RetrogeneDB ID: retro_ggor_2703

Retrocopy location

• Organism: Gorilla (Gorilla gorilla)
• Coordinates: 8:20729399..20729904(-)
• Located in intron of: None

Retrocopy information

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

Parental gene information

• Parental gene symbol: TMEM97
• Ensembl ID: ENSGGOG00000004565
• Aliases: None
• Description: None

Sequence

>retro_ggor_2703
TGCATGGAGTGGTTGCTGGGCCTCTACTTCCTCAGCCACAACCCCATCACCTTGTTCATGGACCTGTAGGTGGTGCTGCC
GTGTGAGCTCTACCCAGTAGAGTTTAGAAACCTGCTGAAGTGCTATGCTAAGGAGTTCAAAGGCCCGCTGCTACAGGAGC
CACCAGTTTGGTTTAAGTCCTTTCTGTTTTGCGAGCTTGTGTTTCAGGTGCCTTTCTTTCCCGTTGCAACCTATGCCTTC
CTCAAAGGAAGCTGCAAGTGGGTTCGAACCCCTGCAAATCATCTACTCAGTTCACACCATGGTGACTTTAATTCCACTAC
TCTCCACATTTCTGTTGGAGGATTTCTCCAAAGCCAGTGGTTTCAAAGGATAAAGACCTGAGACTCTGCATGAACGGTTA
ACCCCTGTATCTGTCTATGCCCCCTACTTACTCATCCCATTCGTACTTTTAATTTTCATGTTGCAGAGCCCCTACTACAA
GTATGAGGAGAAAAGAAAAAAGAAA

Alignment

ORF - retro_ggor_2703 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 88.76 %
• Parental protein coverage: 95.45 %
• Number of stop codons detected: 2
• Number of frameshifts detected: 1

Retrocopy - Parental Gene Alignment:

Parental  CVEWLLGLYFLSHIPITLFMDLQAVLPRELYPVEFRNLLKWYAKEFKDPLLQEPPAWFKSFLFCELVFQL
          C.EWLLGLYFLSH.PITLFMDL..VLP.ELYPVEFRNLLK.YAKEFK.PLLQEPP.WFKSFLFCELVFQ.
Retrocopy CMEWLLGLYFLSHNPITLFMDL*VVLPCELYPVEFRNLLKCYAKEFKGPLLQEPPVWFKSFLFCELVFQV

Parental  PFFPIATYAFLKGSCKWIRTPA-IIYSVHTMTTLIPILSTFLFEDFSKASGFKGQIPETLHERLTLVSVY
          PFFP.ATYAFLKGSCKW.RTPA.IIYSVHTM.TLIP.LSTFL.EDFSKASGFKG..PETLHERLT.VSVY
Retrocopy PFFPVATYAFLKGSCKWVRTPA>IIYSVHTMVTLIPLLSTFLLEDFSKASGFKG*RPETLHERLTPVSVY

Parental  APYLLIPFVLLIFMLRSPYYKYEEKRKKK
          APYLLIPFVLLIFML.SPYYKYEEKRKKK
Retrocopy APYLLIPFVLLIFMLQSPYYKYEEKRKKK

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	4.32 RPM
SRP007412_cerebellum	0.00 RPM	3.62 RPM
SRP007412_heart	0.00 RPM	0.38 RPM
SRP007412_kidney	0.00 RPM	1.68 RPM
SRP007412_liver	0.00 RPM	8.39 RPM
SRP007412_testis	0.00 RPM	32.63 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_2703 was not experimentally validated.

Homology

Retrocopy orthology:

Retrocopy retro_ggor_2703 has 4 orthologous retrocopies within eutheria group .

Species	RetrogeneDB ID
Homo sapiens	retro_hsap_4027
Pan troglodytes	retro_ptro_2731
Pongo abelii	retro_pabe_3307
Macaca mulatta	retro_mmul_2323

---

Parental genes homology:

Parental genes homology involve 11 parental genes, and 13 retrocopies.

Species	Parental gene accession	Retrocopies number
Choloepus hoffmanni	ENSCHOG00000011105	1 retrocopy	retro_chof_566,
Homo sapiens	ENSG00000109084	1 retrocopy	retro_hsap_4027,
Gorilla gorilla	ENSGGOG00000004565	1 retrocopy	retro_ggor_2703 ,
Macaca mulatta	ENSMMUG00000019142	1 retrocopy	retro_mmul_2323,
Mus musculus	ENSMUSG00000037278	1 retrocopy	retro_mmus_1451,
Nomascus leucogenys	ENSNLEG00000001868	1 retrocopy	retro_nleu_1574,
Otolemur garnettii	ENSOGAG00000003329	1 retrocopy	retro_ogar_1913,
Pongo abelii	ENSPPYG00000008086	1 retrocopy	retro_pabe_3307,
Pan troglodytes	ENSPTRG00000008909	1 retrocopy	retro_ptro_2731,
Ictidomys tridecemlineatus	ENSSTOG00000007542	2 retrocopies	retro_itri_341, retro_itri_758,
Tupaia belangeri	ENSTBEG00000005125	2 retrocopies	retro_tbel_2160, retro_tbel_2221,