RetrogeneDB ID: retro_ggor_71

Retrocopy location

• Organism: Gorilla (Gorilla gorilla)
• Coordinates: 12:120125864..120126323(+)
• Located in intron of: None

Retrocopy information

• Ensembl ID: ENSGGOG00000002330
• Aliases: None
• Status: KNOWN_PROTEIN_CODING

Parental gene information

• Parental gene symbol: NME1
• Ensembl ID: ENSGGOG00000016526
• Aliases: None
• Description: Nucleoside diphosphate kinase [Source:UniProtKB/TrEMBL;Acc:G3RK64]

Sequence

>retro_ggor_71
ACGGCCAACCTCGAGCGCACCTTCATCACCATCAAGCCGGACAGCATGCAGCGCGGCCTGGTGGGCAAGATCATCAAGCG
CTTCGAGCAGAAGGGGTTCCGCCTCATGGCCATGAAGTTCCTCCTGGCCTCTGAAGAACACCTGAAGCAGCACTACATTG
ACCTGAAGGACCGCCCATTCTTCCCTGGGCTGGTGAAGTACATGAACTCAGGGCCGGTCATGGCCATGGTCTGGGAGGGG
CTGAACGTGGTGAAGACAGGCCGAGTGATGCTTGGGGAGACCAATCCAGCAGATTCTAAGCCAGGCACCATTCGTGGGGA
CTTTTGCATTCAGGTTGGCAGGAACATCATTCATGGCAGTGATTCAGTAAAAAGTGCTGAAAAAGAAATCAGCCTACGGT
TTAAGCCTGAAGAACTGGTTGACTACAAGTCTTGTGCTCATGACTGGGTCTATGAATAA

Alignment

ORF - retro_ggor_71 Open Reading Frame is conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 83.44 %
• Parental protein coverage: 99.34 %
• Number of stop codons detected: 0
• Number of frameshifts detected: 0

Retrocopy - Parental Gene Alignment:

Parental  ANCERTFIAIKPDGVQRGLVGEIIKRFEQKGFRLVGLKFMQASEDLLKEHYVDLKDRPFFAGLVKYMHSG
          AN.ERTFI.IKPD..QRGLVG.IIKRFEQKGFRL...KF..ASE..LK.HY.DLKDRPFF.GLVKYM.SG
Retrocopy ANLERTFITIKPDSMQRGLVGKIIKRFEQKGFRLMAMKFLLASEEHLKQHYIDLKDRPFFPGLVKYMNSG

Parental  PVVAMVWEGLNVVKTGRVMLGETNPADSKPGTIRGDFCIQVGRNIIHGSDSVESAEKEIGLWFHPEELVD
          PV.AMVWEGLNVVKTGRVMLGETNPADSKPGTIRGDFCIQVGRNIIHGSDSV.SAEKEI.L.F.PEELVD
Retrocopy PVMAMVWEGLNVVKTGRVMLGETNPADSKPGTIRGDFCIQVGRNIIHGSDSVKSAEKEISLRFKPEELVD

Parental  YTSCAQNWIYE
          Y.SCA..W.YE
Retrocopy YKSCAHDWVYE

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	70.40 RPM	55.15 RPM
SRP007412_cerebellum	42.55 RPM	19.23 RPM
SRP007412_heart	51.81 RPM	3.75 RPM
SRP007412_kidney	165.52 RPM	22.94 RPM
SRP007412_liver	108.04 RPM	18.39 RPM
SRP007412_testis	75.73 RPM	15.75 RPM

ChIP-Seq

Gorilla gorilla was not studied using ChIP-Seq data.

EST

Gorilla gorilla was not studied using EST data.

TSS

Gorilla gorilla was not studied using FANTOM5 data.

Lab

retro_ggor_71 was not experimentally validated.

Homology

Retrocopy orthology:

Retrocopy retro_ggor_71 has 3 orthologous retrocopies within eutheria group .

Species	RetrogeneDB ID
Homo sapiens	retro_hsap_1063
Pan troglodytes	retro_ptro_91
Pongo abelii	retro_pabe_102

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Parental genes homology:

Parental genes homology involve 11 parental genes, and 26 retrocopies.

Species	Parental gene accession	Retrocopies number
Bos taurus	ENSBTAG00000004651	1 retrocopy	retro_btau_1707,
Canis familiaris	ENSCAFG00000023628	7 retrocopies	retro_cfam_117, retro_cfam_1645, retro_cfam_37, retro_cfam_676, retro_cfam_69, retro_cfam_832, retro_cfam_96,
Gorilla gorilla	ENSGGOG00000004512	1 retrocopy	retro_ggor_2259,
Gorilla gorilla	ENSGGOG00000016526	1 retrocopy	retro_ggor_71 ,
Monodelphis domestica	ENSMODG00000028492	1 retrocopy	retro_mdom_503,
Mustela putorius furo	ENSMPUG00000015559	5 retrocopies	retro_mputfur_1093, retro_mputfur_1357, retro_mputfur_442, retro_mputfur_667, retro_mputfur_997,
Mus musculus	ENSMUSG00000091228	3 retrocopies	retro_mmus_2712, retro_mmus_3081, retro_mmus_581,
Nomascus leucogenys	ENSNLEG00000007919	2 retrocopies	retro_nleu_1029, retro_nleu_1030,
Oryctolagus cuniculus	ENSOCUG00000022135	1 retrocopy	retro_ocun_1728,
Pan troglodytes	ENSPTRG00000009415	1 retrocopy	retro_ptro_91,
Rattus norvegicus	ENSRNOG00000002693	3 retrocopies	retro_rnor_1198, retro_rnor_1600, retro_rnor_704,