RetrogeneDB ID: retro_ocun_1427

Retrocopy location

• Organism: Rabbit (Oryctolagus cuniculus)
• Coordinates: 8:88333548..88334623(+)
• Located in intron of: None

Retrocopy information

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

Parental gene information

• Parental gene symbol: KAT7
• Ensembl ID: ENSOCUG00000000668
• Aliases: None
• Description: K(lysine) acetyltransferase 7 [Source:HGNC Symbol;Acc:17016]

Sequence

>retro_ocun_1427
CAGGCACCCACCAAGAGGCATCTGTGATATAAGGAAAAGGTACTGAACTCAAGAAGAGATTCTGGCCCAAGCAAAGAACA
GAAAGAGAAGTATATGGAACACAGGCCGACCTATGGGGACACTCAGGAACCTCTCTTAGAAAACCTGACAAGCGAGTACG
ACTTGAATCTTTTCCAAAGAGCACAAGCCAGAACTTCAGAGGATTTGGAGAAGCTAAGGCTTCAAGGCCAAATTGGAGGG
GAGCAACATGATTAAAACAATTGCTTTTGGCCGCTATGAACTTGATATTTGGTGCCATTCTCCCTATCCCGAGGAATAGG
TATGGCTGGGACGTCTCTACATGTGTGAATTCTGTTTAAAATATATGAAGAGCCAAACAACACTCCGCGGACACACAGCC
AAGTATGTGTGCAAACACCCTCCGGGTGGTGAGATGTATCACAAAGGCTCAATCTCCGTGTCTAAAGTGGATGGCAAGAA
AAACAAGATCTACTGCCAAAGCCTATGTCTGTTGGCCAAGCTTTTTCTGGACCACAAGACATTGTATTATAATATGGAAC
CATTTCTGGTCTATGTGATGACAGAAGCAGATAACACTGGCTGTCACCTGATTGGCTATTTTTCTAAGGAAAAGAATTCA
TTCTTAAACTACAATGTGTCCTGTGTCCTTACCATGCCTCAATACATGAAACAGAGACGTGGCAAGATGCTTGGTGATTT
CAGTTATTTGCTTTGCAAAGTGGAAGACAAAGTTGGCTCCCCAAAATATGCAATCTTAGATCTGGGGCTCATATGCTACC
GCAGCTACCAGAAAGAAGTGCTTTTATGTTACCTACATAATTTCCAAGGCAAAGAGGTTTCTATCAGAGAAATTTGTCAG
GAGATGGCTATGAATTCTGTGGACATTGTCAACACTCTGCAAGCCCTTCAGCTGTTCAAGTATTGGAAAAGGAAACACCT
AGTTTTAAAGAGACAGGACCTGATTGATGAGTGGATAGCCAAAGAGGCCAAATGGTCCAACTCCAATAAAACCATGGATC
CAAGTTGCTTACAATGGACTCCACCCAAGGGCACT

Alignment

ORF - retro_ocun_1427 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 78.51 %
• Parental protein coverage: 59.08 %
• Number of stop codons detected: 3
• Number of frameshifts detected: 2

Retrocopy - Parental Gene Alignment:

Parental  QAPTERQLRYKEKVAELRKKRNSGLSKEQKEKYMEHRQTYGNTREPLLENLTSEYDLDLFRRAQARASED
          QAPT.R.L.YKEKV..L...R.SG.SKEQKEKYMEHR.TYG.T.EPLLENLTSEYDL.LF.RAQAR.SED
Retrocopy QAPTKRHL*YKEKV--LNSRRDSGPSKEQKEKYMEHRPTYGDTQEPLLENLTSEYDLNLFQRAQARTSED

Parental  LEKLRLQGQI-TEGSNMIKTIAFGRYEL-DTWYHSPYPEEYARLGRLYMCEFCLKYMKSQTILRRHMAKC
          LEKLRLQGQI...G....K........L.D.W.HSPYPEE...LGRLYMCEFCLKYMKSQT.LR.H.AK.
Retrocopy LEKLRLQGQI<WRGAT*LKQLLLAAMNL<DIWCHSPYPEE*VWLGRLYMCEFCLKYMKSQTTLRGHTAKY

Parental  VWKHPPGDEIYRKGSISVFEVDGKKNKIYCQNLCLLAKLFLDHKTLYYDVEPFLFYVMTEADNTGCHLIG
          V.KHPPG.E.Y.KGSISV..VDGKKNKIYCQ.LCLLAKLFLDHKTLYY..EPFL.YVMTEADNTGCHLIG
Retrocopy VCKHPPGGEMYHKGSISVSKVDGKKNKIYCQSLCLLAKLFLDHKTLYYNMEPFLVYVMTEADNTGCHLIG

Parental  YFSKEKNSFLNYNVSCILTMPQYMRQGYGKMLIDFSYLLSKVEEKVGSPERPLSDLGLISYRSYWKEVLL
          YFSKEKNSFLNYNVSC.LTMPQYM.Q..GKML.DFSYLL.KVE.KVGSP.....DLGLI.YRSY.KEVLL
Retrocopy YFSKEKNSFLNYNVSCVLTMPQYMKQRRGKMLGDFSYLLCKVEDKVGSPKYAILDLGLICYRSYQKEVLL

Parental  RYLHNFQGKEISIKEISQETAVNPVDIVSTLQALQMLKYWKGKHLVLKRQDLIDEWIAKEAKRSNSNKTM
          .YLHNFQGKE.SI.EI.QE.A.N.VDIV.TLQALQ..KYWK.KHLVLKRQDLIDEWIAKEAK.SNSNKTM
Retrocopy CYLHNFQGKEVSIREICQEMAMNSVDIVNTLQALQLFKYWKRKHLVLKRQDLIDEWIAKEAKWSNSNKTM

Parental  DPSCLKWTPPKGT
          DPSCL.WTPPKGT
Retrocopy DPSCLQWTPPKGT

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
SRP017611_brain	0.00 RPM	46.91 RPM
SRP017611_kidney	0.00 RPM	32.54 RPM
SRP017611_liver	0.00 RPM	13.87 RPM

ChIP-Seq

Oryctolagus cuniculus was not studied using ChIP-Seq data.

EST

No EST(s) were mapped for retro_ocun_1427 retrocopy.

TSS

Oryctolagus cuniculus was not studied using FANTOM5 data.

Lab

retro_ocun_1427 was not experimentally validated.

Homology

Retrocopy orthology:

Retrocopy retro_ocun_1427 has 0 orthologous retrocopies within eutheria group .

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Parental genes homology:

Parental genes homology involve 9 parental genes, and 10 retrocopies.

Species	Parental gene accession	Retrocopies number
Canis familiaris	ENSCAFG00000016955	1 retrocopy	retro_cfam_1246,
Callithrix jacchus	ENSCJAG00000007037	1 retrocopy	retro_cjac_4188,
Homo sapiens	ENSG00000136504	1 retrocopy	retro_hsap_4878,
Gorilla gorilla	ENSGGOG00000007469	1 retrocopy	retro_ggor_3048,
Nomascus leucogenys	ENSNLEG00000003201	1 retrocopy	retro_nleu_2557,
Oryctolagus cuniculus	ENSOCUG00000000668	1 retrocopy	retro_ocun_1427 ,
Pongo abelii	ENSPPYG00000008925	1 retrocopy	retro_pabe_3795,
Pan troglodytes	ENSPTRG00000009383	1 retrocopy	retro_ptro_3250,
Tursiops truncatus	ENSTTRG00000000472	2 retrocopies	retro_ttru_1724, retro_ttru_1928,