RetrogeneDB ID: retro_ggor_887

Retrocopy location

• Organism: Gorilla (Gorilla gorilla)
• Coordinates: 12:84625817..84626375(-)
• Located in intron of: None

Retrocopy information

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

Parental gene information

• Parental gene symbol: TM2D3
• Ensembl ID: ENSGGOG00000011598
• Aliases: None
• Description: None

Sequence

>retro_ggor_887
GCAGTGAAAGTACCGAAATTCCACCTTTTATGATCAAGCAATGGTTTGTGTAGCAGGTATTCTGCAGAATTTATAGACCG
CACAACAAATGTCCTCTGTGTCTATGGGAAGCTAGTCACTTTTGACTGTACAGTGAAACCTTCTGTTGCCTGTGTTGATT
AGGAGTTAAAATCCCAAAGTAACTTTCTCATCAACATGACTTGATTTTGCTGGAAGCCTCCAGAAACAGAATATGAATGT
TTCAATTCTACCAGCTGCATGAGGTCCTGTCCTCAACGGCATTATGCTGCCAAATACATGATAAACACATTCATGACTTG
GGTAACTACTTTTTTCAAAATGCTGCACTGAAATTGGGCTGGAGGCTATAAGTGGTCTATTGCTCTGGCTCTAAGCATCA
CCCTTGGTGGCTTTGGAGCAGACCATTTCCACCTCAACCAGTGGCAAGAAGGCCTTGGCAAGCTCTTCAGCTTCAGTGGC
CTGGAAATATGGACACTAATAGACATCTTGCTAATTGGAGTTGGCTACATTGGACCAGCAGATGGCTCTTGATACATT

Alignment

ORF - retro_ggor_887 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 64.74 %
• Parental protein coverage: 87.56 %
• Number of stop codons detected: 5
• Number of frameshifts detected: 0

Retrocopy - Parental Gene Alignment:

Parental  STEIPPYVMKCPSNGLCSRLPADCIDCTTNFSCIYGKPVTFDCAVKPSVTCVDQDFKSQKNFIINMTCRF
          ....P.......SNGLCSR..A..ID.TTN..C.YGK.VTFDC.VKPSV.CVD...KSQ.NF.INMT..F
Retrocopy AVKVPKFHLL*SSNGLCSRYSAEFIDRTTNVLCVYGKLVTFDCTVKPSVACVD*ELKSQSNFLINMT*-F

Parental  CWQLPETDYECTNSTSCMTVSCPRQRYPANCTVRDHIHCLGNRTFPKMLYCNWTGGYKWSTALALSITLG
          CW..PET.YEC.NSTSCM..SCP...Y.A..............TF.KML..NW.GGYKWS.ALALSITLG
Retrocopy CWKPPETEYECFNSTSCMR-SCPQRHYAAKYMINTFMTWV--TTFFKMLH*NWAGGYKWSIALALSITLG

Parental  GFGADRFYLGQWREGLGKLFSFGGLGIWTLIDVLLIGVGYVGPADGSLYI
          GFGAD.F.L.QW.EGLGKLFSF.GL.IWTLID.LLIGVGY.GPADGS.YI
Retrocopy GFGADHFHLNQWQEGLGKLFSFSGLEIWTLIDILLIGVGYIGPADGS*YI

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	49.10 RPM
SRP007412_cerebellum	0.00 RPM	25.81 RPM
SRP007412_heart	0.00 RPM	7.13 RPM
SRP007412_kidney	0.00 RPM	16.36 RPM
SRP007412_liver	0.00 RPM	21.02 RPM
SRP007412_testis	0.10 RPM	16.06 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_887 was not experimentally validated.

Homology

Retrocopy orthology:

Retrocopy retro_ggor_887 has 3 orthologous retrocopies within eutheria group .

Species	RetrogeneDB ID
Homo sapiens	retro_hsap_1138
Pan troglodytes	retro_ptro_775
Macaca mulatta	retro_mmul_884

---

Parental genes homology:

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

Species	Parental gene accession	Retrocopies number
Callithrix jacchus	ENSCJAG00000017340	1 retrocopy	retro_cjac_3233,
Homo sapiens	ENSG00000184277	1 retrocopy	retro_hsap_1138,
Gorilla gorilla	ENSGGOG00000011598	1 retrocopy	retro_ggor_887 ,
Macaca mulatta	ENSMMUG00000000277	1 retrocopy	retro_mmul_884,
Mustela putorius furo	ENSMPUG00000010985	1 retrocopy	retro_mputfur_313,
Nomascus leucogenys	ENSNLEG00000000529	1 retrocopy	retro_nleu_937,
Pan troglodytes	ENSPTRG00000007515	1 retrocopy	retro_ptro_775,
Tarsius syrichta	ENSTSYG00000004536	1 retrocopy	retro_tsyr_1116,