RetrogeneDB ID: retro_ggor_789

Retrocopy location

• Organism: Gorilla (Gorilla gorilla)
• Coordinates: 12:38416455..38416986(+)
• Located in intron of: None

Retrocopy information

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

Parental gene information

• Parental gene symbol: METAP1
• Ensembl ID: ENSGGOG00000001520
• Aliases: None
• Description: Methionine aminopeptidase [Source:UniProtKB/TrEMBL;Acc:G3QGP2]

Sequence

>retro_ggor_789
AGACAGTCCTTGGAAGAAGGTGATGTTAATGTCGACATCACTCTTTATTGCATTGATTATCATGGGGACATGATTGAGAC
ATGTTTTATTGGCAGTGTGGATGAGGATGCACGGAAATTTGTTCAGACCACGTATGAGTGCCTCATGCAAGCTATCAATG
CAGTGAAACCTGATGTTTGATACAAAGAATTGGGAAACATATTTCAGAAGCCTGCCCAAGCAAATGAATTTTCAGTTGTT
TGAAGCTATTGCGAACATGGAGTCCACAAACTTTTTCATACAGCTTCCAATGCACTCCATTGTGCCTAAAATAAAGCAGT
TGGTGTGATACAGTCAAGCCATGTATTTACAGTTGAGCCAATGATTTGTGAAGGTGGATGGCAGGATGAATCCTAGCCAG
AAGGTTGGACTGCAGTGAGGAGACAGTGAAAGCCGTCCGCTCGGTTCCACTACTCCTTGCTGGTCACAGACACTGGCTGT
GAAATGCTAACCTGGCAACTTGATAGTGAATAGCCTCACTACATATCCCAA

Alignment

ORF - retro_ggor_789 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 70.22 %
• Parental protein coverage: 51.15 %
• Number of stop codons detected: 6
• Number of frameshifts detected: 0

Retrocopy - Parental Gene Alignment:

Parental  RRPLQEGDIVNVDITLYRNGYHGDLNETFFVGEVDDGARKLVQTTYECLMQAIDAVKPGVRYRELGNIIQ
          R..L.EGD.VNVDITLY...YHGD..ET.F.G.VD..ARK.VQTTYECLMQAI.AVKP.V.Y.ELGNI.Q
Retrocopy RQSLEEGD-VNVDITLYCIDYHGDMIETCFIGSVDEDARKFVQTTYECLMQAINAVKPDV*YKELGNIFQ

Parental  KHAQANGFSVVRSYCGHGIHKLFHTAPNVPHYAKNKAVGVMKSGHIFTIEPMICEGGWQDETWPDGWTAV
          K.AQAN.FSVV.SYC.HG.HKLFHTA.N..H.A.NKAVGV..S.H.FT.EPMICEGGWQDE..P.GWTAV
Retrocopy KPAQANEFSVV*SYCEHGVHKLFHTASNALHCA*NKAVGVIQSSHVFTVEPMICEGGWQDES*PEGWTAV

Parental  TRDGKRSAQFEHTLLVTDTGCEILTRRLDSARPHFMSQ
          .R..K.SA.F...LLVTDTGCE.LT..LDS..PH..SQ
Retrocopy RRQ*KPSARFHYSLLVTDTGCEMLTWQLDSE*PHYISQ

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	22.15 RPM
SRP007412_cerebellum	0.20 RPM	18.00 RPM
SRP007412_heart	0.00 RPM	8.47 RPM
SRP007412_kidney	0.00 RPM	30.46 RPM
SRP007412_liver	0.00 RPM	21.21 RPM
SRP007412_testis	0.00 RPM	53.46 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_789 was not experimentally validated.

Homology

Retrocopy orthology:

Retrocopy retro_ggor_789 has 0 orthologous retrocopies within eutheria group .

---

Parental genes homology:

Parental genes homology involve 4 parental genes, and 5 retrocopies.

Species	Parental gene accession	Retrocopies number
Gorilla gorilla	ENSGGOG00000001520	1 retrocopy	retro_ggor_789 ,
Otolemur garnettii	ENSOGAG00000015636	1 retrocopy	retro_ogar_288,
Tarsius syrichta	ENSTSYG00000004984	2 retrocopies	retro_tsyr_1836, retro_tsyr_480,
Tursiops truncatus	ENSTTRG00000002515	1 retrocopy	retro_ttru_1077,