RetrogeneDB ID: retro_ggor_408

Retrocopy location

• Organism: Gorilla (Gorilla gorilla)
• Coordinates: 1:82346886..82347617(-)
• Located in intron of: None

Retrocopy information

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

Parental gene information

• Parental gene symbol: SERBP1
• Ensembl ID: ENSGGOG00000010396
• Aliases: None
• Description: None

Sequence

>retro_ggor_408
TCCAACATGGCAGGCAAACAGCTGTGTAAAGAGTCCCAGAAAGACCACAAGAAACCACTGCACGCCAGCATTGGCGTGGT
TGACAAGAAAGAGGAGACACAGGTGCTCACAGTGCTTAAGAAAGAAGGAATAAGATGAGTTGGTAGAAGACCTGATCAAC
AACTTCAGGTTGAAGGAAAAATAATTAATAGAAGACCAGAAAGACGATCACCTCTAGAACAAAGATTTGAAAAGCCACTT
GAAGAAAAGGGTGGAGGCAAATTTTCAGCGGATAGACTGATTAGTGACTGACCTATTCGAGGCCGTGGTGGTCTTAGAAG
AAGTTGAGGGGGCTGCAGACATGGAATGGGCTGAGGAGGTGGATTGGATTCCCATGGCAAATGTGAATTTTATAAGCATA
GTGGAAGTGATAGATCTGTCCTGAAGCACAAGGACAAACATGGAGGTAATAGACCTCACTACTGGGGAACTGTTAAAGAT
GAATTAACAGATTTGGATTGATCAAATGTGACTGAGGAAACATCTGTAGGTGAAGAACATCCAGTGGCAGACACTGAAAA
TAAGGAGAGTGAAGTTGAAGAGGTAAAGAAAGAGGGTCCTAAAGAGATGATTTTGGATGAGCGGAAGGCTATTGAAAATA
CGGAGTGGGCAAAGTGGAATTTAATATCTGAAAACCAAATGAAGCTGCTGAAGGGCAGTGGAAGATGAAATATGTTTTTC
ATAAATCAGAG

Alignment

ORF - retro_ggor_408 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 73.68 %
• Parental protein coverage: 61.19 %
• Number of stop codons detected: 6
• Number of frameshifts detected: 1

Retrocopy - Parental Gene Alignment:

Parental  SNAAGKQLRKESHKDRKNPLPPSVGVVDKKEETQPPVALKKEGIRRVGRRPDQQLQGEGKIIDRRPERRP
          SN.AGKQL.KES.KD.K.PL..S.GVVDKKEETQ....LKKEGIR.VGRRPDQQLQ.EGKII.RRPERR.
Retrocopy SNMAGKQLCKESQKDHKKPLHASIGVVDKKEETQVLTVLKKEGIR*VGRRPDQQLQVEGKIINRRPERRS

Parental  PRERRFEKPLEEKGEGGEFSVDRPIIDRPIRGRGGLGRGRGGRGRGMGRGDGFDSRGKREFDRHSGSDRS
          P.E.RFEKPLEEKG.GG.FS.DR.I.D.PIRGRGGL.R..GG...GMG.G.G.DS.GK.EF..HSGSDRS
Retrocopy PLEQRFEKPLEEKG-GGKFSADRLISD*PIRGRGGLRRS*GGCRHGMG*GGGLDSHGKCEFYKHSGSDRS

Parental  GLKHEDKRGGSGSHNWGTVKDELTDLDQSNVTEETPEGEEHHPVADTENKENEVEEVKEEGPKEMTLDEW
          .LKH.DK.GG...H.WGTVKDELTDLD.SNVTEET..GEE.HPVADTENKE.EVEEVK.EGPKEM.LDE.
Retrocopy VLKHKDKHGGNRPHYWGTVKDELTDLD*SNVTEETSVGEE-HPVADTENKESEVEEVKKEGPKEMILDER

Parental  KAIQNKDRA-KVEFNIRKPNEGADGQWKKGFVLHKSK
          KAI.N...A.KVEFNI.KPNE.A.GQWK...V.HKS.
Retrocopy KAIENTEWA<KVEFNI*KPNEAAEGQWKMKYVFHKSE

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	69.53 RPM
SRP007412_cerebellum	0.00 RPM	53.90 RPM
SRP007412_heart	0.00 RPM	40.31 RPM
SRP007412_kidney	0.00 RPM	102.10 RPM
SRP007412_liver	0.00 RPM	78.53 RPM
SRP007412_testis	0.00 RPM	211.65 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_408 was not experimentally validated.

Homology

Retrocopy orthology:

Retrocopy retro_ggor_408 has 1 orthologous retrocopies within eutheria group .

Species	RetrogeneDB ID
Homo sapiens	retro_hsap_413

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Parental genes homology:

Parental genes homology involve 11 parental genes, and 18 retrocopies.

Species	Parental gene accession	Retrocopies number
Canis familiaris	ENSCAFG00000018538	1 retrocopy	retro_cfam_546,
Callithrix jacchus	ENSCJAG00000017440	2 retrocopies	retro_cjac_1207, retro_cjac_3015,
Homo sapiens	ENSG00000142864	3 retrocopies	retro_hsap_3056, retro_hsap_413, retro_hsap_4695,
Gorilla gorilla	ENSGGOG00000010396	1 retrocopy	retro_ggor_408 ,
Myotis lucifugus	ENSMLUG00000001424	1 retrocopy	retro_mluc_691,
Oryctolagus cuniculus	ENSOCUG00000008946	1 retrocopy	retro_ocun_1041,
Otolemur garnettii	ENSOGAG00000025884	1 retrocopy	retro_ogar_185,
Pongo abelii	ENSPPYG00000001256	1 retrocopy	retro_pabe_3790,
Pan troglodytes	ENSPTRG00000023560	2 retrocopies	retro_ptro_1985, retro_ptro_317,
Sorex araneus	ENSSARG00000000803	1 retrocopy	retro_sara_135,
Tupaia belangeri	ENSTBEG00000003689	4 retrocopies	retro_tbel_1004, retro_tbel_1331, retro_tbel_2427, retro_tbel_532,