RetrogeneDB ID: retro_ggor_2233

Retrocopy location

• Organism: Gorilla (Gorilla gorilla)
• Coordinates: 5:11786035..11786488(-)
• Located in intron of: None

Retrocopy information

• Ensembl ID: ENSGGOG00000024982
• Aliases: None
• Status: KNOWN_PSEUDOGENE

Parental gene information

• Parental gene symbol: MYL6B
• Ensembl ID: ENSGGOG00000003277
• Aliases: None
• Description: None

Sequence

>retro_ggor_2233
ATGTGTGACTTCACCGAGGACCAGACCGCAGAGTTCAAGGAGGCCTTCCAGCTGTTCGACCGAACAGGTGATGGCAAGAT
CCTGTGCAACCAATGTGGGGATGTGATGAGGGCCCTACGTCAGAATCCCACTAACACTGCGGTGGTCAAGGTTCTGAGGA
GCCCCAAGAGTAATGAGATGAATGTGAAGTTGCTGGACTTTGAGCACTTTCTGCCCATGCTGCAGACGGTGGCCAAGAAC
AAGGACCAAGGCACCTATGAAGATTATGTAGAAGGACTTCAGGTGTTTGACAAGGAAGGAAATGGCACCATCATGGGTGT
TGAATTCTGGCATGTTCTTGTCACACTGGGTGAGAAGATAACAGAGGAAGAAGTAGAGGTGTTGGTGGCAGGGAACGAGG
GCAGCAATGGTTGTATCGACTATGAAGCGTTTGTGAGGCATATCCTGTCGGGG

Alignment

ORF - retro_ggor_2233 Open Reading Frame is conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 86.75 %
• Parental protein coverage: 100.0 %
• Number of stop codons detected: 0
• Number of frameshifts detected: 0

Retrocopy - Parental Gene Alignment:

Parental  MCDFTEDQTAEFKEAFQLFDRTGDGKILYSQCGDVMRALGQNPTNAEVLKVLGNPKSDEMNVKVLDFEHF
          MCDFTEDQTAEFKEAFQLFDRTGDGKIL..QCGDVMRAL.QNPTN..V.KVL..PKS.EMNVK.LDFEHF
Retrocopy MCDFTEDQTAEFKEAFQLFDRTGDGKILCNQCGDVMRALRQNPTNTAVVKVLRSPKSNEMNVKLLDFEHF

Parental  LPMLQTVAKNKDQGTYEDYVEGLRVFDKEGNGTVMGAEIRHVLVTLGEKMTEEEVEMLVAGHEDSNGCIN
          LPMLQTVAKNKDQGTYEDYVEGL.VFDKEGNGT.MG.E..HVLVTLGEK.TEEEVE.LVAG.E.SNGCI.
Retrocopy LPMLQTVAKNKDQGTYEDYVEGLQVFDKEGNGTIMGVEFWHVLVTLGEKITEEEVEVLVAGNEGSNGCID

Parental  YEAFVRHILSG
          YEAFVRHILSG
Retrocopy YEAFVRHILSG

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	0.05 RPM	191.38 RPM
SRP007412_cerebellum	0.00 RPM	170.71 RPM
SRP007412_heart	0.00 RPM	163.38 RPM
SRP007412_kidney	0.04 RPM	562.84 RPM
SRP007412_liver	0.00 RPM	359.95 RPM
SRP007412_testis	0.10 RPM	245.53 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_2233 was not experimentally validated.

Homology

Retrocopy orthology:

Retrocopy retro_ggor_2233 has 5 orthologous retrocopies within eutheria group .

Species	RetrogeneDB ID
Homo sapiens	retro_hsap_1786
Pan troglodytes	retro_ptro_1196
Pongo abelii	retro_pabe_1467
Macaca mulatta	retro_mmul_211
Callithrix jacchus	retro_cjac_2566

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Parental genes homology:

Parental genes homology involve 14 parental genes, and 22 retrocopies.

Species	Parental gene accession	Retrocopies number
Canis familiaris	ENSCAFG00000000110	1 retrocopy	retro_cfam_1894,
Callithrix jacchus	ENSCJAG00000011620	3 retrocopies	retro_cjac_113, retro_cjac_2566, retro_cjac_2848,
Dasypus novemcinctus	ENSDNOG00000007592	1 retrocopy	retro_dnov_2073,
Homo sapiens	ENSG00000196465	1 retrocopy	retro_hsap_2383,
Gorilla gorilla	ENSGGOG00000003277	2 retrocopies	retro_ggor_1808, retro_ggor_2233 ,
Loxodonta africana	ENSLAFG00000012658	1 retrocopy	retro_lafr_734,
Macaca mulatta	ENSMMUG00000005214	1 retrocopy	retro_mmul_962,
Nomascus leucogenys	ENSNLEG00000026948	1 retrocopy	retro_nleu_369,
Oryctolagus cuniculus	ENSOCUG00000017368	1 retrocopy	retro_ocun_374,
Otolemur garnettii	ENSOGAG00000001521	3 retrocopies	retro_ogar_1918, retro_ogar_3179, retro_ogar_680,
Procavia capensis	ENSPCAG00000005927	2 retrocopies	retro_pcap_223, retro_pcap_242,
Pongo abelii	ENSPPYG00000004646	1 retrocopy	retro_pabe_2150,
Pan troglodytes	ENSPTRG00000023043	2 retrocopies	retro_ptro_1741, retro_ptro_2579,
Rattus norvegicus	ENSRNOG00000028837	2 retrocopies	retro_rnor_1432, retro_rnor_216,