RetrogeneDB ID: retro_ggor_1952

Retrocopy location

• Organism: Gorilla (Gorilla gorilla)
• Coordinates: 3:84891951..84892932(-)
• Located in intron of: None

Retrocopy information

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

Parental gene information

• Parental gene symbol: CYP51A1
• Ensembl ID: ENSGGOG00000011496
• Aliases: None
• Description: None

Sequence

>retro_ggor_1952
ATGATGCTGCTGGGCTTGCTGCAGGCGGGTGGGTCGGTGCTGGGCCAGGCGATGGAGGAGGTGACAGGCGGCAACCTCTT
GTCCATGCTGCTGATCGCCTGCGCCTTCACCCTCAGCCTGGTCTACTTGTTCCGTCTCGCCGCCGGCCACCTGGTCCAGC
TGACCGCAGGGGCGAAAAGTCCTCCTTATATTTTCTCCCCAATTCCTTTCCTTGGGCATGCCATAGCATTTGGGAAAAGT
CCAACTGAATTTCTAGAAAATGCATATGGGAATTATGGACCTGTATTTAGTTTTATCATGGTAGGCAAGGCATTTACTTA
CCTTCTGGGGAGTGATGCTGCTGCACTGCTTTTTAATAGTAAAAATGAAGTCCTGAATGCAGAAGATGTCTACAGTCGCC
TGACAACACCTGTGTTTGGGAAGGGAGTTGCATACGATGTGCCTAATCCAGTTTTCTTGGAGCAGAAGAAAATGTTAAAA
AGTGGCCTTAATATAGCCCATTTTAAATAGCATGTTTCTATAATTGAAAAAGAAACAAAGGAGTACTTTGAGAGTTGGGG
AGAAAGTGGAGAAAAAAATGTGTTTGCAGCTCTTTCTGAGCTCATAATTTTAACAGCTAGCCATTATTTGCATGGAAAGG
AAATCAGAAGTCAACACATTGAAAAGGTAGCACAGCTGTATGCAGATTTAGATGGAGGTTTCAGCCATGCAGCCTGGCTG
TTACCAGGTTGGCTGCCTTTGCCTAGTTTCAGACGTAGGGACAGAGCTCATCAGGAAATCAAGGATATTTTCTATAAGGC
AATCCAGAAACGCAGACAGTCTCAAGAAAAAATTGATGACATTCTCCAAACTTTACTAGATGCTACACACAAGGATAGGC
GTCCTTTGACTGATGATGAAGTAGCAGGGATGCTTATTGGATTACTCTTGGCAGAGCAGCATACATCCTCAACTAGTGCT
TAGATGGGCTTCTTTTTGGCC

Alignment

ORF - retro_ggor_1952 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 75.61 %
• Parental protein coverage: 64.55 %
• Number of stop codons detected: 2
• Number of frameshifts detected: 0

Retrocopy - Parental Gene Alignment:

Parental  MLLLGLLQAGGSVLGHAMEKVTGGNLLSMLLIACAFTLSLVYLFRLAAGHLVQLPAGVKSPPYIFSPIPF
          M.LLGLLQAGGSVLG.AME.VTGGNLLSMLLIACAFTLSLVYLFRLAAGHLVQL.AG.KSPPYIFSPIPF
Retrocopy MMLLGLLQAGGSVLGQAMEEVTGGNLLSMLLIACAFTLSLVYLFRLAAGHLVQLTAGAKSPPYIFSPIPF

Parental  LGHAIAFGKSPIEFLENAYEKYGPVFSFTMVGKTFTYLLGSDAAALLFNSKNEDLNAEDVYSRLTTPVFG
          LGHAIAFGKSP.EFLENAY..YGPVFSF.MVGK.FTYLLGSDAAALLFNSKNE.LNAEDVYSRLTTPVFG
Retrocopy LGHAIAFGKSPTEFLENAYGNYGPVFSFIMVGKAFTYLLGSDAAALLFNSKNEVLNAEDVYSRLTTPVFG

Parental  KGVAYDVPNPVFLEQKKMLKSGLNIAHFKQHVSIIEKETKEYFQSWGESGEKNVFEALSELIILTASHHK
          KGVAYDVPNPVFLEQKKMLKSGLNIAHFK.HVSIIEKETKEYF.SWGESGEKNVF.ALSEL.I.....H.
Retrocopy KGVAYDVPNPVFLEQKKMLKSGLNIAHFK*HVSIIEKETKEYFESWGESGEKNVFAALSEL-IILTASHY

Parental  CLCFPGSTVFIQLSPNIFRRLDLRFKRVSYFLLNWKILLNYRRRDRAHREIKDIFYKAIQKRRQSQEKID
          ..........I.........LD..F......L..W..L...RRRDRAH.EIKDIFYKAIQKRRQSQEKID
Retrocopy LHGKEIRSQHIEKVAQLYADLDGGFSHAAWLLPGWLPLPSFRRRDRAHQEIKDIFYKAIQKRRQSQEKID

Parental  DILQTLLDATYKDGRPLTDD--GKFALAPLIVVRLLAFTAAIVAFFRA
          DILQTLLDAT.KD.RPLTDD.........L........T.A...FF.A
Retrocopy DILQTLLDATHKDRRPLTDDEVAGMLIGLLLAEQHTSSTSA*MGFFLA

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	5.37 RPM	16.21 RPM
SRP007412_cerebellum	2.25 RPM	11.31 RPM
SRP007412_heart	0.28 RPM	1.16 RPM
SRP007412_kidney	2.78 RPM	7.61 RPM
SRP007412_liver	3.01 RPM	12.98 RPM
SRP007412_testis	31.91 RPM	85.06 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_1952 was not experimentally validated.

Homology

Retrocopy orthology:

Retrocopy retro_ggor_1952 has 2 orthologous retrocopies within eutheria group .

Species	RetrogeneDB ID
Homo sapiens	retro_hsap_2807
Pan troglodytes	retro_ptro_1901

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Parental genes homology:

Parental genes homology involve 3 parental genes, and 3 retrocopies.

Species	Parental gene accession	Retrocopies number
Gorilla gorilla	ENSGGOG00000011496	1 retrocopy	retro_ggor_1952 ,
Monodelphis domestica	ENSMODG00000010610	1 retrocopy	retro_mdom_436,
Rattus norvegicus	ENSRNOG00000007234	1 retrocopy	retro_rnor_2379,