RetrogeneDB ID: retro_ggor_2925

Retrocopy location

• Organism: Gorilla (Gorilla gorilla)
• Coordinates: X:71241465..71242991(+)
• Located in intron of: None

Retrocopy information

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

Parental gene information

• Parental gene symbol: UHRF2
• Ensembl ID: ENSGGOG00000008853
• Aliases: None
• Description: None

Sequence

>retro_ggor_2925
GGGGGTTCTGAAGGGGCATTAAATGAGTGCAAAATAATATCTGTAGATGAAATCTTCAAGACTGAGAAACCTGGAGCCTA
TCCTCTTTTGTTTGCAGATGTAAAGTTTTTAAGGAGAAATAACTCTGAATGTGACCTGTGTGGTGGAGACCCAGATAAGA
AATGCCTTTCTTGCTTCTTTCATGTATATGATGGGGAACATGAACCCAACATGCAGCTTCTATGTGATGAATGTAATGCG
GCTTATCATATTTACTGCTTGAATACACCTTTGGATAAAGTCCCAGAAGAGGAATACTGGTATTGTTCTTCCTGTAAAAC
TGATTCCAGTTAAGTTGTAAAGGCTGGTGAAAGACTCGAGATGAGTGAAAAGAAAGCAAAGATGCCATCTGCTAGTACTG
AAAGCCAGAGAGACTGGTGCAGGAGAATGGCTTGTGTTGGTCATATGACAGAATGCACTATTGTCTCTTCTAATCATTAT
GGACCTATTCCTGTTGGATCAACTTGGAGATTTAGAGTTCAGGTGAGTGAAGTAGGTGTTCACAGACCCCATGTTGGTGG
ACTTCATGGTTGAAGTAATGATGGAGTTTATTCTCTTGTCTTGGTTGGTGGATTTGTGGATAAAGTTGACCGAGGTGATG
AGTTCTTGTACACTGGAAGTGGTGGTAAAAAGCTTGCTGGTAATAAAAGAATTGACACACCTTCAGCTGATCAAACATTA
ACAAACACAAACAGGGCATTGGCCCTAAACTGTGATGCTACATTGGGTGATAAAATTGGAGCAGAGTCTTGGAATTGGAG
AGCTGGTAAGCCAGTCAGAGTGATATGCAGTTTTAAAGGGAGGAAGATCAGCAAATATGCTCCTGAAGAAGGCAACAGAT
ATGATGGCATTTATAAGGTAGTGAAATACTGGCCAGAGATTTCATCAAGCCATGGACTCTTGATTTGGCGCTATCTTTTA
AGAGGAGATGATGTTGAACCTGCTCCTTGGACCTCTGAAGGAATAGAATGGTCAAGGAGATTATGTCTACATTTACAGTA
TCCAGCAGGTTACCCTTCAGATAAAGAAAGGAAGAAGACTAAAGGACAGTCAAAGAAGCAGGCCAGTGGAACCACAAAAA
GGCCGATTTCAAATGTCTAAGTGCCTCCAAAGTATACAAAGCATCAGATTCAGCAGGAGCAATTGAGGCTTTTCAACTAA
CTCCTCAACAGCAACATCTCATCAGAGAAGACTGTCAAAACCAGAAGCTGTGGGATGAAGTGCTTGCATATCCTGTGGAA
GGACCAAATTTTCTGAAAAAATTGGAACAATCTTTTATGTGTGTTTGCTGCCAGAAGCTAGTTTACCAGCCTGTGACAAC
TGAGTGCTTCCACAATGTCTGTAAAAATTGCCAACAGTGCTCCTTTAAGGCACAGGTTTTCTCCTGCCCTGCTTGCTGGC
ATGATCTTGGCCAGAATTATGTCATAATTCCCCATGAGATTCTGCAGACTCTACTAGACCTTTTCTTCCCTGGCTACAGC
AAAGGA

Alignment

ORF - retro_ggor_2925 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 83.3 %
• Parental protein coverage: 64.09 %
• Number of stop codons detected: 3
• Number of frameshifts detected: 1

Retrocopy - Parental Gene Alignment:

Parental  GGSEGTLNDCKIISVDEIFKIERPGAHPLSFADGKFLRRNDPECDLCGGDPEKKCHSCSCRVCGGKHEPN
          GGSEG.LN.CKIISVDEIFK.E.PGA.PL.FAD.KFLRRN..ECDLCGGDP.KKC.SC...V..G.HEPN
Retrocopy GGSEGALNECKIISVDEIFKTEKPGAYPLLFADVKFLRRNNSECDLCGGDPDKKCLSCFFHVYDGEHEPN

