RetrogeneDB ID: retro_pabe_2530

Retrocopy location

• Organism: Orangutan (Pongo abelii)
• Coordinates: 4:82731185..82731872(-)
• Located in intron of: None

Retrocopy information

• Ensembl ID: ENSPPYG00000014875
• Aliases: None
• Status: KNOWN_PSEUDOGENE

Parental gene information

• Parental gene symbol: NAA10
• Ensembl ID: ENSPPYG00000020861
• Aliases: NAA10, RENBP
• Description: N(alpha)-acetyltransferase 10, NatA catalytic subunit [Source:HGNC Symbol;Acc:18704]

Sequence

>retro_pabe_2530
ATGAACATCCGCAACGCTCGGCCAGACGACCTGATGAATATGCAACACTGCAACCTCCTTTGCCTTCCTGAGAACTACCA
GATGAAATACTATTTATATCATGGCCTTTCCTGGCCCCAGCTTTCTTACATCGCTGAGGATGAGGACGGGAAGATTGTGG
GCTATGTCCTGGCCAAAATGGAGGAGGACCCAGATGATGTCCCGCATGGCCATATCACCTCACTGGCCGTGAAGCGTTCA
CACCGGCGCCTCGGCCTGGCCCAGAAGCTGATGGACCAGGCCTCCAGGGCCATGATAGAGAACTTTAACACCAAATATGT
GTCTCTGCACGTCAGGAAGAGTAACCGGGCAGCCTTGCACCTCTATTCTAACACCCTCAACTTTCAGATTAGTGAGGTGG
AACCTAAATACTATGCAGATGGGGAAGATGCTTATGCTATGAAGCGGGATCTCTCGCAGATGGCAGATGAGCTGAGACGA
CAAGTGGACCTGAAGAAGGGCGGGTATGTGGTCCTGGGCTCCAGGGAGAACCAGGAGACCCAGGGCAGCACACTTTCTGG
TTCTGAAGAGGCCTGTCAGCAAAGGAACCCGGCTACCGAAGAAAGTGGTAGTGACAGCAAAGAACCTAAGGAGTCTGTGG
AGAGCACCAACGTCCAGGACAGCTCAGAAAGCTCGGATTCCACCTCC

Alignment

ORF - retro_pabe_2530 Open Reading Frame is conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 81.7 %
• Parental protein coverage: 100.0 %
• Number of stop codons detected: 0
• Number of frameshifts detected: 0

Retrocopy - Parental Gene Alignment:

Parental  MNIRNARPEDLMNMQHCNLLCLPENYQMKYYFYHGLSWPQLSYIAEDENGKIVGYVLAKMEEDPDDVPHG
          MNIRNARP.DLMNMQHCNLLCLPENYQMKYY.YHGLSWPQLSYIAEDE.GKIVGYVLAKMEEDPDDVPHG
Retrocopy MNIRNARPDDLMNMQHCNLLCLPENYQMKYYLYHGLSWPQLSYIAEDEDGKIVGYVLAKMEEDPDDVPHG

Parental  HITSLAVKRSHRRLGLAQKLMDQASRAMIENFNAKYVSLHVRKSNRAALHLYSNTLNFQISEVEPKYYAD
          HITSLAVKRSHRRLGLAQKLMDQASRAMIENFN.KYVSLHVRKSNRAALHLYSNTLNFQISEVEPKYYAD
Retrocopy HITSLAVKRSHRRLGLAQKLMDQASRAMIENFNTKYVSLHVRKSNRAALHLYSNTLNFQISEVEPKYYAD

Parental  GEDAYAMKRDLTQMADELRRHLELKEKGRHVVLGAIENKVESKGNSPPSSGEACREEKGLAAEDSGGDSK
          GEDAYAMKRDL.QMADELRR...LK.KG..VVLG..EN..E..G.....S.EAC......A.E.SG.DSK
Retrocopy GEDAYAMKRDLSQMADELRRQVDLK-KGGYVVLGSRENQ-ETQGSTLSGSEEAC-QQRNPATEESGSDSK

Parental  DLSEVSETTESTDVKDSSEASDSAS
          ...E..E..EST.V.DSSE.SDS.S
Retrocopy ---EPKESVESTNVQDSSESSDSTS

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	0.00 RPM	34.61 RPM
SRP007412_cerebellum	0.00 RPM	16.66 RPM
SRP007412_heart	0.03 RPM	13.85 RPM
SRP007412_kidney	0.00 RPM	43.19 RPM
SRP007412_liver	0.00 RPM	27.91 RPM

ChIP-Seq

Pongo abelii was not studied using ChIP-Seq data.

EST

No EST(s) were mapped for retro_pabe_2530 retrocopy.

TSS

Pongo abelii was not studied using FANTOM5 data.

Lab

retro_pabe_2530 was not experimentally validated.

Homology

Retrocopy orthology:

Retrocopy retro_pabe_2530 has 4 orthologous retrocopies within eutheria group .

Species	RetrogeneDB ID
Homo sapiens	retro_hsap_13
Pan troglodytes	retro_ptro_23
Gorilla gorilla	retro_ggor_196
Canis familiaris	retro_cfam_167

---

Parental genes homology:

Parental genes homology involve 22 parental genes, and 23 retrocopies.

Species	Parental gene accession	Retrocopies number
Ailuropoda melanoleuca	ENSAMEG00000018457	1 retrocopy	retro_amel_162,
Bos taurus	ENSBTAG00000047702	1 retrocopy	retro_btau_177,
Canis familiaris	ENSCAFG00000019415	1 retrocopy	retro_cfam_167,
Callithrix jacchus	ENSCJAG00000014506	1 retrocopy	retro_cjac_132,
Equus caballus	ENSECAG00000015203	1 retrocopy	retro_ecab_717,
Felis catus	ENSFCAG00000028705	1 retrocopy	retro_fcat_51,
Homo sapiens	ENSG00000102030	1 retrocopy	retro_hsap_13,
Gorilla gorilla	ENSGGOG00000009788	1 retrocopy	retro_ggor_196,
Macropus eugenii	ENSMEUG00000006054	2 retrocopies	retro_meug_1787, retro_meug_554,
Myotis lucifugus	ENSMLUG00000014267	1 retrocopy	retro_mluc_152,
Macaca mulatta	ENSMMUG00000000322	1 retrocopy	retro_mmul_21,
Mustela putorius furo	ENSMPUG00000008989	1 retrocopy	retro_mputfur_1424,
Mus musculus	ENSMUSG00000031388	1 retrocopy	retro_mmus_1416,
Nomascus leucogenys	ENSNLEG00000013724	1 retrocopy	retro_nleu_57,
Otolemur garnettii	ENSOGAG00000013263	1 retrocopy	retro_ogar_260,
Pongo abelii	ENSPPYG00000020861	1 retrocopy	retro_pabe_2530 ,
Pan troglodytes	ENSPTRG00000022419	1 retrocopy	retro_ptro_23,
Pteropus vampyrus	ENSPVAG00000000463	1 retrocopy	retro_pvam_1225,
Sarcophilus harrisii	ENSSHAG00000005952	1 retrocopy	retro_shar_362,
Sus scrofa	ENSSSCG00000012791	1 retrocopy	retro_sscr_987,
Ictidomys tridecemlineatus	ENSSTOG00000010237	1 retrocopy	retro_itri_1435,
Tursiops truncatus	ENSTTRG00000007455	1 retrocopy	retro_ttru_198,