RetrogeneDB ID: retro_nleu_2958

Retrocopy location

• Organism: Gibbon (Nomascus leucogenys)
• Coordinates: GL397524.1:503587..503953(-)
• Located in intron of: None

Retrocopy information

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

Parental gene information

• Parental gene symbol: LYPLA2
• Ensembl ID: ENSNLEG00000008646
• Aliases: None
• Description: None

Sequence

>retro_nleu_2958
AGGATCCCTGTGACTCTCAACATGAAAATGGTGACACCCTCCTGGTTTGACCTGATGGGGCTGAGTCCAGATGCCCCAAA
GGACGAGGCTGGCATCAAGAAGGAAGCAAAGAACATCAAGGCCTTGATTGAGCATGAAATGAAAAACGGGATCCCTGTCG
ATCAAATCGTCCTGGGAGGCTTTTCACAGGGCGGGGCCCCATCCCTCTACACGGCCCTCACCTGCCCCCACCCTCTGGCT
GGTATCGTAGCGTTGAGCTGCTGGCCGCCTCTGCACCGGGCCTTCCCCCAGGCAGCTAAATGCAGTGGCAAGGACCTGGC
CATCCTCTAGCGCCAGGGGGAGCTGGACCCCATGGTGCCCTGACGG

Alignment

ORF - retro_nleu_2958 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 86.89 %
• Parental protein coverage: 52.81 %
• Number of stop codons detected: 2
• Number of frameshifts detected: 0

Retrocopy - Parental Gene Alignment:

Parental  RIPVTLNMKMVMPSWFDLMGLSPDAPEDEAGIKKAAENIKALIEHEMKNGIPANRIVLGGFSQGGALSLY
          RIPVTLNMKMV.PSWFDLMGLSPDAP.DEAGIKK.A.NIKALIEHEMKNGIP...IVLGGFSQGGA.SLY
Retrocopy RIPVTLNMKMVTPSWFDLMGLSPDAPKDEAGIKKEAKNIKALIEHEMKNGIPVDQIVLGGFSQGGAPSLY

Parental  TALTCPHPLAGIVALSCWLPLHRAFPQAANGSAKDLAILQCHGELDPMVPVR
          TALTCPHPLAGIVALSCW.PLHRAFPQAA..S.KDLAIL...GELDPMVP.R
Retrocopy TALTCPHPLAGIVALSCWPPLHRAFPQAAKCSGKDLAIL*RQGELDPMVP*R

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_2958 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 8 parental genes, and 15 retrocopies.

Species	Parental gene accession	Retrocopies number
Bos taurus	ENSBTAG00000011625	1 retrocopy	retro_btau_1605,
Callithrix jacchus	ENSCJAG00000020914	1 retrocopy	retro_cjac_2585,
Dasypus novemcinctus	ENSDNOG00000011285	2 retrocopies	retro_dnov_1186, retro_dnov_134,
Homo sapiens	ENSG00000011009	3 retrocopies	retro_hsap_2023, retro_hsap_3577, retro_hsap_4180,
Macropus eugenii	ENSMEUG00000004768	2 retrocopies	retro_meug_1134, retro_meug_1526,
Nomascus leucogenys	ENSNLEG00000001027	4 retrocopies	retro_nleu_1137, retro_nleu_2015, retro_nleu_2817, retro_nleu_2869,
Nomascus leucogenys	ENSNLEG00000008646	1 retrocopy	retro_nleu_2958 ,
Otolemur garnettii	ENSOGAG00000032260	1 retrocopy	retro_ogar_2866,