RetrogeneDB ID: retro_ggor_2058

Retrocopy location

• Organism: Gorilla (Gorilla gorilla)
• Coordinates: 4:121792452..121796011(+)
• Located in intron of: ENSGGOG00000006662

Retrocopy information

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

Parental gene information

• Parental gene symbol: ENSG00000026036
• Ensembl ID: ENSGGOG00000004784
• Aliases: None
• Description: None

Sequence

>retro_ggor_2058
ATGCCCAAGATAGTCCTGAATGGTGTGACCGTAGACTTCGCTTCCCAGCCCTACAAATGCCAACAGGAGTACATGACCAA
GGTCCTGGAATGTCTGCAGAAGAAGGTGAATGGTATCCTGGAGAGCCCCTCGGGCACAGGGAAGACGCTGTGCCTCCTGT
GCACCACCCTGGCCTGGCGAGAACACCTCCAAGACACCATCTTTGCCTGCAATTTTGCCGATAGGGTGCAAGGGGAGCTT
CTCTCAGATCAGGCCTTTGTCATTCTGGGGCAATGCTGCTGCTGATGATGGAGACCCCTTAGCTTGCTACACGGACATCC
CAAAGATCATTTACGCCTTTAGGACCCACTCGCAACTCACACAGGTCATCAACGAAATTCGGAACACCTCCTACCGGCCT
AAGGTGTGTGTGCTGGGCTCCCGGGAGCAGCTGTGTATCCACCCTGAGGTGAAGAAGCAGGAGAGTAACCACACGAAGAT
CCACTTGTGCCGCAAGAAGGTGGCAAGTCGCTCTGTCATTTCTACAACAATGTAGAAGAGAAAAGCCTGGAGCAGGAGCT
GGCCAGCCCCATCCTGGACATCGAGGACTTGGTCAAGAGGGGAAGCAAGCACGGAGTATGCCCTTATTACCTGTCCCGGA
ACCTGAAGCAGCAAGCCGACATCGTCTTCATCCCATACAGTTAGTTGTTGGATGCCAAGAGCCGCAGAGCACACAACATT
GACCTTAAGGGGACGGTCGTGATCTTTGATGAAACTCACAAGGTGGAAAAGATGTGTGAAGGATTGGCATCCTTTGACCT
GACCCCCCATGACCCGAGTTCGGGACTGGACGTCATAGACCAGGTGCTGGAGGAGCAGATCAAGGTGGCACAGCAGGGCC
AGCCCCACCCGGAGTTCAGCGCGGACCCCACCAGCTCAGGGCTGAACATGGAGCTGGAAGACATTGCAAAGCTGAAGATG
ATCCTGCTCTGCCTGGAAGGGGCCATTCATGCTGTTGAGCTGCCTGGAGATGACAGCGGTGTCACCAAGCCAGGGAGCTA
CATCTTTGAGCTGTTTGCTGAAGCCCAGATCATGTTTCAGACCAAGGGCTGCATCCTGGACTCACTGGAGCAGATCATCC
AGCATCTGGCAGGACGTGCTGGAGTGTTCGCCAACACAGCCGGACTGCAGAAGCTGGCAGATATTGTCCAGATTGTGTTC
AGTGTAGACCCCTCCGAGAGTGGCCCTGGTTCCCTGGCAGGGCTGGGGGCCTATAAAGTGCACATCCATCCTGATGCCAG
TCACCAGAGGGTGGTTCAGCCATCTGATGCCTGGAGCACCACTGCAGCAGAAAGCGAGGGAAGGTGCTGAGCTACTGGTG
GTTCAGTCCTGGCCACAGCATGCGCGAGCTGGTCTGTCAGGGCATCTGCTTTATCATCCTCACCAGTGGCACACTGGCCC
CGGGGTCCTCCTTTGCCCTGGAGTTGCAGATCCCTTTCCCAGTCTGCCTGGAGAACCCACACATCATCGACAAGCACCAG
ATCTGGGTGGGGATCATCCCCAGAGGCCCTGACGGAGCCCAGTTGAGCTCCGCGTTTGACAGACGGTTTTCCAAGGAGTG
