RetrogeneDB ID: retro_ggor_2720

Retrocopy location

• Organism: Gorilla (Gorilla gorilla)
• Coordinates: 8:45363055..45363515(-)
• Located in intron of: ENSGGOG00000007599

Retrocopy information

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

Parental gene information

• Parental gene symbol: UBE2N
• Ensembl ID: ENSGGOG00000024332
• Aliases: None
• Description: None

Sequence

>retro_ggor_2720
ATGGCGGGGCTGCCCCGCAGGATCATCAAGGAAACCCAGCGTTTGCTGGCAGAACCAGTTCCTGGCATCAAAGCAGAACC
AGATGAGAGCAACGCCTGTTATTTTCATGTGGTCATTGCTGGCCCTCAGGATTCCTTCCCCCTTTGAGGGAGGGACTTTT
AAACTTGAACTATTCCTTCCAGAAGAATACTCAATGGCAGCCCCTACAGTACGTTTCATGACCAAAATTTATCATCCTAA
TGTAGACAAGTTGGGAAGAATATGTTTAGATATTTTGAAAGATAACTGGTCCCCAGCACTGCAGATCCGCACAGTTCTGC
TATTGACCCAGGCCTTGTTATGTGCTCCCAATCCAGATGATCCATTAGCAAATGATGTAGCAGAGCAGTGGAAGACCAAC
AAAGCCCAAGCCACAGAAACAGCTAGAGCATGAACTAGGCTATATGCCATGAATAATATT

Alignment

ORF - retro_ggor_2720 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 90.26 %
• Parental protein coverage: 100. %
• Number of stop codons detected: 2
• Number of frameshifts detected: 1

Retrocopy - Parental Gene Alignment:

Parental  MAGLPRRIIXETQRLLAEPVPGIKAEPDESNARYFHVVIAGPQDS-PFEG-GTFKLELFLPEEYPMAAPK
          MAGLPRRII.ETQRLLAEPVPGIKAEPDESNA.YFHVVIAGPQDS.P..G.GTFKLELFLPEEY.MAAP.
Retrocopy MAGLPRRIIKETQRLLAEPVPGIKAEPDESNACYFHVVIAGPQDSFPL*G>GTFKLELFLPEEYSMAAPT

Parental  VRFMTKIYHPNVDKLGRICLDILKDKWSPALQIRTVLLSIQALLSAPNPDDPLANDVAEQWKTNEAQAIE
          VRFMTKIYHPNVDKLGRICLDILKD.WSPALQIRTVLL..QALL.APNPDDPLANDVAEQWKTN.AQA.E
Retrocopy VRFMTKIYHPNVDKLGRICLDILKDNWSPALQIRTVLLLTQALLCAPNPDDPLANDVAEQWKTNKAQATE

Parental  TARAWTRLYAMNNI
          TARA.TRLYAMNNI
Retrocopy TARA*TRLYAMNNI

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	5.42 RPM	62.82 RPM
SRP007412_cerebellum	3.27 RPM	42.16 RPM
SRP007412_heart	0.94 RPM	9.22 RPM
SRP007412_kidney	1.72 RPM	36.96 RPM
SRP007412_liver	0.90 RPM	22.63 RPM
SRP007412_testis	12.74 RPM	220.25 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_2720 was not experimentally validated.

Homology

Retrocopy orthology:

Retrocopy retro_ggor_2720 has 1 orthologous retrocopies within eutheria group .

Species	RetrogeneDB ID
Pongo abelii	retro_pabe_3326

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Parental genes homology:

Parental genes homology involve 11 parental genes, and 32 retrocopies.

Species	Parental gene accession	Retrocopies number
Canis familiaris	ENSCAFG00000006177	1 retrocopy	retro_cfam_196,
Cavia porcellus	ENSCPOG00000008581	5 retrocopies	retro_cpor_1548, retro_cpor_230, retro_cpor_24, retro_cpor_655, retro_cpor_750,
Gorilla gorilla	ENSGGOG00000024332	4 retrocopies	retro_ggor_1079, retro_ggor_2140, retro_ggor_2720 , retro_ggor_2969,
Loxodonta africana	ENSLAFG00000028985	1 retrocopy	retro_lafr_57,
Macropus eugenii	ENSMEUG00000002944	7 retrocopies	retro_meug_1236, retro_meug_1287, retro_meug_1453, retro_meug_1473, retro_meug_162, retro_meug_2009, retro_meug_31,
Macaca mulatta	ENSMMUG00000020634	3 retrocopies	retro_mmul_1587, retro_mmul_234, retro_mmul_72,
Monodelphis domestica	ENSMODG00000009451	2 retrocopies	retro_mdom_133, retro_mdom_1485,
Oryctolagus cuniculus	ENSOCUG00000011287	1 retrocopy	retro_ocun_100,
Pteropus vampyrus	ENSPVAG00000013734	2 retrocopies	retro_pvam_1420, retro_pvam_358,
Sarcophilus harrisii	ENSSHAG00000007776	1 retrocopy	retro_shar_105,
Tarsius syrichta	ENSTSYG00000008800	5 retrocopies	retro_tsyr_1476, retro_tsyr_1754, retro_tsyr_207, retro_tsyr_348, retro_tsyr_5,