Parental  MQLLCDECNVAYHIYCLNPPLDKVPEEEYWYCPSCKTDSSEVVKAGERLKMSKKKAKMPSASTESRRDWG
          MQLLCDECN.AYHIYCLN.PLDKVPEEEYWYC.SCKTDSS.VVKAGERL.MS.KKAKMPSASTES.RDW.
Retrocopy MQLLCDECNAAYHIYCLNTPLDKVPEEEYWYCSSCKTDSS*VVKAGERLEMSEKKAKMPSASTESQRDWC

Parental  RGMACVGRTRECTIVPSNHYGPIPGIPVGSTWRFRVQVSEAGVHRPHVGGIHGRSNDGAYSLVLAGGFAD
          R.MACVG...ECTIV.SNHYGP...IPVGSTWRFRVQVSE.GVHRPHVGG.HG.SNDG.YSLVL.GGF.D
Retrocopy RRMACVGHMTECTIVSSNHYGP---IPVGSTWRFRVQVSEVGVHRPHVGGLHG*SNDGVYSLVLVGGFVD

Parental  EVDRGDEFTYTGSGGKNLAGNKRIGAPSADQTLTNMNRALALNCDAPLDDKIGAESRNWRAGKPVRVIRS
          .VDRGDEF.YTGSGGK.LAGNKRI..PSADQTLTN.NRALALNCDA.L.DKIGAES.NWRAGKPVRVI.S
Retrocopy KVDRGDEFLYTGSGGKKLAGNKRIDTPSADQTLTNTNRALALNCDATLGDKIGAESWNWRAGKPVRVICS

Parental  FKGRKISKYAPEEGNRYDGIYKVVKYWPEISSSHGFLVWRYLLRRDDVEPAPWTSEGIERSRRLCLRLQY
          FKGRKISKYAPEEGNRYDGIYKVVKYWPEISSSHG.L.WRYLLR.DDVEPAPWTSEGIE.SRRLCL.LQY
Retrocopy FKGRKISKYAPEEGNRYDGIYKVVKYWPEISSSHGLLIWRYLLRGDDVEPAPWTSEGIEWSRRLCLHLQY

Parental  PAGYPSDKEGKKPKGQSKKQPSGTTKRPISDDDCPSASKVYKASDSAEAIEAF-QLTPQQQHLIREDCQN
          PAGYPSDKE.KK.KGQSKKQ.SGTTKRPIS....P...K..K.....E....F.QLTPQQQHLIREDCQN
Retrocopy PAGYPSDKERKKTKGQSKKQASGTTKRPISNV*VP--PKYTKHQIQQEQLRLF<QLTPQQQHLIREDCQN

Parental  QKLWDEVLAHLVEGPNFLKKLEQSFMCVCCQELVYQPVTTECFHNVCKDCLQRSFKAQVFSCPACRHDLG
          QKLWDEVLA..VEGPNFLKKLEQSFMCVCCQ.LVYQPVTTECFHNVCK.C.Q.SFKAQVFSCPAC.HDLG
Retrocopy QKLWDEVLAYPVEGPNFLKKLEQSFMCVCCQKLVYQPVTTECFHNVCKNCQQCSFKAQVFSCPACWHDLG

Parental  QNYIMIPNEILQTLLDLFFPGYSKG
          QNY..IP.EILQTLLDLFFPGYSKG
Retrocopy QNYVIIPHEILQTLLDLFFPGYSKG

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	0.34 RPM	16.98 RPM
SRP007412_cerebellum	0.04 RPM	23.95 RPM
SRP007412_heart	0.00 RPM	5.75 RPM
SRP007412_kidney	0.04 RPM	23.59 RPM
SRP007412_liver	0.00 RPM	17.96 RPM
SRP007412_testis	0.00 RPM	39.78 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_2925 was not experimentally validated.

Homology

Retrocopy orthology:

Retrocopy retro_ggor_2925 has 0 orthologous retrocopies within eutheria group .

---

Parental genes homology:

Parental genes homology involve 4 parental genes, and 4 retrocopies.

Species	Parental gene accession	Retrocopies number
Homo sapiens	ENSG00000147854	1 retrocopy	retro_hsap_4708,
Gorilla gorilla	ENSGGOG00000008853	1 retrocopy	retro_ggor_2925 ,
Nomascus leucogenys	ENSNLEG00000009135	1 retrocopy	retro_nleu_1985,
Pongo abelii	ENSPPYG00000019227	1 retrocopy	retro_pabe_3656,