RetrogeneDB ID: retro_meug_1630

Retrocopy location

• Organism: Wallaby (Macropus eugenii)
• Coordinates: Scaffold49536:4068..4547(-)
• Located in intron of: None

Retrocopy information

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

Parental gene information

• Parental gene symbol: NACA
• Ensembl ID: ENSMEUG00000008412
• Aliases: None
• Description: nascent polypeptide-associated complex alpha subunit [Source:HGNC Symbol;Acc:7629]

Sequence

>retro_meug_1630
TCTCTCCTTGAGTTGGAGAAACCACACAGTCCCAAACCATGAACTGTACCACTTCAGGCCCAGCTGGCCCACTCCATGGG
AAGTGGTGAAGAGACCATCAATAATTAGAAGCAGAGCCCTAGTGAGAAGAAGACCTAAAGGCCATATTAAAGGTGTGTCC
GCAGCAGATCCACACAGTCACCCAAATCACCATTCGGAAGTCTAAGAATGTTCTTTTTGTCATCTCTATGCCTGATGTCT
TCTAAACTCCAGCTTCATATGTCTACATAGTCTTTGGGGAGGCTAAGATTGAAGACCTATCCCAGCAAGTGTATGAGGCA
GCAGCAGAGAAGTTTAAGGTGCCAGCTGAATCCTCACCCATTATCACAGAGATGGCACCAGGTTTCAGCTTCAAGACGGA
GAATAAGGAAGAGGAGGTGGATGAAATAGAGCTAGAAGCACATGACATTGAGCTGGTGATGGCTCAGGCCACTACGAAT

Alignment

ORF - retro_meug_1630 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 52.8 %
• Parental protein coverage: 73.49 %
• Number of stop codons detected: 3
• Number of frameshifts detected: 1

Retrocopy - Parental Gene Alignment:

Parental  SVPELEEQDSTQATTQ--QAQLAAAAEIDEEPVSKAKQSRSEKKA-RKAMSKLGLRQVTGVTRVTIRKSK
          S..ELE...S....T...QAQLA......EE.....KQS.SEKK...KA..K....Q...VT..TIRKSK
Retrocopy SLLELEKPHSPKP*TVPLQAQLAHSMGSGEETINN*KQSPSEKKT<LKAILKVCPQQIHTVTQITIRKSK

Parental  NILFVITKPDVYKSPASDTYIVFGEAKIEDLSQQAQLAAAEKFKVQGEAVSNIQENTQTPTVQEESEEEE
          N.LFVI..PDV...PAS..YIVFGEAKIEDLSQQ...AAAEKFKV..E....I.E.........E..EEE
Retrocopy NVLFVISMPDVF*TPASYVYIVFGEAKIEDLSQQVYEAAAEKFKVPAESSPIITEMAPGFSFKTENKEEE

Parental  VDETGVEVKDIELVMSQANVS
          VDE...E..DIELVM.QA...
Retrocopy VDEIELEAHDIELVMAQATTN

Legend:

• *: Stop codon
• >: Forward frameshift by one nucleotide
• <: Reverse frameshift by one nucleotide

Expression

RNA-Seq

Macropus eugenii was not studied using RNA-Seq expression data.

ChIP-Seq

Macropus eugenii was not studied using ChIP-Seq data.

EST

No EST(s) were mapped for retro_meug_1630 retrocopy.

TSS

Macropus eugenii was not studied using FANTOM5 data.

Lab

retro_meug_1630 was not experimentally validated.

Homology

Retrocopy orthology:

Macropus eugenii 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 9 parental genes, and 57 retrocopies.

Species	Parental gene accession	Retrocopies number
Ailuropoda melanoleuca	ENSAMEG00000004175	3 retrocopies	retro_amel_1725, retro_amel_1821, retro_amel_643,
Canis familiaris	ENSCAFG00000000141	8 retrocopies	retro_cfam_1502, retro_cfam_1561, retro_cfam_1884, retro_cfam_1913, retro_cfam_2096, retro_cfam_2169, retro_cfam_710, retro_cfam_974,
Callithrix jacchus	ENSCJAG00000010701	8 retrocopies	retro_cjac_1063, retro_cjac_1452, retro_cjac_1875, retro_cjac_2202, retro_cjac_2453, retro_cjac_2696, retro_cjac_2975, retro_cjac_3232,
Loxodonta africana	ENSLAFG00000004598	6 retrocopies	retro_lafr_1107, retro_lafr_113, retro_lafr_1251, retro_lafr_166, retro_lafr_491, retro_lafr_958,
Macropus eugenii	ENSMEUG00000008412	3 retrocopies	retro_meug_1630 , retro_meug_2063, retro_meug_2147,
Myotis lucifugus	ENSMLUG00000001169	16 retrocopies	retro_mluc_1147, retro_mluc_1653, retro_mluc_1668, retro_mluc_1756, retro_mluc_1767, retro_mluc_1851, retro_mluc_1881, retro_mluc_1941, retro_mluc_2587, retro_mluc_2600, retro_mluc_414, retro_mluc_492, retro_mluc_526, retro_mluc_641, retro_mluc_725, retro_mluc_861,
Macaca mulatta	ENSMMUG00000003073	4 retrocopies	retro_mmul_1233, retro_mmul_1933, retro_mmul_2066, retro_mmul_889,
Nomascus leucogenys	ENSNLEG00000017449	7 retrocopies	retro_nleu_1358, retro_nleu_20, retro_nleu_2522, retro_nleu_478, retro_nleu_754, retro_nleu_839, retro_nleu_941,
Vicugna pacos	ENSVPAG00000004028	2 retrocopies	retro_vpac_485, retro_vpac_611,