RetrogeneDB ID: retro_ggor_2658

Retrocopy location

• Organism: Gorilla (Gorilla gorilla)
• Coordinates: 8:51865060..51866380(+)
• Located in intron of: ENSGGOG00000023652

Retrocopy information

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

Parental gene information

• Parental gene symbol: ESF1
• Ensembl ID: ENSGGOG00000006692
• Aliases: None
• Description: None

Sequence

>retro_ggor_2658
TGTAAATCTAAGATAGCTCCCAACATAAGTCCAAAGAAGGAGAGCAAAAAATTTACACAAAAAAGTACAAAAGAGAAAAA
AAACATTATTCAACATACTATCAACTCTTCTCTCAAAGAAAGATGAAGGACATTAGACTCAGGCACCTCTGCTGTGAAAT
CTCCCAAGATCAAGTGTTCTAAGACAAGAAGAGAAATGCAACCAGTGGTTCCATCCATAACGGCAAGTGGCAGTGATGGT
TATGAAAACTCAACAGACAGTAAAATGTTTGACAAAGATGCTCTAAAGGAAGATTTAGAAAGTGTTAGTAAAACAGGAAG
TGATGAGGAATCTAAAAATGAAATTACAAGTATTGGTAGAGCTTCAGGTGATGATGACAATGGAAGTGATGATGAAAATG
AAGAAGAGGATGAAGAGAATGGTGAGGATGATGATGCAAGTGACAGCAGCCCTAATCTTGCAAGGGGTAAAGGAAATAAA
GAAACTAGTTCTGAAAATGAAGATGATATGGCAGATTTGTTTCCAGAAGAATCAAGTTTTGGGCATGCATGGAGAGAATC
AGATAAACCTGCTCCTCGTGCTGATGACATTACACATTAATTAGCAGTTTGCAACATGGACTGGGATAGATTAAAGGCAA
AAGATTTGCTGACTCTGTTCAACTGATTTAAACCTAAAGGAGGTGTTATATTTCCTGTAAAAATATATTCTTCAGAGTTT
GGATAGGAGAGGGTGAAGGAAGAGCAAGTTTGAGGACCAGTAGAGCTATTAAGTGTTCCTGAAGATGCCCCAAAAAAGGA
CTGGACCTCTAGAGAAAAACTGAGAGGTTATCAATTCAAATGACTGAAGTACTATTATGCAGTAGTAGACTGTGATTCTC
CTGAAACAGCCAGTAAAATTTATGAGAATTGTGGTGGCCTGGAATTTGAAAGTAGTTGTTCTTTCATAGATGTAAGGTTT
ATACCAGATGATACTACTTTTGATGATGAGCCCAAGGACGTAGCCTCAGAGGTGTATTTAACAGCATATAAACTAAATAT
ATATCATATCTGCTGCAATGGGAACATCAATGGTGGAAATCACTTGGGATGAGACTGAACATGAAAGAATTACAACACTC
AACAGGAAGCTTAAAAGGAAGAGCTTTTGGACATGGATTTTCAAGACTACTTAGCTTCCTCTAGTGAAAATGAAGAGGAG
ATAGAAGAGGAGCTACAAGGTGATGATGAAGTCAATGTAGAAGAAGATGGGAAAACAAAGAAAAGTCAGAAGGACGATGA
AGAACAAATCACTAAATATAGGCAACTTTTGCAGGTTATT

Alignment

ORF - retro_ggor_2658 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 77.68 %
• Parental protein coverage: 52.41 %
• Number of stop codons detected: 6
• Number of frameshifts detected: 2

Retrocopy - Parental Gene Alignment:

Parental  CKFKIDSNVSPKKDSKEFTQKNKKEKKNIVQHTTDSSLEEKRRTLDSGTSEIVKSPRIECSKTRREVQSV
          CK.KI..N.SPKK.S.............I.QHT..SSL.E..RTLDSGTS..VKSP.I.CSKTRRE.Q.V
Retrocopy CKSKIAPNISPKKESXXXXXXXXXXXXXIIQHTINSSLKER*RTLDSGTSA-VKSPKIKCSKTRREMQPV

Parental  VQPIMTRDSDGYENSTDGEMFDKDALEEDSESISEIGSDEESENEITSVGRASGDDDDGSDDEDEDEDEE
          V..I....SDGYENSTD..MFDKDAL.ED.ES.S..GSDEES.NEITS.GRASGDDD.GS.....DE.EE
Retrocopy VPSITASGSDGYENSTDSKMFDKDALKEDLESVSKTGSDEESKNEITSIGRASGDDDNGS----DDENEE

Parental  EDEDEDSEDDDESDSGPDLARGKGNIETSSEDEDDMADMFPEESGFEHAWRELDKDAPRADEITRRLAVC
          EDE.E..EDDD.SDS.P.LARGKGN.ETSSE.EDDMAD.FPEES.F.HAWRE.DK.APRAD.IT..LAVC
Retrocopy EDE-ENGEDDDASDSSPNLARGKGNKETSSENEDDMADLFPEESSFGHAWRESDKPAPRADDITH*LAVC

Parental  NMDWDRLKAKDLLALFNSFKPKGGVIFSVKIYPSEFGKERMKEEQVQGPVELLSIPEDAPEKDWTSREKL
          NMDWDRLKAKDLL.LFN.FKPKGGVIF.VKIY.SEFG.ER.KEEQV.GPVELLS.PEDAP.KDWTSREKL
Retrocopy NMDWDRLKAKDLLTLFN*FKPKGGVIFPVKIYSSEFG*ERVKEEQV*GPVELLSVPEDAPKKDWTSREKL

Parental  RDYQFKRLKYYYAVVDCDSPETASKIYEDCDGLEFESSCSFIDLRFIPDDITFDDEPKDVASEVNLTAYK
          R.YQFK.LKYYYAVVDCDSPETASKIYE.C.GLEFESSCSFID.RFIPDD.TFDDEPKDVASEV.LTAYK
Retrocopy RGYQFK*LKYYYAVVDCDSPETASKIYENCGGLEFESSCSFIDVRFIPDDTTFDDEPKDVASEVYLTAYK

Parental  PK-YFTSAAMGTSTVEITWDETDHERITMLNRKFK-KEELLDMDFQAYLASSSEDEEETEEELQGDDGVN
          ...Y..SAAMGTS.VEITWDET.HERIT.LNRK.K.KEELLDMDFQ.YLASSSE.EEE.EEELQGDD.VN
Retrocopy LN>YIISAAMGTSMVEITWDETEHERITTLNRKLK<KEELLDMDFQDYLASSSENEEEIEEELQGDDEVN

Parental  VEEDGKTKKGQKDDEEQIAKYRQLLQVI
          VEEDGKTKK.QKDDEEQI.KYRQLLQVI
Retrocopy VEEDGKTKKSQKDDEEQITKYRQLLQVI

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	0.24 RPM	21.72 RPM
SRP007412_cerebellum	0.24 RPM	22.58 RPM
SRP007412_heart	0.03 RPM	9.07 RPM
SRP007412_kidney	0.16 RPM	21.26 RPM
SRP007412_liver	0.13 RPM	13.45 RPM
SRP007412_testis	0.00 RPM	68.89 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_2658 was not experimentally validated.

Homology

Retrocopy orthology:

Retrocopy retro_ggor_2658 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	ENSGGOG00000006692	1 retrocopy	retro_ggor_2658 ,
Nomascus leucogenys	ENSNLEG00000014563	1 retrocopy	retro_nleu_534,