CTCGTCCTCTTTGGGGAAGGCTCTGGGCAACATCGCCCGCATGGTGCCCTATGGGCTCCTGATCTTCTTCCCTTCATATC
CCATCATGGAAAAGAGCCTGGAGTTCTGGCAGGCCCACTACTTGGCTAGGAAGATGGAGGCGCTGAGGCCTTTGTTTGTG
GAGCCCAGGAGCAAAGGCAGCTTCTCTGAGACCATGGGTGCTTACTAAGCGAGGTTGCCTCCCCCGGGTCTACCGGCGCC
ACCTTCCTGGCGGTATGCCGGGGAAACACTAGCAAGGGGCTGGACTTCTCAGACACTAATGGCTGTAGTGTGATCATCAC
GGGCCTCCATAGCCCCCACGCATGGACCCCCTGGTTGTCCTCAAGATGCAGTTCCTGGACGAGATGAAGGGCCAGGTTGG
GGCTGGGGGCCAGTTCCTCTCTGGGCAGGCATCCAGGGCTGTGAACCAGGCCATCGGGCAAGTGATCCGGCACTGCCAGG
ACGACAGGGCTGTCTTCCTCTGTGACCACAGGGTCGCCTTAGCAGACGCCAGAGCCCAGCTGCCCTCCTGGGTGCGTCCC
CACGTCAGGGTGTACAACTTCGGCCATGTTGTCCAAGACGTAGCCCAGTTCTTCCATGTTGCTGAGCGAACTATGCCAGC
ACCAGCCCCCTGGGCTGTAGCACCCAGTTTGCGTGAGGCAGAAGATGCTGTCAGGGTGACTAAGTCAACTGGCCCCCTCC
TCTCCACCAGGAAAGCTAAGAGTCTCGACCTGCACGTCCTTAGCCTGAAGCAGAGGCCCTCAAGGTCACCAGCTGCTGGG
GACCCCGAGGGCAGCCTGTATATGGAGTATGAGCAGGAGCCAGACCCTGCCTGGCAGAGGCCCTGGGGACTGCTGGCCGC
CCTGGAGCACAGCGAACAGTGGGCTGGGGGGCCCCGGCGAGGAGCAGGGCCACAGGTGCTCCACCCTGTCTCTCCCATCT
AAGAGGCTGGCAGAGGAGCCGCGAGGAAGGAGGAAGAAGATCCAGCTGGTCAGCCACTCGGAGGAGCCCGTGGCTGGTGC
ACAGGTGAACAGGGCCAAGCTCTTCATGGTGGCCATGAAGTAGGAGCTGAGCCAAGCCAACTTTGCCACCTTCACCCAGG
CCCTGCAGGACCACAAGGGTTCCGATGACTTTGCTGCCCTGGCGACCTGTCTTGGCCTCCTCTTTGCTGACAACCCCAAG
AAGCACAGCCAGCTCCAGGGCTTCTACCAGTTTGTGCAGCCCCACCACAAGCAGCAGTTTGAGGAGGTCTGTATACAGCT
AACAGGACAAGGCTGTGGCTATCGGCCAGAGCACAGCATTCCCCAAAGGCAGCGGGCACAGCCAGCCCTGGACCCCACTG
GAAGGACAGCGCCAGATCCCAAGCTGACCCTGTCCAAGGCTGTGGCCCAGCAGCTGGATCCCAGAGAGCACCTCAACCAG
GGCAGGCCCCACCTGTCCCCCAGGCCACCCCCCACAGGAGACCCTGGCAGCCACCCACAGTGGGGGTCCAGAGCGCCCAG
AGCAGGGAAGCAGGGCCAGCATGCCATGAGCGCCTACCTGGCAGATGCCTGCAGGGCCCTGGAGTCTACAGGCTGTAGCC
AGCTCTTGGCAGTGCTGACAGCCTACAAGCAGGATGATGACCTGGACAAGGTGCTGGCCCTACTGGCTGCCCTGACCACT
GCGAAGCCTGAGAACTTCCCCCTGCTGCAGAGGTTCAGCATGTTCGTGCATCCATACCACAAGCAGCACTTCTTGCCGAC
ATGCACAGACCTGGCCAGCCAGCCCAACCCAGGCATGGAGCCGCCAGGACCCCAAGAGGAGAGCCTTGCCACGCCTCCTA
TGCTCACCCACGGGGCTTCCCAACCAGACCACTCATGGTGCAAGAAGCCTGGGAAGACCCAGAGCAAGATCTCATCATTC
CTCAGACAGAGGCCAGCAGGGGCCTTGGGGGAGGATGGT

