RetrogeneDB ID: retro_ggor_3003

Retrocopy location

• Organism: Gorilla (Gorilla gorilla)
• Coordinates: X:47196191..47197775(-)
• Located in intron of: None

Retrocopy information

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

Parental gene information

• Parental gene symbol: CTNNBL1
• Ensembl ID: ENSGGOG00000000614
• Aliases: None
• Description: None

Sequence

>retro_ggor_3003
GACATGGGCAAACTTCTGAGCTACCAGCCCAACAGGGGCATAAAACGTCCCCGAGATGGCAAAGAGGAGGAGCAGAAGAT
GCATCGGAAACAAACTAGTACTCAAGATTGGGAAGAGGAAATGATTGTGGTGGAAGAAGCAGAGGATGACAAAAATTTGC
TGCTTCAGATTATTGACACAGAGGGTGAGGAGGAAGAGAAAGAGGAGGAGCCATTGGATGAAAGCTCAGTGAAGAAAATG
ATCCTTGCATTTGAATAGTGAGCATATAAAAACCAAGAATTGCAGATTAAGTTTCCAGACAATCCAGAGAAGTTCATGGA
ATCCCAACTGGACCTACATGACATCATTCAGAAGATGCACGTGGTGGCCACCATGCCAGACCTGTACCTTTTGCTGGAGC
TGAATGCTGTGCAGTCACTTCTTGGTTTGCTTGGACACAATAATACAGACGTGTCCATAGCTGGGGTTGATTTGAGTCAG
GAATTAACAGATATAGACATCTTCTATGAGAGTGGAGAGGGAGCAGAAGTACTCATTGATGCTCTGGTGGATGGGCAGGT
GATAGCGCTGCTGGTGCAGAACGTGGAGCGCCTGGATGAGTCTGTGAAGGAGCAGGTCAAGGGTGTCCATAACACTCTTG
TTATTGTGGAAAACATGGCTGAGTTCTAGCTGGAGATGTGTACAAAAGGTGCCCAGCAGGGTCTTCCTCAGTGGCTGTTG
AAGAGGCTGAAGGCAAAGAAGCCTTTTGATGCCAACAAACTGTATTGCAGTGAAATGCAGGCCATATTGCTCCAGGACAA
TGATGAAAGCAGGAAATTGCTTGGGGAGCTGGATAGAATTGATGCACTTCTTCAGCAGTTATCTGTGTTTAAAAGACACA
ATCCCAGCACAGCAAAGGAGCAGGAGATGATGGAGAATCTGTTTGATTCACTCTGCTTCTAACTAATGCTCACTTCCAAT
CGTGAGCACTTCCTGAAGGGCGAGGGTCTTCAGGTGATGAATCTCATGCTCAGGGAAAAGAAGATCTCACAGAGCAGGGT
CCTGAAAGTGCTGATTGCACCCGAGGGCATCTACAACTGCGGTAAATTTGTTGACATTCTTGGCATATGAACCATGTTTC
CCCTCTTTATGGAATTTCCCAGGAAGATCAAGAAAGTGGGTACCACTGACAAGGAACACAAACAGCATGTCTGTTCCATT
CTGGCTTCCCTTTTGTGGAACCTGAGAGGGCATCAGTGAACCCGGCTTCTGAATAAATTCACTGAAAATGACAGTGAGTA
GGCTGACAGACTAATGGAGTTGCATTTTCAATATCTGGGTGCAATGCAGGTGGCAGACAAGAGGAATGAAGGGGAAAAAC
ATGACATGGTCCAGGGTGGAGAGATCATAGACAGTGACATGGGGGATGAGTTCTACCTCCAGTGCTTGGATGCAGAGCTC
TTTGTTCTCCAGTGCATCTGCTGCATTATGTCCAAGATCTGCAATGCCAATGTCCCCCAGATTTGCCAGAGGGTTCACCA
GATCCTAAACATGTGAGGACGCTCCATCAAAATTGTCAGGCATATCATCAAGGGGTATGCGGAG

Alignment

ORF - retro_ggor_3003 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 80.26 %
• Parental protein coverage: 95.38 %
• Number of stop codons detected: 8
• Number of frameshifts detected: 0

Retrocopy - Parental Gene Alignment:

Parental  DVGELLSYQPNRGTKRPRDDEEEEQKMRRKQTGTRERGRYREEEMTVVEEADDDKKRLLQIIDRDGEEEE
          D.G.LLSYQPNRG.KRPRD..EEEQKM.RKQT.T.......EE.M.VVEEA.DDK..LLQIID..GEEEE
Retrocopy DMGKLLSYQPNRGIKRPRDGKEEEQKMHRKQTSTQD---WEEE-MIVVEEAEDDKNLLLQIIDTEGEEEE

