RetrogeneDB ID: retro_ggor_2733

Retrocopy location

• Organism: Gorilla (Gorilla gorilla)
• Coordinates: 8:71661632..71662317(-)
• Located in intron of: None

Retrocopy information

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

Parental gene information

• Parental gene symbol: FAM213A
• Ensembl ID: ENSGGOG00000013246
• Aliases: None
• Description: None

Sequence

>retro_ggor_2733
ATGTCTTTCTTCCAGAACCCAAGTTTCCTCACCATGGGCATGTGGTCCCTCGGTGCAGGAGCCCTGGGGGCTGCTGCCTT
GGCATTGTTGCTGGCCAACACAGACATGTTTCTGTCCAAGCCCCAGAAAGCGGCACTGGAGTACCTGGAGGATATAGACC
TGAAAATGCTGGAGAAGGAACCAAGGACTTTGAAAGCAAAGGAGCTATGGGAAAAGAAAATGGACCTGTGATTATGGCTG
TGCGGAGGCCAGGCTGTTTCCTCTGTTGAGGGGAAGGTGCGGATCTGTCCTCCCTGAAACCCATGTGGACGAGCTGGGTG
TCCCCCTCTATGCAGTGGTAAAGGAGCACATCAGGACTGAAGTGAAGGATTTCCAGCCTTATTTTAAAAGAGAAACCTTC
CTGGATGAAAAGAAAAAGTTCTATGGTCCACAAAGGCAGAAGATGATGTTTATGGGATTTATCTGTCTGGGAGTGTGGTA
CTTCTGAGCCTGGAATGGAGGCTTCTCTGGAAACCTGGAAGGAGAAGACTTCATCCTCAGGGAAGTTTTCGTGGTGGCAT
CAGGAAACCAGGGGATTCTTCTCGAGCACCGAGAAAAAGAATTTGGAGACAAAGTAAACCTACTTTGTCTGGTTCTGGAG
GCTGCTAAGATGATCAAACCACAGACTTTGGCCTCAGAGAAAAAA

Alignment

ORF - retro_ggor_2733 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 83.69 %
• Parental protein coverage: 100. %
• Number of stop codons detected: 2
• Number of frameshifts detected: 2

Retrocopy - Parental Gene Alignment:

Parental  MSFLQDPSFFTMGMWSIGAGALGAAALALLLANTDVFLSKPQKAALEYLEDIDLKTLEKEPRT-FKAK-E
          MSF.Q.PSF.TMGMWS.GAGALGAAALALLLANTD.FLSKPQKAALEYLEDIDLK.LEKEPRT.F..K..
Retrocopy MSFFQNPSFLTMGMWSLGAGALGAAALALLLANTDMFLSKPQKAALEYLEDIDLKMLEKEPRT<FESKGA

Parental  LWEKNGAVIMAVRRPGCFLCREEAADLSSLKSM-LDQLGVPLYAVVKEHIRTEVKDFQPYFKGEIFLDEK
          ....NG.VIMAVRRPGCFLC..E.ADLSSLK.M..D.LGVPLYAVVKEHIRTEVKDFQPYFK.E.FLDEK
Retrocopy MGKENGPVIMAVRRPGCFLC*GEGADLSSLKPM<VDELGVPLYAVVKEHIRTEVKDFQPYFKRETFLDEK

Parental  KKFYGPQRRKMMFMGFIRLGVWYNFFRAWNGGFSGNLEGEGFILGGVFVVGSGKQGILLEHREKEFGDKA
          KKFYGPQR.KMMFMGFI.LGVWY..F.AWNGGFSGNLEGE.FIL..VFVV.SG.QGILLEHREKEFGDK.
Retrocopy KKFYGPQRQKMMFMGFICLGVWY--F*AWNGGFSGNLEGEDFILREVFVVASGNQGILLEHREKEFGDKV

Parental  NLLS-VLEAAKMIKPQTLASEKK
          NLL..VLEAAKMIKPQTLASEKK
Retrocopy NLLCLVLEAAKMIKPQTLASEKK

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	0.10 RPM	135.66 RPM
SRP007412_cerebellum	0.12 RPM	54.96 RPM
SRP007412_heart	0.00 RPM	13.70 RPM
SRP007412_kidney	0.00 RPM	102.22 RPM
SRP007412_liver	0.03 RPM	49.51 RPM
SRP007412_testis	0.52 RPM	78.01 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_2733 was not experimentally validated.

Homology

Retrocopy orthology:

Retrocopy retro_ggor_2733 has 4 orthologous retrocopies within eutheria group .

Species	RetrogeneDB ID
Homo sapiens	retro_hsap_4076
Pan troglodytes	retro_ptro_2763
Pongo abelii	retro_pabe_3345
Macaca mulatta	retro_mmul_2351

---

Parental genes homology:

Parental genes homology involve 13 parental genes, and 30 retrocopies.

Species	Parental gene accession	Retrocopies number
Choloepus hoffmanni	ENSCHOG00000000813	1 retrocopy	retro_chof_878,
Callithrix jacchus	ENSCJAG00000003657	1 retrocopy	retro_cjac_3312,
Dasypus novemcinctus	ENSDNOG00000001981	3 retrocopies	retro_dnov_1843, retro_dnov_1901, retro_dnov_868,
Homo sapiens	ENSG00000122378	2 retrocopies	retro_hsap_1135, retro_hsap_4076,
Gorilla gorilla	ENSGGOG00000013246	2 retrocopies	retro_ggor_2733 , retro_ggor_886,
Microcebus murinus	ENSMICG00000007485	2 retrocopies	retro_mmur_1346, retro_mmur_1481,
Macaca mulatta	ENSMMUG00000021773	3 retrocopies	retro_mmul_2351, retro_mmul_2409, retro_mmul_881,
Mus musculus	ENSMUSG00000021792	1 retrocopy	retro_mmus_2227,
Otolemur garnettii	ENSOGAG00000013638	7 retrocopies	retro_ogar_2126, retro_ogar_2435, retro_ogar_2562, retro_ogar_3327, retro_ogar_420, retro_ogar_580, retro_ogar_784,
Procavia capensis	ENSPCAG00000009696	1 retrocopy	retro_pcap_281,
Pongo abelii	ENSPPYG00000025862	4 retrocopies	retro_pabe_3345, retro_pabe_643, retro_pabe_738, retro_pabe_944,
Pan troglodytes	ENSPTRG00000002685	2 retrocopies	retro_ptro_2763, retro_ptro_774,
Rattus norvegicus	ENSRNOG00000011140	1 retrocopy	retro_rnor_1517,