RetrogeneDB ID: retro_pabe_3795

Retrocopy location

• Organism: Orangutan (Pongo abelii)
• Coordinates: X:94780323..94781307(-)
• Located in intron of: None

Retrocopy information

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

Parental gene information

• Parental gene symbol: KAT7
• Ensembl ID: ENSPPYG00000008925
• Aliases: None
• Description: K(lysine) acetyltransferase 7 [Source:HGNC Symbol;Acc:17016]

Sequence

>retro_pabe_3795
ATGGAATACAGACAGACCTATGGGAACACACGGGAACCTCTTTTAGAAAACCTGACAAGCAAGTATGACTTGGATCTTTT
CCGATGAGCAGAAGCCCAGGCCTCAGAGGATTTGGAGAAGTTAAGGCTGCAAGGCCAAATCACAGAGGGAAGCAACATGA
TTAAAACAATTGCTTTTGGCCGCTATGACCTTGATACCTGGTACCATTCTCCATATCCTGAAGAATATGCAAGGCTGGGA
CATCTCTATATGTGTGAATTCTGTTTAAAATATATGAAGAGCCAAATGATACTCCATCGGCACATGGCCAAATGTGTGTG
GAAACACCCACCTGGTGATGAGATATATCGCAAAAGTTCAATCTCTGTGTTTGAAGTGGATGGCAAGAAAAACAAGATCT
ACTGCCAAAACCTGTGCCTGTTGGCCAAACTTTTTCTGGACCACAAGACATTGTATTATGATGTGGAGCCCTTCCTCTTC
TATGTTATGACAGAGGTGGACAACACTGGCTGTCACCTGATTGGATATTTTTCCAAGGAAGAGAATTCATTCCTCAACTA
CAATGTATCCTGTATCCTTACTATGCCTCAGTACATGAGACAAGGCTATGGCAAGATGCTTATTGATTTCAGTTATTTGC
TTTCCAAAGTTGAAGAAAAAGTTGGCTCCCCAGAATGTCCACTCTCAGATCTGGGGCTTATAAGCTATTGCAGTTACTGG
AAAGAATTACTTCTCTGCGACCTGCATAATTTCCAAGACAAAGAGATTTCTATCAAAGAAATCAGTCAGGAGACGGCTGT
GAATCCTGTGGACATTGTCAGCACTCTACAAGCCCTTCAGATGCTCAAGTACTGGAAGGGAAAACACCTAGTTTTAAAGA
GACAGGACCTGATTGATTAGTGGATAGCCAAAGAGGCCAAAAGGTCCAACTCCAATAAAACCATGGATCCCAGCTGCTTA
AAATGGACCCCTCCCAAGGGCACT

Alignment

ORF - retro_pabe_3795 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 94.21 %
• Parental protein coverage: 54.21 %
• Number of stop codons detected: 2
• Number of frameshifts detected: 0

Retrocopy - Parental Gene Alignment:

Parental  MEHRQTYGNTREPLLENLTSEYDLDLFRRAQARASEDLEKLRLQGQITEGSNMIKTIAFGRYELDTWYHS
          ME.RQTYGNTREPLLENLTS.YDLDLFR.A.A.ASEDLEKLRLQGQITEGSNMIKTIAFGRY.LDTWYHS
Retrocopy MEYRQTYGNTREPLLENLTSKYDLDLFR*AEAQASEDLEKLRLQGQITEGSNMIKTIAFGRYDLDTWYHS

Parental  PYPEEYARLGRLYMCEFCLKYMKSQTILRRHMAKCVWKHPPGDEIYRKGSISVFEVDGKKNKIYCQNLCL
          PYPEEYARLG.LYMCEFCLKYMKSQ.IL.RHMAKCVWKHPPGDEIYRK.SISVFEVDGKKNKIYCQNLCL
Retrocopy PYPEEYARLGHLYMCEFCLKYMKSQMILHRHMAKCVWKHPPGDEIYRKSSISVFEVDGKKNKIYCQNLCL

Parental  LAKLFLDHKTLYYDVEPFLFYVMTEADNTGCHLIGYFSKEKNSFLNYNVSCILTMPQYMRQGYGKMLIDF
          LAKLFLDHKTLYYDVEPFLFYVMTE.DNTGCHLIGYFSKE.NSFLNYNVSCILTMPQYMRQGYGKMLIDF
Retrocopy LAKLFLDHKTLYYDVEPFLFYVMTEVDNTGCHLIGYFSKEENSFLNYNVSCILTMPQYMRQGYGKMLIDF

Parental  SYLLSKVEEKVGSPERPLSDLGLISYRSYWKEVLLRYLHNFQGKEISIKEISQETAVNPVDIVSTLQALQ
          SYLLSKVEEKVGSPE.PLSDLGLISY.SYWKE.LL..LHNFQ.KEISIKEISQETAVNPVDIVSTLQALQ
Retrocopy SYLLSKVEEKVGSPECPLSDLGLISYCSYWKELLLCDLHNFQDKEISIKEISQETAVNPVDIVSTLQALQ

Parental  MLKYWKGKHLVLKRQDLIDEWIAKEAKRSNSNKTMDPSCLKWTPPKGT
          MLKYWKGKHLVLKRQDLID.WIAKEAKRSNSNKTMDPSCLKWTPPKGT
Retrocopy MLKYWKGKHLVLKRQDLID*WIAKEAKRSNSNKTMDPSCLKWTPPKGT

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
SRP007412_brain_prefrontal_cortex	0.11 RPM	24.22 RPM
SRP007412_cerebellum	0.00 RPM	40.98 RPM
SRP007412_heart	0.00 RPM	7.19 RPM
SRP007412_kidney	0.00 RPM	10.21 RPM
SRP007412_liver	0.00 RPM	5.48 RPM

ChIP-Seq

Pongo abelii was not studied using ChIP-Seq data.

EST

No EST(s) were mapped for retro_pabe_3795 retrocopy.

TSS

Pongo abelii was not studied using FANTOM5 data.

Lab

retro_pabe_3795 was not experimentally validated.

Homology

Retrocopy orthology:

Retrocopy retro_pabe_3795 has 3 orthologous retrocopies within eutheria group .

Species	RetrogeneDB ID
Homo sapiens	retro_hsap_4878
Pan troglodytes	retro_ptro_3250
Gorilla gorilla	retro_ggor_3048

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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,