RetrogeneDB ID: retro_nleu_205

Retrocopy location

• Organism: Gibbon (Nomascus leucogenys)
• Coordinates: GL397261.1:7545512..7546137(-)
• Located in intron of: ENSNLEG00000014511

Retrocopy information

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

Parental gene information

• Parental gene symbol: CCDC84
• Ensembl ID: ENSNLEG00000007378
• Aliases: None
• Description: None

Sequence

>retro_nleu_205
TCTCCCCAGGTTTATGCACGATTCAAAAAATCCCTGGTGGAAGGCTTGGGTTCCTATCAAGAAAAAGAGGATGAGGTGAC
CAAGGAGATGGCAGCTCAGATCTGTGAGGTGGAACAGAGCTGGCAGGAGGTGGTTCAGTCTGTCCTAGAGGTTGGTTTCC
CTCGGAGGATCCAGACCCCCTCAGCCAGTGCCAGGCACTTTAGTCCCTGGAAGCTGGAAAAGGATGAACAGCCAAGTAGC
TTCCAGCTCACAGCAGCCCTCCGACTTGGACCTGCCACAGCTCCAGAGCTTGACTGGATGGAGACAGGACAGTCTCCGAT
ATTCCTTGGCCATCAGGATATACTAGGAGTTGGTAACATCCACTCAGGTGTCACACCCCCCTGGATGATCCAAGATGAAG
AAGGCATCTCTGGGAACCAACAAACAGTACTGTCCTATAAAGAATTTGTTAAAGAAAAGGAAAAAGAAGTTGAAGGAACT
TTCCCCAAACTGAGTTGGGGCCAACTTCGATCACAGCTCCAGGACCAGTGCAGGCTGGCTGCCCTCTTTGGACCGTGTCT
GGAATAATGGATACTGTTGGCAGTTCAGGCGTCAACTCAGAACTGAAGCTGCAGCAATGAACAAG

Alignment

ORF - retro_nleu_205 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 62.56 %
• Parental protein coverage: 61.63 %
• Number of stop codons detected: 1
• Number of frameshifts detected: 2

Retrocopy - Parental Gene Alignment:

Parental  TPQDYARFKKSMVKGLDSYEEKEDEVIKEMAAQIREVEQSRQEVVRSVLE---PLAVPDPQEGSSAPISW
          .PQ.YARFKKS.V.GL.SY.EKEDEV.KEMAAQI.EVEQS.QEVV.SVLE...P.....P.........W
Retrocopy SPQVYARFKKSLVEGLGSYQEKEDEVTKEMAAQICEVEQSWQEVVQSVLEVGFPRRIQTPSASARHFSPW

Parental  KGMNSQVTSSSQQPSNLDLPP--APELDWMETGPSLTFIGHQDIPGVGNIHSGATPPWMIQDEEYIAGNQ
          K.......SS.Q....L.L.P..APELDWMETG.S..F.GHQDI.GVGNIHSG.TPPWMIQDEE.I.GNQ
Retrocopy KLEKDEQPSSFQLTAALRLGPATAPELDWMETGQSPIFLGHQDILGVGNIHSGVTPPWMIQDEEGISGNQ

Parental  EIGPSYEEFLKEKEKQ-KLKKLPPDRVG-ANFDHSSRTSAGWLPSFGRVWNNGRRWQSRHQFKTEAAAMK
          ....SY.EF.KEKEK.......P....G.ANFDHSSRTSAGWLPS..RVWNNG..WQ.R.Q..TEAAAM.
Retrocopy QTVLSYKEFVKEKEKE<S*RNFPQTELG<ANFDHSSRTSAGWLPSLDRVWNNGYCWQFRRQLRTEAAAMN

Parental  Q
          .
Retrocopy K

Legend:

• *: Stop codon
• >: Forward frameshift by one nucleotide
• <: Reverse frameshift by one nucleotide

Expression

RNA-Seq

Nomascus leucogenys was not studied using RNA-Seq expression data.

ChIP-Seq

Nomascus leucogenys was not studied using ChIP-Seq data.

EST

Nomascus leucogenys was not studied using EST data.

TSS

Nomascus leucogenys was not studied using FANTOM5 data.

Lab

retro_nleu_205 was not experimentally validated.

Homology

Retrocopy orthology:

Nomascus leucogenys does not belong to any of the species groups (eutheria, teleost or neognath), studied for retrocopy-based homology. For more information about studied groups, please go to help section.

---

Parental genes homology:

Parental genes homology involve 5 parental genes, and 5 retrocopies.

Species	Parental gene accession	Retrocopies number
Homo sapiens	ENSG00000186166	1 retrocopy	retro_hsap_2451,
Gorilla gorilla	ENSGGOG00000023065	1 retrocopy	retro_ggor_1527,
Nomascus leucogenys	ENSNLEG00000007378	1 retrocopy	retro_nleu_205 ,
Pongo abelii	ENSPPYG00000003948	1 retrocopy	retro_pabe_1802,
Pan troglodytes	ENSPTRG00000004360	1 retrocopy	retro_ptro_1416,