RetrogeneDB ID: retro_ggor_982

Retrocopy location

• Organism: Gorilla (Gorilla gorilla)
• Coordinates: 13:16451877..16452341(-)
• Located in intron of: None

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_982
TGGGGGGCCCATTACATGCATACGCTCGTGGCTGCCACCACTTTTAAAGGGGGCTGGGTCCTGGAGGTGGGCTTGAGTGT
GGCCATTGCAGCCTTATGGTGTGGGAGGCCTCCATCAATGAACACTGGATCATCAAGTGCAGTGATGGTGACTTCCAGCA
ACTCCAGGGCTCAGCCAAGCAGCAGCCATGCAAGGTTGTCCCCTTGAAAGGCCTGTGGGAGAGAGTGGTGCCCCCTTGCT
GGATGTTCACTTTGATGGGATCCTGTAGGACACATGCCCGCTTTCGGAAGAGACCTGGCACATACGCCAGTTCAACTTCA
CTAAGAACCACACCTTTCACCTGCTGAAGCTGGGTGATGTCTCTTCACCTACTGCAATCTCACCTCCTGGGGGAACTGAT
GAAGTCCAAGCATCTTGGACATCACCACCGTGTTTGAGAGACACAGATTCCTATGCTGGTGGAA

Alignment

ORF - retro_ggor_982 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 61.25 %
• Parental protein coverage: 65.68 %
• Number of stop codons detected: 1
• Number of frameshifts detected: 5

Retrocopy - Parental Gene Alignment:

Parental  WETPYMHALAAAASSKGGRVLEVGFGMAIAAS-KVQEAPIDEHWIIECNDGVFQRLQDWAPRQTHKVVPL
          W...YMH.L.AA...KGG.VLEVG...AIAA...V.EA.I.EHWII.C.DG.FQ.LQ..A..Q..KVVPL
Retrocopy WGAHYMHTLVAATTFKGGWVLEVGLSVAIAAL<MVWEASINEHWIIKCSDGDFQQLQGSAKQQPCKVVPL

Parental  KGLWEDVAPT-LPDGHFDGILYDTYPLSEETWHTHQFNFIKNHAFRLLKPGGVLTYCNLTSWG-ELMKSK
          KGLWE.V.P..L.D.HFDGIL.DT.PLSEETWH..QFNF.KNH.F.LLK.G.V.........G.ELMKSK
Retrocopy KGLWERVVPP<LLDVHFDGIL*DTCPLSEETWHIRQFNFTKNHTFHLLKLGDVSSPTAISPPG>ELMKSK

Parental  Y-SDITIMFE-ETQVPALLE
          ...DIT..FE.ETQ.P.L.E
Retrocopy H>LDITTVFE<ETQIPMLVE

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	19.66 RPM
SRP007412_cerebellum	0.00 RPM	21.24 RPM
SRP007412_heart	0.00 RPM	29.27 RPM
SRP007412_kidney	0.00 RPM	49.31 RPM
SRP007412_liver	0.00 RPM	135.08 RPM
SRP007412_testis	0.00 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_982 was not experimentally validated.

Homology

Retrocopy orthology:

Retrocopy retro_ggor_982 has 2 orthologous retrocopies within eutheria group .

Species	RetrogeneDB ID
Homo sapiens	retro_hsap_1251
Pongo abelii	retro_pabe_1043

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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,