Parental  EEEEPLDESSVKKMILTFEKRSYKNQELRIKFPDNPEKFMESELDLNDIIQEMHVVATMPDLYHLLVELN
          .EEEPLDESSVKKMIL.FE...YKNQEL.IKFPDNPEKFMES.LDL.DIIQ.MHVVATMPDLY.LL.ELN
Retrocopy KEEEPLDESSVKKMILAFE**AYKNQELQIKFPDNPEKFMESQLDLHDIIQKMHVVATMPDLY-LLLELN

Parental  AVQSLLGLLGHDNTDVSIAVVDLLQELTDIDTLHESEEGAEVLIDALVDGQVVALLVQNLERLDESVKEE
          AVQSLLGLLGH.NTDVSIA.VDL.QELTDID...ES.EGAEVLIDALVDGQV.ALLVQN.ERLDESVKE.
Retrocopy AVQSLLGLLGHNNTDVSIAGVDLSQELTDIDIFYESGEGAEVLIDALVDGQVIALLVQNVERLDESVKEQ

Parental  ADGVHNTLAIVENMAEFRPEMCTEGAQQGLLQWLLKRLKAKMPFDANKLYCSEVLAILLQDNDENRELLG
          ..GVHNTL.IVENMAEF..EMCT.GAQQGL.QWLLKRLKAK.PFDANKLYCSE..AILLQDNDE.R.LLG
Retrocopy VKGVHNTLVIVENMAEF*LEMCTKGAQQGLPQWLLKRLKAKKPFDANKLYCSEMQAILLQDNDESRKLLG

Parental  ELDGIDVLLQQLSVFKRHNPSTAEEQEMMENLFDSLCSCLMLSSNRERFLKGEGLQLMNLMLREKKISRS
          ELD.ID.LLQQLSVFKRHNPSTA.EQEMMENLFDSLC..LML.SNRE.FLKGEGLQ.MNLMLREKKIS.S
Retrocopy ELDRIDALLQQLSVFKRHNPSTAKEQEMMENLFDSLCF*LMLTSNREHFLKGEGLQVMNLMLREKKISQS

Parental  SALKVLDHAMIGPEGTDNCHKFVDILGLRTIFPLFMKSPRKIKKVGTTEKEHEEHVCSILASLLRNLRGQ
          ..LKVL....I.PEG..NC.KFVDILG..T.FPLFM..PRKIKKVGTT.KEH..HVCSILASLL.NLRG.
Retrocopy RVLKVL----IAPEGIYNCGKFVDILGI*TMFPLFMEFPRKIKKVGTTDKEHKQHVCSILASLLWNLRGH

Parental  QRTRLLNKFTENDSEKVDRLMELHFKYLGAMQVADKKIEGEKHDMVRRGEIIDNDTEEEFYLRRLDAGLF
          Q.TRLLNKFTENDSE..DRLMELHF.YLGAMQVADK..EGEKHDMV..GEIID.D...EFYL..LDA.LF
Retrocopy Q*TRLLNKFTENDSE*ADRLMELHFQYLGAMQVADKRNEGEKHDMVQGGEIIDSDMGDEFYLQCLDAELF

Parental  VLQHICYIMAEICNANVPQIRQRVHQILNMRGSSIKIVRHIIKEYAE
          VLQ.IC.IM..ICNANVPQI.QRVHQILNM.G.SIKIVRHIIK.YAE
Retrocopy VLQCICCIMSKICNANVPQICQRVHQILNM*GRSIKIVRHIIKGYAE

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	36.35 RPM
SRP007412_cerebellum	0.04 RPM	24.51 RPM
SRP007412_heart	0.00 RPM	13.45 RPM
SRP007412_kidney	0.00 RPM	27.35 RPM
SRP007412_liver	0.00 RPM	14.30 RPM
SRP007412_testis	0.10 RPM	65.68 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_3003 was not experimentally validated.

Homology

Retrocopy orthology:

Retrocopy retro_ggor_3003 has 4 orthologous retrocopies within eutheria group .

Species	RetrogeneDB ID
Homo sapiens	retro_hsap_4819
Pan troglodytes	retro_ptro_3208
Pongo abelii	retro_pabe_3747
Macaca mulatta	retro_mmul_2571

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Parental genes homology:

Parental genes homology involve 8 parental genes, and 8 retrocopies.

Species	Parental gene accession	Retrocopies number
Homo sapiens	ENSG00000132792	1 retrocopy	retro_hsap_4819,
Gorilla gorilla	ENSGGOG00000000614	1 retrocopy	retro_ggor_3003 ,
Macropus eugenii	ENSMEUG00000013001	1 retrocopy	retro_meug_910,
Myotis lucifugus	ENSMLUG00000015803	1 retrocopy	retro_mluc_177,
Macaca mulatta	ENSMMUG00000017224	1 retrocopy	retro_mmul_2571,
Nomascus leucogenys	ENSNLEG00000006291	1 retrocopy	retro_nleu_2194,
Pongo abelii	ENSPPYG00000010989	1 retrocopy	retro_pabe_3747,
Pan troglodytes	ENSPTRG00000023688	1 retrocopy	retro_ptro_3208,