RetrogeneDB ID: retro_ggor_3011

Retrocopy location

• Organism: Gorilla (Gorilla gorilla)
• Coordinates: X:49589071..49589941(-)
• Located in intron of: None

Retrocopy information

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

Parental gene information

• Parental gene symbol: ACAA2
• Ensembl ID: ENSGGOG00000012552
• Aliases: None
• Description: None

Sequence

>retro_ggor_3011
TTGGCAAGGCATGTTGGTTTGCGTGTGGGAATCCCAAAGGAGACCCCAGCTCTCACGATTAATAGGCTCTGTGGTTCTGG
TTTTCAGTCCACTGTGAATGGGTGTTAGGAAATTTGTGTTAAAGAAGCTGAAGTTGTTTTATGCGGAGGAACCAAAAGCA
TGAGCCAAGCTCCCTACTGTGTCAGAAATGTGTGTTTTGGAACCAAGCTTGGATCAGATATCAAGCTGGAAGATTCTTTA
CGGATAGGATTAACAGATCAGCATGTCCAGCTCCCCATGGCAATGACTGCAGAGAATCTTGCTGTAAAACATAAAATAAG
CAGAGAAGAATGTGACAAATACGCCCTGCAGTCACAGCAGAGATGGAAAGCTGCTAATGATGCTGGCTACTTTAATGATG
AAATGGCACCAATTGAAGTGAAGACAAAGAAAGGAAAACAGACAATGCAGGTAGATGAGCATGCTGGGCCCCAAACAACC
CTGGAATAGTTACAGAAACTTCCTCCAGTATTCAAGAAAGATGGAACTGTCACTGCAGGGAATGCATCGGGGATAGCTGA
TGGTGCTGGAGCTGTTATCATAGCTAGTGAAGATGCTGTTAAGAACCATAACTTCACACCACTGGCAAGAATTGTGGGCT
ACTTTGTATCTGTATGTGATCCCTCTATCATGGGTATTGGTCCTGTCCTTGCTATCAGTGGGGCACTGAAGAAAGCAGGA
CTGAGTCTTAAGGACATGGATTTGGTAGAGGTGAATGAAGCTTTTGCTCCCCAGTACTTGGCTGTTGAGAAGAGTTTGGA
TCTTGACATAAGTAAAACCAATGTGAATGGAGGAGCCATTGCTTTGGGTCACCCACTGGGAGGATCTGGA

Alignment

ORF - retro_ggor_3011 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 94.48 %
• Parental protein coverage: 73.05 %
• Number of stop codons detected: 2
• Number of frameshifts detected: 0

Retrocopy - Parental Gene Alignment:

Parental  LARHVGLRVGIPKETPALTINRLCGSGFQSIVNGCQEICVKEAEVVLCGGTESMSQAPYYVRNVRFGTKL
          LARHVGLRVGIPKETPALTINRLCGSGFQS.VNGC.EICVKEAEVVLCGGT.SMSQAPY.VRNV.FGTKL
Retrocopy LARHVGLRVGIPKETPALTINRLCGSGFQSTVNGC*EICVKEAEVVLCGGTKSMSQAPYCVRNVCFGTKL

Parental  GSDIKLEDSLWVSLTDQHVQLTMAMTAENLAVKHKISREECDKYALQSQQRWKAANDAGYFNDEMAPIEV
          GSDIKLEDSL...LTDQHVQL.MAMTAENLAVKHKISREECDKYALQSQQRWKAANDAGYFNDEMAPIEV
Retrocopy GSDIKLEDSLRIGLTDQHVQLPMAMTAENLAVKHKISREECDKYALQSQQRWKAANDAGYFNDEMAPIEV

Parental  KTKKGKQTMQVDEHARPQTTLEQLQKLPPVFKKDGTVTAGNASGVADGAGAVIIASEDAVKKHNFTPLAR
          KTKKGKQTMQVDEHA.PQTTLE.LQKLPPVFKKDGTVTAGNASG.ADGAGAVIIASEDAVK.HNFTPLAR
Retrocopy KTKKGKQTMQVDEHAGPQTTLE*LQKLPPVFKKDGTVTAGNASGIADGAGAVIIASEDAVKNHNFTPLAR

Parental  IVGYFVSGCDPSIMGIGPVPAISGALKKAGLSLKDMDLVEVNEAFAPQYLAVERSLDLDISKTNVNGGAI
          IVGYFVS.CDPSIMGIGPV.AISGALKKAGLSLKDMDLVEVNEAFAPQYLAVE.SLDLDISKTNVNGGAI
Retrocopy IVGYFVSVCDPSIMGIGPVLAISGALKKAGLSLKDMDLVEVNEAFAPQYLAVEKSLDLDISKTNVNGGAI

Parental  ALGHPLGGSG
          ALGHPLGGSG
Retrocopy ALGHPLGGSG

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	0.14 RPM	21.53 RPM
SRP007412_cerebellum	0.00 RPM	10.52 RPM
SRP007412_heart	0.00 RPM	34.27 RPM
SRP007412_kidney	0.08 RPM	181.46 RPM
SRP007412_liver	0.11 RPM	275.78 RPM
SRP007412_testis	0.52 RPM	42.79 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_3011 was not experimentally validated.

Homology

Retrocopy orthology:

Retrocopy retro_ggor_3011 has 1 orthologous retrocopies within eutheria group .

Species	RetrogeneDB ID
Homo sapiens	retro_hsap_4829

---

Parental genes homology:

Parental genes homology involve 9 parental genes, and 10 retrocopies.

Species	Parental gene accession	Retrocopies number
Ailuropoda melanoleuca	ENSAMEG00000009411	1 retrocopy	retro_amel_602,
Equus caballus	ENSECAG00000019394	1 retrocopy	retro_ecab_454,
Homo sapiens	ENSG00000167315	1 retrocopy	retro_hsap_4829,
Gorilla gorilla	ENSGGOG00000012552	1 retrocopy	retro_ggor_3011 ,
Myotis lucifugus	ENSMLUG00000022960	1 retrocopy	retro_mluc_654,
Nomascus leucogenys	ENSNLEG00000011576	1 retrocopy	retro_nleu_2706,
Ochotona princeps	ENSOPRG00000007567	2 retrocopies	retro_opri_1224, retro_opri_348,
Pan troglodytes	ENSPTRG00000010016	1 retrocopy	retro_ptro_3214,
Vicugna pacos	ENSVPAG00000012121	1 retrocopy	retro_vpac_625,