RetrogeneDB ID: retro_ggor_1112

Retrocopy location

• Organism: Gorilla (Gorilla gorilla)
• Coordinates: 14:59396966..59397302(-)
• Located in intron of: None

Retrocopy information

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

Parental gene information

• Parental gene symbol: FXN
• Ensembl ID: ENSGGOG00000007636
• Aliases: None
• Description: None

Sequence

>retro_ggor_1112
CTAGCGGAGGAAACGCTGGACTCCTTAGCAGAAATTTTTGAAGACCTTGCAGATGAGCCATATGCATTTGAGGACTATGA
TGTTTCCTTTGGGAGTGGTGTCTTAACTATTAAACTGGGTGGAGATCTAGGAACCTATTTGATCCACAGGCAGGCACCAA
ACAAGCAAATCTGGTTATCTTCTCCATCCAGTGGGCCCAGGAATTATGATGGGACTGGGAAAAACTGCATGTACTCCCAT
GACAGCGTGTCCCTCCATGAGCTGCTGGCCACAGAGCTCACTGAAGTCTTGAAAACCAAACTGGACTTGTCTTCCTTGGC
CTATTCCAGAAAAGAC

Alignment

ORF - retro_ggor_1112 Open Reading Frame is conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 83.93 %
• Parental protein coverage: 53.33 %
• Number of stop codons detected: 0
• Number of frameshifts detected: 0

Retrocopy - Parental Gene Alignment:

Parental  LAEETLDSLAEFFEDLADKPYTFEDYDVSFGSGVLTVKLGGDLGTYVINKQTPNKQIWLSSPSSGPKRYD
          LAEETLDSLAE.FEDLAD.PY.FEDYDVSFGSGVLT.KLGGDLGTY.I..Q.PNKQIWLSSPSSGP..YD
Retrocopy LAEETLDSLAEIFEDLADEPYAFEDYDVSFGSGVLTIKLGGDLGTYLIHRQAPNKQIWLSSPSSGPRNYD

Parental  WTGKNWVYSHDGVSLHELLAAELTKALKTKLDLSSLAYSGKD
          .TGKN..YSHD.VSLHELLA.ELT..LKTKLDLSSLAYS.KD
Retrocopy GTGKNCMYSHDSVSLHELLATELTEVLKTKLDLSSLAYSRKD

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	5.90 RPM
SRP007412_cerebellum	0.00 RPM	4.73 RPM
SRP007412_heart	0.00 RPM	3.53 RPM
SRP007412_kidney	0.00 RPM	5.77 RPM
SRP007412_liver	0.00 RPM	5.54 RPM
SRP007412_testis	0.00 RPM	5.28 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_1112 was not experimentally validated.

Homology

Retrocopy orthology:

Retrocopy retro_ggor_1112 has 1 orthologous retrocopies within eutheria group .

Species	RetrogeneDB ID
Callithrix jacchus	retro_cjac_813

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Parental genes homology:

Parental genes homology involve 13 parental genes, and 29 retrocopies.

Species	Parental gene accession	Retrocopies number
Ailuropoda melanoleuca	ENSAMEG00000006915	1 retrocopy	retro_amel_1496,
Choloepus hoffmanni	ENSCHOG00000005107	2 retrocopies	retro_chof_349, retro_chof_94,
Callithrix jacchus	ENSCJAG00000001695	4 retrocopies	retro_cjac_1562, retro_cjac_1927, retro_cjac_3939, retro_cjac_813,
Dasypus novemcinctus	ENSDNOG00000024066	3 retrocopies	retro_dnov_2204, retro_dnov_2317, retro_dnov_307,
Equus caballus	ENSECAG00000019174	1 retrocopy	retro_ecab_311,
Homo sapiens	ENSG00000165060	2 retrocopies	retro_hsap_1447, retro_hsap_4311,
Gorilla gorilla	ENSGGOG00000007636	3 retrocopies	retro_ggor_1112 , retro_ggor_2203, retro_ggor_2881,
Macaca mulatta	ENSMMUG00000000357	2 retrocopies	retro_mmul_2038, retro_mmul_826,
Mustela putorius furo	ENSMPUG00000009619	2 retrocopies	retro_mputfur_501, retro_mputfur_803,
Mus musculus	ENSMUSG00000059363	2 retrocopies	retro_mmus_1571, retro_mmus_3058,
Otolemur garnettii	ENSOGAG00000031105	2 retrocopies	retro_ogar_1865, retro_ogar_476,
Rattus norvegicus	ENSRNOG00000015213	1 retrocopy	retro_rnor_2276,
Tursiops truncatus	ENSTTRG00000010336	4 retrocopies	retro_ttru_1281, retro_ttru_175, retro_ttru_546, retro_ttru_831,