RetrogeneDB ID: retro_ggor_1191

Retrocopy location

• Organism: Gorilla (Gorilla gorilla)
• Coordinates: 15:28227529..28229089(-)
• Located in intron of: None

Retrocopy information

• Ensembl ID: ENSGGOG00000022889
• Aliases: None
• Status: KNOWN_PSEUDOGENE

Parental gene information

• Parental gene symbol: SPPL2A
• Ensembl ID: ENSGGOG00000013154
• Aliases: None
• Description: None

Sequence

>retro_ggor_1191
ATGGGGCCGCAGCGGCGGCTGTCCCCTGCCACGGCCGCCCTGCTCTGGGGCTTCCTGCTCCAGCTGACAGCCGCTCAGGA
AGCAATCTTGCATGCGTCTGGAAAGGGCACATCCAAGGACTACTGCATGCTTTATAACCCCCATTGGTCAGCTCTTCCAA
GTACCCTGGAAAATGCAACTTCCATTAGTTTGATGAATCTGACTTCCGCACCACTGTGCAACCTTTCTGATGTTCCTCCT
GTTGACATAAAGAACAAAGCAGTTGTGGTGCAATGGGGAAGCTGCCATTTTCTTGAAAACGCCAGAATTGCACAGAAAAG
AGGTGCTGAAGCCATGTTGGTTGTCAATAACAGTATCCTATTTCCTACCTCAGGTAACAGATCTGAATTTCCTGATGTGA
AAATACTGATTGCATTTATAAGTGACAAAGACTTTATAGATATGAAGCAGACTCTAGGAAATAACATTACTGTGAAAATG
TATTCTCCATCGTGGCCTAACTTTGATTATACTATGGTGGTTATTTTTGTAATTGCTGTGTTCACTGTGGCATTAGGTGG
ATACTGGAGTGGACTAGTTGAATTGGAAAACTTGAAAGCAGTGACAACTGAAGATAGATAAATGAGGGAAAAAAAGGAAG
AATATCTAACTTTTAGTCCTCTTACAGTTGTAATATTTGTGGTCATCTACTGTGTTATGATGGTCTTACTTTATTTCTTC
CACAAATGGTTAGTTTATGTTATGATAGCAATTTTCTGCATAGTATCAGCAATGAGTCTGTACAACTCTCTTGCTGCACT
AATTCATAAGATACCATATGGACAATGCACAATTGAGTGTCGCGGCAAAAGCATGGAAGTGAGACTTATTTTTCTCTCTG
GACTGTGTATAGCAATAGCTATTGTTTGGGTTGTGTTTTGAAATGAAGACAGGTGGGCTTGGATTTTACAAGATATTTTG
GAGATTGCTTTCTGTCTGAATTTAATTAAAACACTGAAGTTGCCCAGCTTCAAGTCATGTGTGAGACTTCTAGGCCTTCT
CCTCCTCTATGATGTATTTTTTGTTTTCATAACACCATTCATCACAAAGAATGGTGAGAGTATCATGGTTGAACTTGCAG
CTGGACCTTTTGAAAATACTGAAACATTGCCAGTAGTCATCAGAGTACCAAAGCTGATCTGTTTCTCAGTAATGAGTGTG
TGCATCATGCCTGTTTCAATATTGGGCTTTGGAGACATTATTGTACAGGCTTGTTGCTTGCGTACTGTAGAAGAGTTGAT
GTTTAGACTGGTTCTTCCTATATATACTATGTTTCCTCTACAGTTGCCTGTGCTATTGGCATGATACTTACATTTGTTGT
TCTGGTGCTGATGAAAAAGGGGCAACCTGCTCTCCTCTATTTAGTACCTTGCACACTTATTATTGCCTCAGTTTGTTGCC
TGGAAATGTAAGGAAATGAAAAAGTTCTGGAAAGGTAACAGCTATCAGATGATGGACCATCTGTATTATGCAAAAAATGA
AGAAAACCCTGTGATGTCTGGTGAACAGATTGTCCAGCAA

Alignment

ORF - retro_ggor_1191 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 90.04 %
• Parental protein coverage: 100.0 %
• Number of stop codons detected: 3
• Number of frameshifts detected: 2

Retrocopy - Parental Gene Alignment:

Parental  MGPQRRLSPAGAALLWGFLLPLTAAQEAILHASGNGTTKDYCMLYNPYWTALPSTLENATSISLMNLTST
          MGPQRRLSPA.AALLWGFLL.LTAAQEAILHASG.GT.KDYCMLYNP.W.ALPSTLENATSISLMNLTS.
Retrocopy MGPQRRLSPATAALLWGFLLQLTAAQEAILHASGKGTSKDYCMLYNPHWSALPSTLENATSISLMNLTSA

