RetrogeneDB ID: retro_nleu_2325

Retrocopy location

• Organism: Gibbon (Nomascus leucogenys)
• Coordinates: GL397343.1:6293775..6294071(-)
• Located in intron of: None

Retrocopy information

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

Parental gene information

• Parental gene symbol: SNAPC5
• Ensembl ID: ENSNLEG00000012935
• Aliases: None
• Description: None

Sequence

>retro_nleu_2325
ATGCTGAGCTGGGGTCAGGAACTGCACAAGGAGGAGGAGACACTGCTCCCGTTGAAGGCAGCCCTTGCATGACCTGCTGA
ATCACATCAAGGTTGAAGCATTGGCCCTCCAATCAATGATTAGTTCTAGGAGAGGGGATGAGGTGCTGTCTTCTCCAACT
TCTCCAAATGCACCTGAACAGTCACACGTCATGTCGGTGCCCATAGACAATGAAGCATCAGTCAACCAAACTACACTGGA
ATGGAGCATAGAGTCCTGTGACAGAAGAAGAGGAGGAAGAGAAAGAAGAATCAGAT

Alignment

ORF - retro_nleu_2325 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 70. %
• Parental protein coverage: 96.94 %
• Number of stop codons detected: 0
• Number of frameshifts detected: 2

Retrocopy - Parental Gene Alignment:

Parental  MLSRLQELRKEEETLLRLKAAL-HDQLNRLKVEELALQSMISSRRGDEMLSSHTVP---EQSHDMLVHVD
          MLS..QEL.KEEETLL.LKAAL.HD.LN..KVE.LALQSMISSRRGDE.LSS.T.P...EQSH.M.V..D
Retrocopy MLSWGQELHKEEETLLPLKAAL>HDLLNHIKVEALALQSMISSRRGDEVLSSPTSPNAPEQSHVMSVPID

Parental  NEASINQTTLELSTKS-HVMEEEEEEEEEE
          NEAS.NQTTLE.S..S....EEEEE.EE..
Retrocopy NEASVNQTTLEWSIES>VTEEEEEEKEESD

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_2325 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.

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Parental genes homology:

Parental genes homology involve 12 parental genes, and 12 retrocopies.

Species	Parental gene accession	Retrocopies number
Canis familiaris	ENSCAFG00000017304	1 retrocopy	retro_cfam_1063,
Callithrix jacchus	ENSCJAG00000007484	1 retrocopy	retro_cjac_2314,
Dasypus novemcinctus	ENSDNOG00000006689	1 retrocopy	retro_dnov_1203,
Gorilla gorilla	ENSGGOG00000003693	1 retrocopy	retro_ggor_2398,
Macropus eugenii	ENSMEUG00000003990	1 retrocopy	retro_meug_1590,
Macaca mulatta	ENSMMUG00000016841	1 retrocopy	retro_mmul_1815,
Mus musculus	ENSMUSG00000032398	1 retrocopy	retro_mmus_702,
Nomascus leucogenys	ENSNLEG00000012935	1 retrocopy	retro_nleu_2325 ,
Oryctolagus cuniculus	ENSOCUG00000008791	1 retrocopy	retro_ocun_1059,
Rattus norvegicus	ENSRNOG00000010156	1 retrocopy	retro_rnor_1087,
Ictidomys tridecemlineatus	ENSSTOG00000009201	1 retrocopy	retro_itri_1582,
Tupaia belangeri	ENSTBEG00000014333	1 retrocopy	retro_tbel_68,