Alignment

ORF - retro_ggor_2058 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 82.81 %
• Parental protein coverage: 85.51 %
• Number of stop codons detected: 4
• Number of frameshifts detected: 6

Retrocopy - Parental Gene Alignment:

Parental  MPKIVLNGVTVDFPFQPYKCQQEYMTKVLECLQQKVNGILESPTGTGKTLCLLCTTLAWREHLRDGISAR
          MPKIVLNGVTVDF..QPYKCQQEYMTKVLECLQ.KVNGILESP.GTGKTLCLLCTTLAWREHL.D.I.A.
Retrocopy MPKIVLNGVTVDFASQPYKCQQEYMTKVLECLQKKVNGILESPSGTGKTLCLLCTTLAWREHLQDTIFAC

Parental  KIAERAQGELFPDRA-LSSWGNAAAAAGDAIACYTDIPKIIYASRTHSQLTQVINELRNTSYRPKVCVLG
          ..A.R.QGEL..D.A.LS.WGNAAA..GD..ACYTDIPKIIYA.RTHSQLTQVINE.RNTSYRPKVCVLG
Retrocopy NFADRVQGELLSDQA>LSFWGNAAADDGDPLACYTDIPKIIYAFRTHSQLTQVINEIRNTSYRPKVCVLG

Parental  SREQLCIHPEVKKQESNHIQIHLCRKKVASRS-CHFYNNVEEKSLEQELASPILDIEDLVKSGSKHRVCP
          SREQLCIHPEVKKQESNH..IHLCRKKVASRS.CHFYNNVEEKSLEQELASPILDIEDLVK.GSKH.VCP
Retrocopy SREQLCIHPEVKKQESNHTKIHLCRKKVASRS<CHFYNNVEEKSLEQELASPILDIEDLVKRGSKHGVCP

Parental  YYLSRNLKQQADIIFMPYNYLLDAKSRRAHNIDLKGTVVIFDEAHNVEKMCEESASFDLTPHDLASGLDV
          YYLSRNLKQQADI.F.PY..LLDAKSRRAHNIDLKGTVVIFDE.H.VEKMCE..ASFDLTPHD..SGLDV
Retrocopy YYLSRNLKQQADIVFIPYS*LLDAKSRRAHNIDLKGTVVIFDETHKVEKMCEGLASFDLTPHDPSSGLDV

Parental  IDQVLEEQTKAAQQGERHPEFSADSPSPGLNMELEDIAKLKMILLRLEGAIDAVELPGDDSGVTKPGSYI
          IDQVLEEQ.K.AQQG..HPEFSAD..S.GLNMELEDIAKLKMILL.LEGAI.AVELPGDDSGVTKPGSYI
Retrocopy IDQVLEEQIKVAQQGQPHPEFSADPTSSGLNMELEDIAKLKMILLCLEGAIHAVELPGDDSGVTKPGSYI

Parental  FELFAEAQITFQTKGCILDSLDQIIQHLAGRAGVFTNTAGLQKLADIIQIVFSVDPSEGSPGSPAGLGAL
          FELFAEAQI.FQTKGCILDSL.QIIQHLAGRAGVF.NTAGLQKLADI.QIVFSVDPSE..PGS.AGLGA.
Retrocopy FELFAEAQIMFQTKGCILDSLEQIIQHLAGRAGVFANTAGLQKLADIVQIVFSVDPSESGPGSLAGLGA-

Parental  QSYKVHIHPDAGHRRTAQRSDAWSTTAA-RKRGKVLSYWCFSPGHSMRELIRQGVRSLILTSGTLAPVSS
          ..YKVHIHPDA.H.R..Q.SDAWSTTAA.RKRGKVLSYW.FSPGHSMREL..QG....ILTSGTLAP.SS
Retrocopy --YKVHIHPDASHQRVVQPSDAWSTTAA<RKRGKVLSYWWFSPGHSMRELVCQGICFIILTSGTLAPGSS

Parental  FALEMQIPFPVCLENPHIIDKHQIWVGVVPRGPDGAQLSSAFDRRFSEECLSSLGKALGNIARVVPYGLL
          FALE.QIPFPVCLENPHIIDKHQIWVG..PRGPDGAQLSSAFDRRFS.EC.SSLGKALGNIAR.VPYGLL
Retrocopy FALELQIPFPVCLENPHIIDKHQIWVGIIPRGPDGAQLSSAFDRRFSKECSSSLGKALGNIARMVPYGLL

Parental  IFFPSYPVMEKSLEFWRARDLARKMEALKPLFVEPRSKGSFSETISAYYAR-VAAPGSTGATFLAVCRGK
          IFFPSYP.MEKSLEFW.A..LARKMEAL.PLFVEPRSKGSFSET..AY.AR.VA.PGSTGATFLAVCRG.
Retrocopy IFFPSYPIMEKSLEFWQAHYLARKMEALRPLFVEPRSKGSFSETMGAY*AR<VASPGSTGATFLAVCRGN

Parental  ASEGLDFSDTNGRGVIVTGL-PYPPRMDPRVVLKMQFLDEMKGQGGAGGQFLSGQEWYRQQASRAVNQAI
          .S.GLDFSDTNG..VI.TGL.P.PPRMDP.VVLKMQFLDEMKGQ.GAGGQFLSGQ.........A..Q.I
Retrocopy TSKGLDFSDTNGCSVIITGL<P*PPRMDPLVVLKMQFLDEMKGQVGAGGQFLSGQA--SRAVNQAIGQVI

