RetrogeneDB ID: retro_ggor_770

Retrocopy location

• Organism: Gorilla (Gorilla gorilla)
• Coordinates: 12:8076416..8076799(+)
• Located in intron of: ENSGGOG00000016813

Retrocopy information

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

Parental gene information

• Parental gene symbol: MYL9
• Ensembl ID: ENSGGOG00000024477
• Aliases: None
• Description: None

Sequence

>retro_ggor_770
CAGGGGGCCACATCCAATGTCTTTGTGATGTTCGACCAGTTCCACATCCAGGAGTTTAAGGAGGCTTTCAACACGATTGA
CCAGAACCATGATGGCTTCATTGACAAGGGGGACAGCACGACAAGCTGGCTTCACCGCGGAAGAACCCCAAGGATGAATA
CCTGCAGGGCATGATGAGCGAGGCCCCAGGGCCCATCAACTTCAACACTTCCCTCACCATGTTTGGGGAGAAGCTGAATG
GAACAGACCCCCAGGATGTGATCCAAAACGCCTTCACCTGCTTCGACGAGGAATCCTCAGGTTTCATTCATGAGGACCAC
CTCCAGGAGCTGCTCACCACCATGGGTGACAGCTTCACAGATGAAGAAGTGGATGAGATGTAC

Alignment

ORF - retro_ggor_770 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 82.17 %
• Parental protein coverage: 74.42 %
• Number of stop codons detected: 0
• Number of frameshifts detected: 1

Retrocopy - Parental Gene Alignment:

Parental  QRATSNVFAMFDQSQIQEFKEAFNMIDQNRDGFIDKEDL-HDMLASLGKNPTDEYLEGMMSEAPGPINFT
          Q.ATSNVF.MFDQ..IQEFKEAFN.IDQN.DGFIDK.D..HD.LAS..KNP.DEYL.GMMSEAPGPINF.
Retrocopy QGATSNVFVMFDQFHIQEFKEAFNTIDQNHDGFIDKGDS<HDKLASPRKNPKDEYLQGMMSEAPGPINFN

Parental  MFLTMFGEKLNGTDPEDVIRNAFACFDEEASGFIHEDHLRELLTTMGDRFTDEEVDEMY
          ..LTMFGEKLNGTDP.DVI.NAF.CFDEE.SGFIHEDHL.ELLTTMGD.FTDEEVDEMY
Retrocopy TSLTMFGEKLNGTDPQDVIQNAFTCFDEESSGFIHEDHLQELLTTMGDSFTDEEVDEMY

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	36.97 RPM
SRP007412_cerebellum	0.00 RPM	22.06 RPM
SRP007412_heart	0.00 RPM	727.52 RPM
SRP007412_kidney	0.00 RPM	90.36 RPM
SRP007412_liver	0.00 RPM	89.24 RPM
SRP007412_testis	0.62 RPM	263.35 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_770 was not experimentally validated.

Homology

Retrocopy orthology:

Retrocopy retro_ggor_770 has 0 orthologous retrocopies within eutheria group .

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Parental genes homology:

Parental genes homology involve 10 parental genes, and 19 retrocopies.

Species	Parental gene accession	Retrocopies number
Canis familiaris	ENSCAFG00000008540	3 retrocopies	retro_cfam_1384, retro_cfam_2066, retro_cfam_2071,
Callithrix jacchus	ENSCJAG00000012890	4 retrocopies	retro_cjac_3193, retro_cjac_3195, retro_cjac_3743, retro_cjac_637,
Equus caballus	ENSECAG00000007545	1 retrocopy	retro_ecab_923,
Homo sapiens	ENSG00000101335	1 retrocopy	retro_hsap_956,
Gorilla gorilla	ENSGGOG00000004051	4 retrocopies	retro_ggor_1139, retro_ggor_1140, retro_ggor_2330, retro_ggor_2675,
Gorilla gorilla	ENSGGOG00000024477	1 retrocopy	retro_ggor_770 ,
Myotis lucifugus	ENSMLUG00000000207	2 retrocopies	retro_mluc_2534, retro_mluc_327,
Nomascus leucogenys	ENSNLEG00000006109	1 retrocopy	retro_nleu_2460,
Pongo abelii	ENSPPYG00000010971	1 retrocopy	retro_pabe_972,
Pan troglodytes	ENSPTRG00000013458	1 retrocopy	retro_ptro_662,