RetrogeneDB ID: retro_ggor_411

Retrocopy location

• Organism: Gorilla (Gorilla gorilla)
• Coordinates: 1:91692791..91693451(-)
• Located in intron of: None

Retrocopy information

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

Parental gene information

• Parental gene symbol: C11ORF74
• Ensembl ID: ENSGGOG00000004773
• Aliases: None
• Description: None

Sequence

>retro_ggor_411
ATGTCTGCTCATACATCAGGATTGAAAATAATGCATGAAAATCAATTAATCAAAGAAATCTTGGATAAATTCCTTAATTG
TCATGAGCAAACATATGATGAAGAATTTCTGAACACTTTTACTCATCTTTCACAGGAGGATCTTGTGTCCAAAAGGGGAG
TGTTTGGAACTGATTCTTAGGAAAACATTTTTACCTAAGCAAAAGTTACTCATAAAAATGAAGCTAATGACTACCATCTT
AGAAATAAAACCATTTTTCTTCATACTTCATCACAATGTTTGGAAGAACAGGTAGACAATTTCCTAGATTTGGAAGATTT
GGACATGGATGAAGAGATTAAACCCCAAATAAGTGAGGATTTGCTGCTGCTCCCAGGAGAAGTGGAGTAGGATGTAAGCA
CCAGCATTCCTTCCTGTATCCTTCTGTGGCCCAGCCTCCCACCTGTGAAGCGAAGCCAAAGCCTACTGTAAAAAGAATGG
ACAAACAGATGGAAGAGATATGTGGAGATGAAGCTCAACCCCATCTCACTTGATGAGGAATTCGATTATGACAATGTGAC
GATAACCTCCAAGTTTAGTCCTGCAGAGACAGAGACCATCAAAGAGCTAGGCAAGCAGAAGAGAAAGGACACCAGCCCAG
ACTTACAGGAACCCTGTGAC

Alignment

ORF - retro_ggor_411 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 86.55 %
• Parental protein coverage: 100. %
• Number of stop codons detected: 3
• Number of frameshifts detected: 2

Retrocopy - Parental Gene Alignment:

Parental  MSAHMSGLEIMDEDQLIKDVLDKFLNCHEQTYDEEFLNTFTHLSQEDHVSKRGVFGTDSSENIFTSAKVT
          MSAH.SGL.IM.E.QLIK..LDKFLNCHEQTYDEEFLNTFTHLSQED.VSKRGVFGTDS.ENIFT.AKVT
Retrocopy MSAHTSGLKIMHENQLIKEILDKFLNCHEQTYDEEFLNTFTHLSQEDLVSKRGVFGTDS*ENIFT*AKVT

Parental  HKNEADDYHLRNKTIFLRTSSQCLEEQVDNFLDLEDLDMDEEIKPQMSEDLLLLPGEVEQDVSTSIPSCI
          HKNEA.DYHLRNKTIFL.TSSQCLEEQVDNFLDLEDLDMDEEIKPQ.SEDLLLLPGEVE.DVSTSIPSCI
Retrocopy HKNEANDYHLRNKTIFLHTSSQCLEEQVDNFLDLEDLDMDEEIKPQISEDLLLLPGEVE*DVSTSIPSCI

Parental  -PFVAQPPTCEVKPTPTVKRMDKQTEEILGDEVQ-PFSLDEEFDYDNVTLTSKFSPAEIENIKELCKQQK
          .P.VAQPPTCE.KP.PTVKRMDKQ.EEI.GDE.Q.P.SLDEEFDYDNVT.TSKFSPAE.E.IKEL.K.QK
Retrocopy <PSVAQPPTCEAKPKPTVKRMDKQMEEICGDEAQ>PISLDEEFDYDNVTITSKFSPAETETIKELGK-QK

Parental  RKDTSPDLEKSCD
          RKDTSPDL...CD
Retrocopy RKDTSPDLQEPCD

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	6.76 RPM
SRP007412_cerebellum	0.00 RPM	4.14 RPM
SRP007412_heart	0.00 RPM	2.72 RPM
SRP007412_kidney	0.00 RPM	10.18 RPM
SRP007412_liver	0.05 RPM	4.48 RPM
SRP007412_testis	0.00 RPM	23.52 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_411 was not experimentally validated.

Homology

Retrocopy orthology:

Retrocopy retro_ggor_411 has 3 orthologous retrocopies within eutheria group .

Species	RetrogeneDB ID
Homo sapiens	retro_hsap_418
Pan troglodytes	retro_ptro_320
Pongo abelii	retro_pabe_302

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Parental genes homology:

Parental genes homology involve 9 parental genes, and 12 retrocopies.

Species	Parental gene accession	Retrocopies number
Dipodomys ordii	ENSDORG00000010963	2 retrocopies	retro_dord_388, retro_dord_615,
Homo sapiens	ENSG00000166352	1 retrocopy	retro_hsap_418,
Gorilla gorilla	ENSGGOG00000004773	1 retrocopy	retro_ggor_411 ,
Macropus eugenii	ENSMEUG00000003065	1 retrocopy	retro_meug_328,
Microcebus murinus	ENSMICG00000008620	1 retrocopy	retro_mmur_383,
Monodelphis domestica	ENSMODG00000019838	1 retrocopy	retro_mdom_1594,
Pongo abelii	ENSPPYG00000003347	1 retrocopy	retro_pabe_302,
Pan troglodytes	ENSPTRG00000003514	2 retrocopies	retro_ptro_2924, retro_ptro_320,
Tupaia belangeri	ENSTBEG00000004277	2 retrocopies	retro_tbel_2155, retro_tbel_2277,