Parental  GRVIRHRQDYGAVFLCDHRFAFADARAQLPSWVRPHVRVYDNFGHVIRDVAQFFRVAERTMPAPAPRATA
          ....RH.QD..AVFLCDHR.A.ADARAQLPSWVRPHVRVY.NFGHV..DVAQFF.VAERTMPAPAP.A.A
Retrocopy ----RHCQDDRAVFLCDHRVALADARAQLPSWVRPHVRVY-NFGHVVQDVAQFFHVAERTMPAPAPWAVA

Parental  PNVREGEDAVSEAKSPGPLFSTRKAKSLDLHVPSLKQRSSGSPAAGDPESSLCVEYEQEPVPARQRPRGL
          P..RE.EDAV...KS.GPL.STRKAKSLDLHV.SLKQR.S.SPAAGDPE.SL..EYEQEP.PA.QRP.GL
Retrocopy PSLREAEDAVRVTKSTGPLLSTRKAKSLDLHVLSLKQRPSRSPAAGDPEGSLYMEYEQEPDPAWQRPWGL

Parental  LAALEHSEQRA-GSPGEEQAHSCSTLSLLSEKRPAEEPRGGRKKIRLVSHPEEPVAGAQTDRAKLFMVAV
          LAALEHSEQ.A.G.PGEEQ.H.CSTLSL.S.KR.AEEPRG.RKKI.LVSH.EEPVAGAQ..RAKLFMVA.
Retrocopy LAALEHSEQWA>GGPGEEQGHRCSTLSLPS-KRLAEEPRGRRKKIQLVSHSEEPVAGAQVNRAKLFMVAM

Parental  KQELSQANFATFTQALQDYKGSDDFAALAACLGPLFAEDPKKHNLLQGFYQFVRPHHKQQFEEVCVQLTG
          K.ELSQANFATFTQALQD.KGSDDFAALA.CLG.LFA..PKKH..LQGFYQFV.PHHKQQFEEVC.QLTG
Retrocopy K*ELSQANFATFTQALQDHKGSDDFAALATCLGLLFADNPKKHSQLQGFYQFVQPHHKQQFEEVCIQLTG

Parental  RGCGYRPEHSIPRRQRAQPVLDPTGRTAPDPKLTVSKAAAQQLDPQEHLNQGRPHLSPRPPPTGDPGSHP
          .GCGYRPEHSIP.RQRAQP.LDPTGRTAPDPKLT.SKA.AQQLDP.EHLNQGRPHLSPRPPPTGDPGSHP
Retrocopy QGCGYRPEHSIPQRQRAQPALDPTGRTAPDPKLTLSKAVAQQLDPREHLNQGRPHLSPRPPPTGDPGSHP

Parental  QWGSGVPRAGKQGQRAVSTYLADARRALGSAGCSQLLAALTAYKQDDDLDKVLAVLAALTTAKPEDFPLL
          QWGS..PRAGKQGQ.A.S.YLADA.RAL.S.GCSQLLA.LTAYKQDDDLDKVLA.LAALTTAKPE.FPLL
Retrocopy QWGSRAPRAGKQGQHAMSAYLADACRALESTGCSQLLAVLTAYKQDDDLDKVLALLAALTTAKPENFPLL

Parental  HRFSMFVRPHHKQRFSQTCTDLTGRPYPGMEPPGSQEERLAMPPVLTHGAPQPGPSRSEKTGKTQSKISS
          .RFSMFV.P.HKQ.F..TCTDL...P.PGMEPPG.QEE.LA.PP.LTHGA.QP..S...K.GKTQSKISS
Retrocopy QRFSMFVHPYHKQHFLPTCTDLASQPNPGMEPPGPQEESLATPPMLTHGASQPDHSWCKKPGKTQSKISS

Parental  FLRQRPAGTVGAGG
          FLRQRPAG..G..G
Retrocopy FLRQRPAGALGEDG

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	50.11 RPM
SRP007412_cerebellum	0.00 RPM	84.90 RPM
SRP007412_heart	0.03 RPM	10.69 RPM
SRP007412_kidney	0.08 RPM	20.94 RPM
SRP007412_liver	0.13 RPM	17.70 RPM
SRP007412_testis	2.07 RPM	53.15 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_2058 was not experimentally validated.

Homology

Retrocopy orthology:

Retrocopy retro_ggor_2058 has 0 orthologous retrocopies within eutheria group .

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Parental genes homology:

Parental genes homology involve 2 parental genes, and 2 retrocopies.

Species	Parental gene accession	Retrocopies number
Gorilla gorilla	ENSGGOG00000004784	1 retrocopy	retro_ggor_2058 ,
Myotis lucifugus	ENSMLUG00000005233	1 retrocopy	retro_mluc_2607,