RetrogeneDB ID: retro_nleu_1376

Retrocopy location

• Organism: Gibbon (Nomascus leucogenys)
• Coordinates: GL397291.1:1264456..1264846(-)
• Located in intron of: None

Retrocopy information

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

Parental gene information

• Parental gene symbol: MRPL48
• Ensembl ID: ENSNLEG00000017097
• Aliases: None
• Description: None

Sequence

>retro_nleu_1376
GGGGCGGGTCTTCAGTTTGCACAGCTAGAGGCCGTGCAGCAGCAAAGGATGAGCAGAACCTTGGAAAAGGTGCTGTGCCT
GAGGAACAATACCGTTTTTAAGCAAGCCTTTTCACTCTTAAGGCTTAGAACTTCAGCAGAGAAGCCCATCTATTCTGTAG
GTGGTTGTCTACTAAGTACTCGTCGGCCCTACAAGACAAAGCCCACCTGTGCCACTGGAAGGTACAAGCACCGAATTAAA
GCAGAAGAGCCCAAGAAGAAGCGAAAAGTGGAAGTGAGACTCATTACTTTGGGGACAGATGATGAATATGGGGTTTTAAA
CATTCACCTGACTGCATATGACATGACCCTGGCAGAGAGTTATGCCCAGTATGTTCACAACTAATGCAAC

Alignment

ORF - retro_nleu_1376 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 83.21 %
• Parental protein coverage: 50.19 %
• Number of stop codons detected: 1
• Number of frameshifts detected: 0

Retrocopy - Parental Gene Alignment:

Parental  GAGLRFAQLEAAQQQRMSGPLEKVLCLRNNAIFKQGFSLLRFRTSREKPIYSVGGILLSTSRPYKTKPTH
          GAGL.FAQLEA.QQQRMS..LEKVLCLRNN..FKQ.FSLLR.RTS.EKPIYSVGG.LLST.RPYKTKPT.
Retrocopy GAGLQFAQLEAVQQQRMSRTLEKVLCLRNNTVFKQAFSLLRLRTSAEKPIYSVGGCLLSTRRPYKTKPTC

Parental  GIGKYKHLIKAEEPKKKKGKVEVRAINLGTDYEYGVLNIHLTAYDMTLAESYAQYVHNLCN
          ..G.YKH.IKAEEPKKK..KVEVR.I.LGTD.EYGVLNIHLTAYDMTLAESYAQYVHN.CN
Retrocopy ATGRYKHRIKAEEPKKKR-KVEVRLITLGTDDEYGVLNIHLTAYDMTLAESYAQYVHN*CN

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_1376 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 10 parental genes, and 12 retrocopies.

Species	Parental gene accession	Retrocopies number
Canis familiaris	ENSCAFG00000005585	1 retrocopy	retro_cfam_1437,
Homo sapiens	ENSG00000175581	1 retrocopy	retro_hsap_3557,
Mustela putorius furo	ENSMPUG00000009716	1 retrocopy	retro_mputfur_38,
Mus musculus	ENSMUSG00000030706	2 retrocopies	retro_mmus_2478, retro_mmus_563,
Nomascus leucogenys	ENSNLEG00000017097	1 retrocopy	retro_nleu_1376 ,
Oryctolagus cuniculus	ENSOCUG00000009302	1 retrocopy	retro_ocun_39,
Otolemur garnettii	ENSOGAG00000004771	1 retrocopy	retro_ogar_234,
Pan troglodytes	ENSPTRG00000004049	1 retrocopy	retro_ptro_2417,
Tursiops truncatus	ENSTTRG00000005403	2 retrocopies	retro_ttru_1123, retro_ttru_297,
Vicugna pacos	ENSVPAG00000004657	1 retrocopy	retro_vpac_538,