RetrogeneDB ID: retro_ggor_679

Retrocopy location

• Organism: Gorilla (Gorilla gorilla)
• Coordinates: 11:121113158..121114181(+)
• Located in intron of: None

Retrocopy information

• Ensembl ID: ENSGGOG00000025359
• Aliases: None
• Status: KNOWN_PSEUDOGENE

Parental gene information

• Parental gene symbol: SAE1
• Ensembl ID: ENSGGOG00000013078
• Aliases: None
• Description: None

Sequence

>retro_ggor_679
ATGGTGGAGAAGGAGGAGGCCGGAGGCGGCATCAGCCAGGAGGAGGCAGGCACAGTATGACCAGCAGATCTGCCTGCGGG
GACTGGAGGCCCCGAAATGGCTGCGGGCCTCCCAGGTGCTTCTTGTCAGCATGAAAGGACTCGGGGCTGAAATTGCCAAG
AATCTCATCCTGGCAGGAGTGAAAGGACTGACCATGCTGGATCACGAACAGATATCTCCAGAAGAACCCGGAGCTCAGTT
CTTGATTCATATTGGGTCTGTTGGCCGAAATAGGGCTGAAGCCTCTTTGGAGCGAGCTCAGAATCTTAACCCCATGGTGG
ATGTGAAGTTGGACACTGAGGATATAGAGAAGAAACCAGAGTCATTTTTCACTCAATTTGATGCTGTGTGTTGACTTGCT
GCTCCAGGGCTGTCATAGTTAAGGTTGACCAGATCTGTCACAAAAATAGCATCAAGTTCTTTGCAGGAGATGTTTTTAGC
TACCATGGATACACATTTGCCAATCTAGGAGAGCATGAGTTTGTAGAGGAGAAAACTAAAGTTGCTAAAGTTAGCCGAGG
AGTAGAAGATGAGCCTGATACCAAGAGAGTAAAACCTGATTCTTCTGAGACAACGATGGTCAAGAAGAAGGTGGTCTTCT
GCCCCGTTAAAGAAGGGCTGGACGTGGACTGGAGCAGTGAGAAAGCAAAGGCTGCTCTGAAGCGCACGACCTCCGACCAC
TTTCTCCTTCAAGTGCTCCTGAAGTTCCGCACAGATAAAGGAAGAGATCCCAGTTCCGATACACATGGGGAAGATTCCGA
GTTGTTGCTCCAGATACGAAACGATGTGCTTGACTCGCTGGGTATTATTCCTGACCCACGCTTTATCACGGACTTCTTCT
CCGAGATGGCCCCAGTGTGTGCGGTGGTTGGAGGGATTTTGGCACAGGAAATTGTGAAGGCCCTGTCTCAGCAGGACCCT
CCTCACAACTTCTTCTTCAATGGCATGAAGGGGAATGGGATTGTGGAGTGGCTTGGCCCCAAG

Alignment

ORF - retro_ggor_679 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 87.36 %
• Parental protein coverage: 100. %
• Number of stop codons detected: 0
• Number of frameshifts detected: 2

Retrocopy - Parental Gene Alignment:

Parental  MVEKEEAGGGISEEEA-AQYDRQIRLWGLEAQKRLRASRVLLVGLKGLGAEIAKNLILAGVKGLTMLDHE
          MVEKEEAGGGIS.EEA.AQYD.QI.L.GLEA.K.LRAS.VLLV..KGLGAEIAKNLILAGVKGLTMLDHE
Retrocopy MVEKEEAGGGISQEEA>AQYDQQICLRGLEAPKWLRASQVLLVSMKGLGAEIAKNLILAGVKGLTMLDHE

Parental  QVTPEDPGAQFLIRTGSVGRNRAEASLERAQNLNPMVDVKVDTEDIEKKPESFFTQFDAVC-LTCCSRDV
          Q..PE.PGAQFLI..GSVGRNRAEASLERAQNLNPMVDVK.DTEDIEKKPESFFTQFDAVC.LTCCSR.V
Retrocopy QISPEEPGAQFLIHIGSVGRNRAEASLERAQNLNPMVDVKLDTEDIEKKPESFFTQFDAVC<LTCCSRAV

Parental  IVKVDQICHKNSIKFFTGDVFGYHGYTFANLGEHEFVEEKTKVAKVSQGVEDGPDTKRAKLDSSETTMVK
          IVKVDQICHKNSIKFF.GDVF.YHGYTFANLGEHEFVEEKTKVAKVS.GVED.PDTKR.K.DSSETTMVK
Retrocopy IVKVDQICHKNSIKFFAGDVFSYHGYTFANLGEHEFVEEKTKVAKVSRGVEDEPDTKRVKPDSSETTMVK

Parental  KKVVFCPVKEALEVDWSSEKAKAALKRTTSDYFLLQVLLKFRTDKGRDPSSDTYEEDSELLLQIRNDVLD
          KKVVFCPVKE.L.VDWSSEKAKAALKRTTSD.FLLQVLLKFRTDKGRDPSSDT..EDSELLLQIRNDVLD
Retrocopy KKVVFCPVKEGLDVDWSSEKAKAALKRTTSDHFLLQVLLKFRTDKGRDPSSDTHGEDSELLLQIRNDVLD

Parental  SLGISPDLLPEDFVRYCFSEMAPVCAVVGGILAQEIVKALSQRDPPHNNFFFFDGMKGNGIVECLGPK
          SLGI.PD.....F....FSEMAPVCAVVGGILAQEIVKALSQ.DPPHN..FFF.GMKGNGIVE.LGPK
Retrocopy SLGIIPD---PRFITDFFSEMAPVCAVVGGILAQEIVKALSQQDPPHN--FFFNGMKGNGIVEWLGPK

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	0.10 RPM	145.97 RPM
SRP007412_cerebellum	0.00 RPM	56.22 RPM
SRP007412_heart	0.00 RPM	28.14 RPM
SRP007412_kidney	0.04 RPM	44.45 RPM
SRP007412_liver	0.00 RPM	30.91 RPM
SRP007412_testis	0.41 RPM	187.83 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_679 was not experimentally validated.

Homology

Retrocopy orthology:

Retrocopy retro_ggor_679 has 4 orthologous retrocopies within eutheria group .

Species	RetrogeneDB ID
Homo sapiens	retro_hsap_829
Pan troglodytes	retro_ptro_579
Pongo abelii	retro_pabe_742
Macaca mulatta	retro_mmul_1087

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Parental genes homology:

Parental genes homology involve 9 parental genes, and 9 retrocopies.

Species	Parental gene accession	Retrocopies number
Canis familiaris	ENSCAFG00000004180	1 retrocopy	retro_cfam_1705,
Dipodomys ordii	ENSDORG00000012199	1 retrocopy	retro_dord_638,
Homo sapiens	ENSG00000142230	1 retrocopy	retro_hsap_829,
Gorilla gorilla	ENSGGOG00000013078	1 retrocopy	retro_ggor_679 ,
Macaca mulatta	ENSMMUG00000009506	1 retrocopy	retro_mmul_1087,
Nomascus leucogenys	ENSNLEG00000002965	1 retrocopy	retro_nleu_261,
Nomascus leucogenys	ENSNLEG00000002966	1 retrocopy	retro_nleu_262,
Pongo abelii	ENSPPYG00000010168	1 retrocopy	retro_pabe_742,
Pan troglodytes	ENSPTRG00000011202	1 retrocopy	retro_ptro_579,