RetrogeneDB ID: retro_ggor_387

Retrocopy location

• Organism: Gorilla (Gorilla gorilla)
• Coordinates: 1:49959043..49959872(-)
• Located in intron of: ENSGGOG00000001284

Retrocopy information

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

Parental gene information

• Parental gene symbol: PPP1R8
• Ensembl ID: ENSGGOG00000012062
• Aliases: None
• Description: None

Sequence

>retro_ggor_387
ATCGTGGCAGTCACAAACTCTGGCTCCAGCCTCCTGCTGCTCCACTGCCCAACCTGGGCAGGTAAGCCCCCTCCTGGTTG
ACATCTGGATTTAGTTAAACGAGACAAACTAATTGAGAAACTGATTATTGGTGAAAAGAAGTATTACTTATTTGGGATAA
ACCTTGATTTGTGTGACTTTACCACTGAACACCAGTCTTGCTCTTGGATCCATACTGCACTTGTCTACCACAAGCATCTG
AGGAGAGTTTTCCTGATAGATCTCAACAGTACACACAGCACTTTCTTGGTCACATTCGGTTGGAACCTCACAAGCCTCAG
CAAATTCCGATTGATTCCAGGGTCTCATTTGACTCATCCACAGGGGCATACACTTTGCACGAGATACTTGGGCCATTGCC
ATTGGCTCTGAAAGGAGTTGAGAAGACGGGTGAAGAGGATGATTAACTCAGGGGCTTACTGGGGCTTCCAGAGGAGGAAA
CTAAGCTTGATAACCTGACATAGTTCAACACCGCCCACAACAAGTGGATTTCCACCTTTACCATTGAGGAGGGAAATCTA
ACATTCCAAGACCAAAGAGGAAGAGGAAGAACTCCCGGGTGACATTCAGTGAGGATGATGAGATCATCAACTCAGAGAAT
GTGGATCCCTCAGTTTGTCGATTCAGGAACATAGTGCAAACTGCAGTGATCCCAGTCAAGAAGAAGCTGGGGGAGGGCCC
TGGCTCCTTGGGCCTGGAGGAATCAGGGAGAAGGTGCATGCAGAACTTTGCCTTCAGGGGAGGACTCTACGGGGGCCTGT
CCCCTACACACAGTGAAGCAGGCTCCCAG

Alignment

ORF - retro_ggor_387 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 80.29 %
• Parental protein coverage: 78.92 %
• Number of stop codons detected: 3
• Number of frameshifts detected: 2

Retrocopy - Parental Gene Alignment:

Parental  MAAAANSGSSLPLFDCPTWAGKPPPGLHLDVVKGDKLIEKLIIDEKKYYLFGRNPDLCDFTIDHQSCSRV
          ..A..NSGSSL.L..CPTWAGKPPPG.HLD.VK.DKLIEKLII.EKKYYLFG.N.DLCDFT..HQSCS..
Retrocopy IVAVTNSGSSLLLLHCPTWAGKPPPG*HLDLVKRDKLIEKLIIGEKKYYLFGINLDLCDFTTEHQSCSWI

Parental  HAALVYHKHLKRVFLIDLNSTHGT-FLGHIRLEPHKPQQIPIDSTVSFGASTRAYTLREKPQTLPSAVKG
          H.ALVYHKHL.RVFLIDLNSTH.T.FLGHIRLEPHKPQQIPIDS.VSF..ST.AYTL.E....LP.A.KG
Retrocopy HTALVYHKHLRRVFLIDLNSTHST<FLGHIRLEPHKPQQIPIDSRVSFDSSTGAYTLHEILGPLPLALKG

Parental  DEKMGGEDDELKGLLGLPEEETELDNLTEFNTAHNKRISTLTIEEGNL-DIQRPKRKRKNSRVTFSEDDE
          .EK.G.EDD.L.GLLGLPEEET.LDNLT.FNTAHNK.IST.TIEEGNL..I.RPKRKRKNSRVTFSEDDE
Retrocopy VEKTGEEDD*LRGLLGLPEEETKLDNLT*FNTAHNKWISTFTIEEGNL<NIPRPKRKRKNSRVTFSEDDE

Parental  IINPEDVDPSVGRFRNMVQTAVVPVKKKRVEGPGSLGLEESGSRRMQNFAFSGGLYGGLPPTHSEAGSQ
          IIN.E.VDPSV.RFRN.VQTAV.PVKKK..EGPGSLGLEESG.R.MQNFAF.GGLYGGL.PTHSEAGSQ
Retrocopy IINSENVDPSVCRFRNIVQTAVIPVKKKLGEGPGSLGLEESGRRCMQNFAFRGGLYGGLSPTHSEAGSQ

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	1.01 RPM	16.45 RPM
SRP007412_cerebellum	0.47 RPM	15.88 RPM
SRP007412_heart	0.13 RPM	4.50 RPM
SRP007412_kidney	0.78 RPM	10.92 RPM
SRP007412_liver	0.08 RPM	7.33 RPM
SRP007412_testis	6.53 RPM	36.67 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_387 was not experimentally validated.

Homology

Retrocopy orthology:

Retrocopy retro_ggor_387 has 0 orthologous retrocopies within eutheria group .

---

Parental genes homology:

Parental genes homology involve 7 parental genes, and 8 retrocopies.

Species	Parental gene accession	Retrocopies number
Canis familiaris	ENSCAFG00000012023	1 retrocopy	retro_cfam_334,
Homo sapiens	ENSG00000117751	1 retrocopy	retro_hsap_380,
Gorilla gorilla	ENSGGOG00000012062	1 retrocopy	retro_ggor_387 ,
Loxodonta africana	ENSLAFG00000017834	1 retrocopy	retro_lafr_1173,
Macaca mulatta	ENSMMUG00000006933	1 retrocopy	retro_mmul_491,
Pan troglodytes	ENSPTRG00000000417	1 retrocopy	retro_ptro_296,
Ictidomys tridecemlineatus	ENSSTOG00000004381	2 retrocopies	retro_itri_1611, retro_itri_1704,