RetrogeneDB ID: retro_ggor_3021

Retrocopy location

• Organism: Gorilla (Gorilla gorilla)
• Coordinates: X:61932580..61933272(-)
• Located in intron of: None

Retrocopy information

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

Parental gene information

• Parental gene symbol: GRPEL2
• Ensembl ID: ENSGGOG00000005410
• Aliases: None
• Description: GrpE protein homolog [Source:UniProtKB/TrEMBL;Acc:G3QRN6]

Sequence

>retro_ggor_3021
TCAGCCCAAGTCGGGAACATGGCCATGTGGTCAATGTGGGCGGGCTGCCAGCGGGTGTAGCACCTACTGGCTTAGAGTGC
CTCATGGGAGAGCAAGGGATGCCCACTTCCATTCAGCACTGCCATCCAGGGAACCGCTGGTGAGGACTGCCATTCCGAGG
ACCTTCCTGATGGCCTTGGGCCCTCTCTTGCTGAACAAGCCTTAAGGGTAAAAGCTGTTAAACTGGAGAAGGAAGTCCAG
GATTTAATGGTGAGATACCGGAGAGCTATAGCTGATTGTGAAAACATAAGGAGGTGAACCCGGAGATGTGTGGAAGATGC
CAAGATATTTGGAATCCAGAGTTTCTGTAAGGACTTGGTGGAGGTGGCTGACATTTTGGAGAAGACTACAGAGTGCATTT
CTGAAGAATCAGAGCCTGGGGACCAGAAGCTCACTCTGGAGAAGGTCTTCCAATGGTTGTCACTTTTAGAAGCAAAGCTG
AAAAGTGTGTTTGCCAAGCATGGCCTTGAGAAGCTGACACCCATTGGTGACAAATATGATTCCCATGAGCATGAATCCTC
TGTCATGTGCCAGCTGGTGTTGTGGTGCAGTCTGGCACCATGGCATTAATGAGACAAGATGGTTAAAAACTTCATGGCTG
CACCATTAGACTTGCCCAGGTAGAAGTGGAAGTGGAGTCTCAGAGAAGACTG

Alignment

ORF - retro_ggor_3021 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 82.76 %
• Parental protein coverage: 99.57 %
• Number of stop codons detected: 4
• Number of frameshifts detected: 1

Retrocopy - Parental Gene Alignment:

Parental  SAEIGNMAVRSLWAGRLRVQRLLAWSAAWESKGWPLPFSTATQRTAGEDCRSEDPPDELGPPLAERALRV
          SA..GNMA..S.WAG..RV..LLA.SA.WESKG.PLPFSTA.Q.TAGEDC.SED.PD.LGP.LAE.ALRV
Retrocopy SAQVGNMAMWSMWAGCQRV*HLLA*SASWESKGCPLPFSTAIQGTAGEDCHSEDLPDGLGPSLAEQALRV

Parental  KAVKLEKEVQDLTVRYQRAVADCENIRRQTQRCVEDAKIFGIQSFCKDLVEVADILEKTTECISEESEPE
          KAVKLEKEVQDL.VRY.RA.ADCENIRR.T.RCVEDAKIFGIQSFCKDLVEVADILEKTTECISEESEP.
Retrocopy KAVKLEKEVQDLMVRYRRAIADCENIRR*TRRCVEDAKIFGIQSFCKDLVEVADILEKTTECISEESEPG

Parental  DQKLTLEKVFRGLLLLEAKLKSVFAKHGLEKLTPIGDKYDPHEHE-LICHVPAGVGVQPGTVALVRQDGY
          DQKLTLEKVF..L.LLEAKLKSVFAKHGLEKLTPIGDKYD.HEHE...CHVPAGV.VQ.GT.AL.RQDG.
Retrocopy DQKLTLEKVFQWLSLLEAKLKSVFAKHGLEKLTPIGDKYDSHEHE<ILCHVPAGVVVQSGTMALMRQDG*

Parental  KLHGRTIRLARVEVAVESQRRL
          KLHG.TIRLA.VEV.VESQRRL
Retrocopy KLHGCTIRLAQVEVEVESQRRL

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	9.64 RPM
SRP007412_cerebellum	0.00 RPM	10.32 RPM
SRP007412_heart	0.00 RPM	2.69 RPM
SRP007412_kidney	0.00 RPM	6.22 RPM
SRP007412_liver	0.00 RPM	5.51 RPM
SRP007412_testis	0.10 RPM	11.29 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_3021 was not experimentally validated.

Homology

Retrocopy orthology:

Retrocopy retro_ggor_3021 has 3 orthologous retrocopies within eutheria group .

Species	RetrogeneDB ID
Homo sapiens	retro_hsap_4842
Pan troglodytes	retro_ptro_3226
Pongo abelii	retro_pabe_3764

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Parental genes homology:

Parental genes homology involve 12 parental genes, and 19 retrocopies.

Species	Parental gene accession	Retrocopies number
Choloepus hoffmanni	ENSCHOG00000004070	1 retrocopy	retro_chof_1984,
Dipodomys ordii	ENSDORG00000011142	1 retrocopy	retro_dord_353,
Felis catus	ENSFCAG00000003624	1 retrocopy	retro_fcat_618,
Homo sapiens	ENSG00000164284	2 retrocopies	retro_hsap_1284, retro_hsap_4842,
Gorilla gorilla	ENSGGOG00000005410	2 retrocopies	retro_ggor_1008, retro_ggor_3021 ,
Macaca mulatta	ENSMMUG00000021662	1 retrocopy	retro_mmul_1317,
Nomascus leucogenys	ENSNLEG00000010160	1 retrocopy	retro_nleu_710,
Oryctolagus cuniculus	ENSOCUG00000016138	3 retrocopies	retro_ocun_89, retro_ocun_905, retro_ocun_943,
Otolemur garnettii	ENSOGAG00000014326	1 retrocopy	retro_ogar_791,
Pongo abelii	ENSPPYG00000015933	2 retrocopies	retro_pabe_1063, retro_pabe_3764,
Pan troglodytes	ENSPTRG00000017396	2 retrocopies	retro_ptro_3226, retro_ptro_877,
Sorex araneus	ENSSARG00000005467	2 retrocopies	retro_sara_320, retro_sara_511,