RetrogeneDB ID: retro_nleu_2895

Retrocopy location

• Organism: Gibbon (Nomascus leucogenys)
• Coordinates: GL397474.1:1481885..1482179(+)
• Located in intron of: ENSNLEG00000013758

Retrocopy information

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

Parental gene information

• Parental gene symbol: None
• Ensembl ID: ENSNLEG00000008877
• Aliases: None
• Description: None

Sequence

>retro_nleu_2895
ATGTTGGATGACACCATGGCAGCAGGAGGGCCCAGAGGCCTGGAATGGAAAACCATGGAAGCTTTGTCAGCAGCTTCTGG
GGCTAGGATTGTGGCCACAGTCAGGGCAGGGGCTGAGGCTGAGGGGAGCTCTGAGAGGCAAGGCCCAGGCCAAGGAGTGG
ATGCCCATCACCAAGCTGGGCTGCCTGGTCAAGGACATGAAGATCAAGTCCCTGGAGGAGATCTATCTCTTCTCCCCGCC
CATCAAGTAGTCTGAGATCATTGACTTTTTCCTGGGGCCTCTCTCAAGGATGAG

Alignment

ORF - retro_nleu_2895 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 64.22 %
• Parental protein coverage: 54.4 %
• Number of stop codons detected: 2
• Number of frameshifts detected: 3

Retrocopy - Parental Gene Alignment:

Parental  MADDAGAAGGPGGPGG-PGLGNRGGFRGGFGSGIRGRGRGRGR-GRG-RGRGARGGKAEDKEWMPVTKLG
          M.DD..AA...GGP.G.PG..N.....G.F.S...G...G....G.G.R.RGA..GKA..KEWMP.TKLG
Retrocopy MLDDTMAA---GGPRG<PGMENH----GSFVSSFWG*DCGHSQ<GQGLRLRGALRGKAQAKEWMPITKLG

Parental  RLVKDMKIKSLEEIYLFSLPIKESEIIDFFL-GASLKDE
          .LVKDMKIKSLEEIYLFS.PIK.SEIIDFFL.GASLKDE
Retrocopy CLVKDMKIKSLEEIYLFSPPIK*SEIIDFFL<GASLKDE

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_2895 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 72 retrocopies.

Species	Parental gene accession	Retrocopies number
Anolis carolinensis	ENSACAG00000002549	1 retrocopy	retro_acar_57,
Macropus eugenii	ENSMEUG00000004508	2 retrocopies	retro_meug_156, retro_meug_2103,
Microcebus murinus	ENSMICG00000012765	28 retrocopies	retro_mmur_1192, retro_mmur_1273, retro_mmur_1283, retro_mmur_1296, retro_mmur_1407, retro_mmur_1417, retro_mmur_1440, retro_mmur_153, retro_mmur_1613, retro_mmur_205, retro_mmur_210, retro_mmur_226, retro_mmur_230, retro_mmur_259, retro_mmur_266, retro_mmur_463, retro_mmur_672, retro_mmur_698, retro_mmur_742, retro_mmur_802, retro_mmur_824, retro_mmur_829, retro_mmur_875, retro_mmur_953, retro_mmur_966, retro_mmur_969, retro_mmur_981, retro_mmur_99,
Monodelphis domestica	ENSMODG00000016077	1 retrocopy	retro_mdom_536,
Nomascus leucogenys	ENSNLEG00000008877	1 retrocopy	retro_nleu_2895 ,
Sarcophilus harrisii	ENSSHAG00000015213	5 retrocopies	retro_shar_186, retro_shar_288, retro_shar_456, retro_shar_525, retro_shar_783,
Ictidomys tridecemlineatus	ENSSTOG00000012944	4 retrocopies	retro_itri_1239, retro_itri_1666, retro_itri_1680, retro_itri_221,
Tupaia belangeri	ENSTBEG00000006726	30 retrocopies	retro_tbel_1023, retro_tbel_1059, retro_tbel_1105, retro_tbel_1179, retro_tbel_129, retro_tbel_1444, retro_tbel_1545, retro_tbel_1615, retro_tbel_1622, retro_tbel_1786, retro_tbel_1910, retro_tbel_2294, retro_tbel_2749, retro_tbel_2786, retro_tbel_2973, retro_tbel_3179, retro_tbel_3314, retro_tbel_3509, retro_tbel_3523, retro_tbel_3682, retro_tbel_3701, retro_tbel_392, retro_tbel_4373, retro_tbel_463, retro_tbel_4674, retro_tbel_481, retro_tbel_586, retro_tbel_603, retro_tbel_639, retro_tbel_647,