICLSALV.ATG.EGKRKLQIGVKK.VDHCPIKS.KGD.L..HYTGKLEDGTEFDSSLPQN
Retrocopy RESWVLTVLSICLSALVMATGAEGKRKLQIGVKKWVDHCPIKSQKGDFLQLHYTGKLEDGTEFDSSLPQN

Parental  QPFVFSLGTGQVIKGWDQGLLGMCEGEKRKLVIPSELGYGERGAPPKIPGGATLVFEVELLKIERRSEL
          QPFVFSLGTGQV..G.DQGLL.MCEGEK.KLVIPSELGYGE.GA.PKIPGGATLVFEVELLKI.R.SEL
Retrocopy QPFVFSLGTGQVTEGLDQGLLEMCEGEKQKLVIPSELGYGEQGASPKIPGGATLVFEVELLKIKRHSEL

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
ERP005899_liver	0.00 RPM	15.14 RPM
ERP005899_muscle	0.00 RPM	48.41 RPM
SRP017611_brain	0.00 RPM	44.45 RPM
SRP017611_kidney	0.00 RPM	40.19 RPM
SRP017611_liver	0.00 RPM	55.95 RPM
SRP030211_testis	0.11 RPM	94.28 RPM

ChIP-Seq

Bos taurus was not studied using ChIP-Seq data.

EST

No EST(s) were mapped for retro_btau_69 retrocopy.

TSS

Bos taurus was not studied using FANTOM5 data.

Lab

retro_btau_69 was not experimentally validated.

Homology

Retrocopy orthology:

Retrocopy retro_btau_69 has 0 orthologous retrocopies within eutheria group .

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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,