RetrogeneDB ID: retro_ggor_1818

Retrocopy location

• Organism: Gorilla (Gorilla gorilla)
• Coordinates: 2b:121074074..121074497(-)
• Located in intron of: ENSGGOG00000011710

Retrocopy information

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

Parental gene information

• Parental gene symbol: GAMT
• Ensembl ID: ENSGGOG00000002809
• Aliases: None
• Description: None

Sequence

>retro_ggor_1818
ACCCCTACTGCAACCCCCTTCACTGCCTTCACCACCTCCAAAGGCGGCTGACTCTTAGAGGTGGGCTTCGGCATGGCCAC
AAGAATATGGAAGGTGCAGGAGGTCGCCATCCAGGAACACTGGATCATGGAGTGCAATGACAGCATCTTCCAGCTGCTCC
AGGACTGGACCCAGCAGCAGCCACACAAGGTCATCCCCTTGAAAGTCCTGTGGAAGGAGGTGGCGCTCACCCTGCCAGGT
GGTCGCTTTGATGGGATCCTGCATGACGCGTACCCACTGTAGAAGGAGACCTGGCACACACTAGCTCAACTTCATCAAGA
ACCACACTTTTCACCTGCTGAAGCTGAAGGGGGTGTTGCCCTCACCTACTGCTACCTCACCTCCTACAGGCAGCTGATGA
AGTCCAAGTACTCAGATGTCACC

Alignment

ORF - retro_ggor_1818 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 58.87 %
• Parental protein coverage: 52.04 %
• Number of stop codons detected: 2
• Number of frameshifts detected: 0

Retrocopy - Parental Gene Alignment:

Parental  TPYMHALAAAASSKGGRVLEVGFGMAIAASKVQEAPIDEHWIIECNDGVFQRLQDWAPRQTHKVVPLKGL
          TP......A...SKGG..LEVGFGMA....KVQE..I.EHWI.ECND..FQ.LQDW...Q.HKV.PLK.L
Retrocopy TPTATPFTAFTTSKGG*LLEVGFGMATRIWKVQEVAIQEHWIMECNDSIFQLLQDWTQQQPHKVIPLKVL

Parental  WEDVAPTLPDGHFDGILYDTYPLSEETWHTHQFNFIKNHAFRLLKPGGV-LTYCNLTSWGELMKSKYSDI
          W..VA.TLP.G.FDGIL.D.YPL..ETWHT........H.......GGV.LTYC.LTS...LMKSKYSD.
Retrocopy WKEVALTLPGGRFDGILHDAYPL*KETWHTLAQLHQEPHFSPAEAEGGVALTYCYLTSYRQLMKSKYSDV

Parental  T
          T
Retrocopy T

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	0.96 RPM	19.66 RPM
SRP007412_cerebellum	0.67 RPM	21.24 RPM
SRP007412_heart	0.00 RPM	29.27 RPM
SRP007412_kidney	0.08 RPM	49.31 RPM
SRP007412_liver	0.13 RPM	135.08 RPM
SRP007412_testis	0.10 RPM	20.93 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_1818 was not experimentally validated.

Homology

Retrocopy orthology:

Retrocopy retro_ggor_1818 has 0 orthologous retrocopies within eutheria group .

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Parental genes homology:

Parental genes homology involve 5 parental genes, and 8 retrocopies.

Species	Parental gene accession	Retrocopies number
Homo sapiens	ENSG00000130005	1 retrocopy	retro_hsap_1251,
Gorilla gorilla	ENSGGOG00000002809	2 retrocopies	retro_ggor_1818 , retro_ggor_982,
Macropus eugenii	ENSMEUG00000005126	2 retrocopies	retro_meug_1833, retro_meug_302,
Pongo abelii	ENSPPYG00000009315	2 retrocopies	retro_pabe_1043, retro_pabe_2162,
Tursiops truncatus	ENSTTRG00000011817	1 retrocopy	retro_ttru_195,