RetrogeneDB ID: retro_ggor_993

Retrocopy location

• Organism: Gorilla (Gorilla gorilla)
• Coordinates: 13:28608165..28609044(-)
• Located in intron of: None

Retrocopy information

• Ensembl ID: ENSGGOG00000000268
• Aliases: None
• Status: KNOWN_PSEUDOGENE

Parental gene information

• Parental gene symbol: NUS1
• Ensembl ID: ENSGGOG00000022321
• Aliases: None
• Description: None

Sequence

>retro_ggor_993
ATGAGGGGGGTGTACGAGCTGGTGCGGCGGGTGCTGCACGCGCTGCTCTGTCTGCACCGGACGCTCACCTCCTGGCTCCG
CGTTCCGTTCGGCACCTGGAACTGGATCTGGCGGCGCTGCTGCCGCGCCGCCTCTGCCGCGGTCCTAGCGCCGCTCGGCT
TCACGCTCCGCAAGCCCCCGGCAGTCGGCAGGAACCGCCGTCACCACCGGCACCCGCGCGGGGGGTCGTGCCTGGCAGTC
GCACTCCACCGGATGCGCTGGCGCGCGGACGGTCGTTCCTTGGAGAAGCTGCCTGTGCATATGGGCCTGGTGATCACCGA
GGTGGAGCAGGAACCCAGCTTCTCGGACATCGCGAGCCTCGTGGTGTGGTGTATGGCCGTGGGCATCTCCTACATTAGCG
TCTACGACCACCAAGGTATTTTCAAAAGAAATAATTCCAGATTGATGGATGAAATTTTAAAAGAACAGCAAGAACTTCTG
GGCCTAGATTGTTCAAAATACTCACCAGAATTTGCAAATAGTAATGACAAAGATGATCAAGTTTTAAATTGCCATTTGGC
AGTGAAGGTGCTGTCTCCGGAAGATAGAAAAGCAGATATTGTAATAGCTGCTCAGTACTTTTGCCAGTTAGTAGCCCAGA
AGCAAAAGAGACCCACAGATGTGGATGTAGATACGTTAGGCAGTTTACTTAGTTCAAATGGTTGTCCTGATCCTGATTTA
GTATTGAAGTTCGGTCCTGTGGACAGCACATTAGGCTTTCTTCCCTGGCACATCAGATTGACTGAGATTGTCTCTTTGCC
TTCCCACCTAAACATCAGTTATGAGGACTTTTTCTCTGCCCTTCGTCAATATGCAGCCTGTGAACGGCGTCTGGGAAAG

Alignment

ORF - retro_ggor_993 Open Reading Frame is conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 96.25 %
• Parental protein coverage: 100.0 %
• Number of stop codons detected: 0
• Number of frameshifts detected: 0

Retrocopy - Parental Gene Alignment:

Parental  MTGLYELVWRVLHALLCLHRTLTSWLRVRFGTWNWIWRRCCRAASAAVLAPLGFTLRKPPAVGRNRRHHR
          M.G.YELV.RVLHALLCLHRTLTSWLRV.FGTWNWIWRRCCRAASAAVLAPLGFTLRKPPAVGRNRRHHR
Retrocopy MRGVYELVRRVLHALLCLHRTLTSWLRVPFGTWNWIWRRCCRAASAAVLAPLGFTLRKPPAVGRNRRHHR

Parental  HPRGGSCLAAALHRMRWRADGRSLEKLPVHMGLVITEVEQEPSFSDIASLVVWCMAVGISYISVYDHQGI
          HPRGGSCLA.ALHRMRWRADGRSLEKLPVHMGLVITEVEQEPSFSDIASLVVWCMAVGISYISVYDHQGI
Retrocopy HPRGGSCLAVALHRMRWRADGRSLEKLPVHMGLVITEVEQEPSFSDIASLVVWCMAVGISYISVYDHQGI

Parental  FKRNNSRLMDEILKQQQELLGLDCSKYSPEFANSNDKDDQVLNCHLAVKVLSPEDGKADIVRAAQDFCQL
          FKRNNSRLMDEILK.QQELLGLDCSKYSPEFANSNDKDDQVLNCHLAVKVLSPED.KADIV.AAQ.FCQL
Retrocopy FKRNNSRLMDEILKEQQELLGLDCSKYSPEFANSNDKDDQVLNCHLAVKVLSPEDRKADIVIAAQYFCQL

Parental  VAQKQKRPTDLDVDTLGSLLSSNGCPDPDLVLKFGPVDSTLGFLPWHIRLTEIVSLPSHLNISYEDFFSA
          VAQKQKRPTD.DVDTLGSLLSSNGCPDPDLVLKFGPVDSTLGFLPWHIRLTEIVSLPSHLNISYEDFFSA
Retrocopy VAQKQKRPTDVDVDTLGSLLSSNGCPDPDLVLKFGPVDSTLGFLPWHIRLTEIVSLPSHLNISYEDFFSA

Parental  LRQYAACEQRLGK
          LRQYAACE.RLGK
Retrocopy LRQYAACERRLGK

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	4.89 RPM
SRP007412_cerebellum	0.12 RPM	2.36 RPM
SRP007412_heart	0.03 RPM	1.13 RPM
SRP007412_kidney	0.04 RPM	6.30 RPM
SRP007412_liver	0.03 RPM	4.09 RPM
SRP007412_testis	0.73 RPM	8.29 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_993 was not experimentally validated.

Homology

Retrocopy orthology:

Retrocopy retro_ggor_993 has 0 orthologous retrocopies within eutheria group .

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Parental genes homology:

Parental genes homology involve 11 parental genes, and 18 retrocopies.

Species	Parental gene accession	Retrocopies number
Dasypus novemcinctus	ENSDNOG00000001780	1 retrocopy	retro_dnov_1639,
Erinaceus europaeus	ENSEEUG00000008948	1 retrocopy	retro_eeur_443,
Homo sapiens	ENSG00000153989	4 retrocopies	retro_hsap_1174, retro_hsap_1176, retro_hsap_1289, retro_hsap_4825,
Gorilla gorilla	ENSGGOG00000022321	4 retrocopies	retro_ggor_1012, retro_ggor_914, retro_ggor_915, retro_ggor_993 ,
Microcebus murinus	ENSMICG00000007831	1 retrocopy	retro_mmur_423,
Nomascus leucogenys	ENSNLEG00000013457	1 retrocopy	retro_nleu_2411,
Oryctolagus cuniculus	ENSOCUG00000011553	1 retrocopy	retro_ocun_1713,
Pongo abelii	ENSPPYG00000025886	1 retrocopy	retro_pabe_81,
Pan troglodytes	ENSPTRG00000018547	1 retrocopy	retro_ptro_808,
Tarsius syrichta	ENSTSYG00000003212	1 retrocopy	retro_tsyr_633,
Tursiops truncatus	ENSTTRG00000007352	2 retrocopies	retro_ttru_358, retro_ttru_684,