RetrogeneDB ID: retro_nleu_194

Retrocopy location

• Organism: Gibbon (Nomascus leucogenys)
• Coordinates: GL397261.1:63709669..63710014(+)
• Located in intron of: ENSNLEG00000017866

Retrocopy information

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

Parental gene information

• Parental gene symbol: C20ORF27
• Ensembl ID: ENSNLEG00000007653
• Aliases: None
• Description: None

Sequence

>retro_nleu_194
TTCCTGAAGATCCTGCACAGGTATGAGATTACCTTCGCTCCACCCCAGTGCACAGGCTGAGCAAGGACATCCACCAGGCA
TTTGTCCCAGCCTGTACCTTCTCAGCGTCCTACCCTTCCCTGAAGGTTATAGTGTCAAGCGCGAGTACTAGGCCCACAAA
GAGGGGGTCCTCAAAGAGGGGATGCTGCTAGCCTGGGAAGGTGGCACCGGCACCTGCATGCGTGGGAGGTGCAAGCCTGC
ATCATGGGCTGACACCACGGCACGTGCATGCTGCTGGACGGTGTCAAATGCGTGGGTGCTGAGCTGGAATACCACTCGGA
GCACAGTGACTGGCACGGCTTTGAC

Alignment

ORF - retro_nleu_194 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 76.86 %
• Parental protein coverage: 59.3 %
• Number of stop codons detected: 2
• Number of frameshifts detected: 3

Retrocopy - Parental Gene Alignment:

Parental  FLKILHRYEITFTLP-PVHRLSKDVREAPV-PSLHLKLLSVVPVPEGYSVKCEYSAHKEGVLKEEILLAC
          FLKILHRYEITF..P.PVHRLSKD...A.V.PSL.L..LSV.P.PEGYSVK.EY.AHKEGVLKE..LLA.
Retrocopy FLKILHRYEITFAPP<PVHRLSKDIHQAFV<PSLYL--LSVLPFPEGYSVKREY*AHKEGVLKEGMLLAW

Parental  EGGTGTCVRVT-VQARVMDRHHGTPMLLDGVKCVGAELEYDSEHSDWHGFD
          EGGTGTC.R...VQA..M..HHGT.MLLDGVKCVGAELEY.SEHSDWHGFD
Retrocopy EGGTGTCMRGR<VQACIMG*HHGTCMLLDGVKCVGAELEYHSEHSDWHGFD

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_194 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 7 parental genes, and 9 retrocopies.

Species	Parental gene accession	Retrocopies number
Callithrix jacchus	ENSCJAG00000021194	1 retrocopy	retro_cjac_3292,
Homo sapiens	ENSG00000101220	2 retrocopies	retro_hsap_1114, retro_hsap_1673,
Gorilla gorilla	ENSGGOG00000016987	1 retrocopy	retro_ggor_871,
Macaca mulatta	ENSMMUG00000022079	1 retrocopy	retro_mmul_1578,
Nomascus leucogenys	ENSNLEG00000007653	1 retrocopy	retro_nleu_194 ,
Pongo abelii	ENSPPYG00000010813	1 retrocopy	retro_pabe_923,
Pan troglodytes	ENSPTRG00000013204	2 retrocopies	retro_ptro_1136, retro_ptro_685,