RetrogeneDB ID: retro_ggor_2226

Retrocopy location

• Organism: Gorilla (Gorilla gorilla)
• Coordinates: 5:160872695..160873212(+)
• Located in intron of: ENSGGOG00000005493

Retrocopy information

• Ensembl ID: ENSGGOG00000027093
• Aliases: None
• Status: KNOWN_PSEUDOGENE

Parental gene information

• Parental gene symbol: BRCC3
• Ensembl ID: ENSGGOG00000027248
• Aliases: None
• Description: None

Sequence

>retro_ggor_2226
GTTCATCTAGAGTCTGACACTTTCCTTGTTTGTCTCAACCATGCTCTGAGCACAGAGAAGGAGGAGGTGATGGGGCTGTG
GATAGGGGAGTTGAACGATGATACAAGGAGTGACTCCAAATTTGCATATACTGGAACTGAAATGCGCACAGTTGCTGAAA
AGGTTGATGCCGTCAGAATTGTTCACATTCATTCTGTCATCATCTTAACGACGTTCTGATAAGAGGAAGGACCGAGTAGA
AATTTCTCCAGGGCAGCTGTCTGCAGCTTCAACAGAGGCAGAGAGGTTGGCTGAACTGACAGGCCACCCCATGAGAGTTG
TGGGCTGGTATCATTCCCACCCTCATATAACTGTTTGGCCTTCACATGTTGATGTTTGCACACAAGCCATGTACCAGATG
ATGGATCAAGGCTTTGTAGGACTTATTTTTTCCTGTTTCATAGAAGATAAGAACACAAGGGCTGGCCGGGTACTCTACAC
TTGCTTCCAATCCATACAGGCCCAAAAGAGTTCAGAG

Alignment

ORF - retro_ggor_2226 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 93.68 %
• Parental protein coverage: 59.04 %
• Number of stop codons detected: 0
• Number of frameshifts detected: 1

Retrocopy - Parental Gene Alignment:

Parental  VHLESDAFLVCLNHALSTEKEEVMGLCIGELNDDTSRSDSKFAYTGTEMRTVAEKVDAVRIVHIHSVIIL
          VHLESD.FLVCLNHALSTEKEEVMGL.IGELNDDT.RSDSKFAYTGTEMRTVAEKVDAVRIVHIHSVIIL
Retrocopy VHLESDTFLVCLNHALSTEKEEVMGLWIGELNDDT-RSDSKFAYTGTEMRTVAEKVDAVRIVHIHSVIIL

Parental  -RRSDKRKDRVEISPEQLSAASTETHRLAELTGRPMRVVGWYHSHPHITVWPSHVDVRTQAMYQMMDQGF
          .RRSDKRKDRVEISP.QLSAASTE..RLAELTG.PMRVVGWYHSHPHITVWPSHVDV.TQAMYQMMDQGF
Retrocopy >RRSDKRKDRVEISPGQLSAASTEAERLAELTGHPMRVVGWYHSHPHITVWPSHVDVCTQAMYQMMDQGF

Parental  VGLIFSCFIEDKNTKTGRVLYTCFQSIQAQKSSE
          VGLIFSCFIEDKNT..GRVLYTCFQSIQAQKSSE
Retrocopy VGLIFSCFIEDKNTRAGRVLYTCFQSIQAQKSSE

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	0.62 RPM	6.33 RPM
SRP007412_cerebellum	0.39 RPM	4.41 RPM
SRP007412_heart	0.16 RPM	1.78 RPM
SRP007412_kidney	0.82 RPM	4.91 RPM
SRP007412_liver	0.26 RPM	2.14 RPM
SRP007412_testis	0.52 RPM	2.90 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_2226 was not experimentally validated.

Homology

Retrocopy orthology:

Retrocopy retro_ggor_2226 has 0 orthologous retrocopies within eutheria group .

---

Parental genes homology:

Parental genes homology involve 8 parental genes, and 10 retrocopies.

Species	Parental gene accession	Retrocopies number
Bos taurus	ENSBTAG00000007817	2 retrocopies	retro_btau_1327, retro_btau_1646,
Cavia porcellus	ENSCPOG00000001882	2 retrocopies	retro_cpor_388, retro_cpor_627,
Homo sapiens	ENSG00000185515	1 retrocopy	retro_hsap_3271,
Gorilla gorilla	ENSGGOG00000027248	1 retrocopy	retro_ggor_2226 ,
Monodelphis domestica	ENSMODG00000016487	1 retrocopy	retro_mdom_930,
Mus musculus	ENSMUSG00000031201	1 retrocopy	retro_mmus_672,
Nomascus leucogenys	ENSNLEG00000014460	1 retrocopy	retro_nleu_2940,
Sarcophilus harrisii	ENSSHAG00000005392	1 retrocopy	retro_shar_51,