Parental  PLCNLSDIPPVGIKSKAVVVPWGSCHFLEKARIAQKGGAEAMLVVNNSVLFPPSGNRSEFPDVKILIAFI
          PLCNLSD.PPV.IK.KAVVV.WGSCHFLE.ARIAQK.GAEAMLVVNNS.LFP.SGNRSEFPDVKILIAFI
Retrocopy PLCNLSDVPPVDIKNKAVVVQWGSCHFLENARIAQKRGAEAMLVVNNSILFPTSGNRSEFPDVKILIAFI

Parental  SYKDFRDMNQTLGDNITVKMYSPSWPNFDYTMVVIFVIAVFTVALGGYWSGLVELENLKAVTTEDREMRK
          S.KDF.DM.QTLG.NITVKMYSPSWPNFDYTMVVIFVIAVFTVALGGYWSGLVELENLKAVTTEDR.MR.
Retrocopy SDKDFIDMKQTLGNNITVKMYSPSWPNFDYTMVVIFVIAVFTVALGGYWSGLVELENLKAVTTEDR*MRE

Parental  KKEEYLTFSPLTVVIFVVICCVMMVLLYFFYKWLVYVMIAIFCIASAMSLYNCLAALIHKIPYGQCTIAC
          KKEEYLTFSPLTVVIFVVI.CVMMVLLYFF.KWLVYVMIAIFCI.SAMSLYN.LAALIHKIPYGQCTI.C
Retrocopy KKEEYLTFSPLTVVIFVVIYCVMMVLLYFFHKWLVYVMIAIFCIVSAMSLYNSLAALIHKIPYGQCTIEC

Parental  RGKNMEVRLIFLSGLCIAVAVVWAVFRNEDRWAWILQDILGIAFCLNLIKTLKLPNFKSCVILLGLLLLY
          RGK.MEVRLIFLSGLCIA.A.VW.VF.NEDRWAWILQDIL.IAFCLNLIKTLKLP.FKSCV.LLGLLLLY
Retrocopy RGKSMEVRLIFLSGLCIAIAIVWVVF*NEDRWAWILQDILEIAFCLNLIKTLKLPSFKSCVRLLGLLLLY

Parental  DVFFVFITPFITKNGESIMVELAAGPFGNNEKLPVVIRVPKLIYFSVMSVCLMPVSILGFGDIIV-PGLL
          DVFFVFITPFITKNGESIMVELAAGPF.N.E.LPVVIRVPKLI.FSVMSVC.MPVSILGFGDIIV..GLL
Retrocopy DVFFVFITPFITKNGESIMVELAAGPFENTETLPVVIRVPKLICFSVMSVCIMPVSILGFGDIIV<TGLL

Parental  IAYCRRFDVQTGSSYIYYVSSTVAYAIGMILTFVVLVLMKKGQPALLYLVPCTLITASV-VAWRRKEMKK
          .AYCRR.DV.TGSSYIYYVSSTVA.AIGMILTFVVLVLMKKGQPALLYLVPCTLI.ASV.VAW..KEMKK
Retrocopy LAYCRRVDV*TGSSYIYYVSSTVACAIGMILTFVVLVLMKKGQPALLYLVPCTLIIASV>VAWKCKEMKK

Parental  FWKGNSYQMMDHLDYATNEENPVISGEQIVQQ
          FWKGNSYQMMDHL.YA.NEENPV.SGEQIVQQ
Retrocopy FWKGNSYQMMDHLYYAKNEENPVMSGEQIVQQ

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	3.50 RPM
SRP007412_cerebellum	0.04 RPM	3.59 RPM
SRP007412_heart	0.00 RPM	2.94 RPM
SRP007412_kidney	0.04 RPM	23.02 RPM
SRP007412_liver	0.00 RPM	19.07 RPM
SRP007412_testis	0.10 RPM	10.46 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_1191 was not experimentally validated.

Homology

Retrocopy orthology:

Retrocopy retro_ggor_1191 has 3 orthologous retrocopies within eutheria group .

Species	RetrogeneDB ID
Homo sapiens	retro_hsap_1566
Pan troglodytes	retro_ptro_1054
Pongo abelii	retro_pabe_1293

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Parental genes homology:

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

Species	Parental gene accession	Retrocopies number
Dipodomys ordii	ENSDORG00000008946	1 retrocopy	retro_dord_754,
Homo sapiens	ENSG00000138600	1 retrocopy	retro_hsap_1566,
Gorilla gorilla	ENSGGOG00000013154	1 retrocopy	retro_ggor_1191 ,
Gorilla gorilla	ENSGGOG00000016245	1 retrocopy	retro_ggor_1392,
Pongo abelii	ENSPPYG00000006472	1 retrocopy	retro_pabe_1293,
Pan troglodytes	ENSPTRG00000007070	1 retrocopy	retro_ptro_1054,
Rattus norvegicus	ENSRNOG00000011652	1 retrocopy	retro_rnor_1750,