RetrogeneDB ID: retro_meug_655

Retrocopy location

• Organism: Wallaby (Macropus eugenii)
• Coordinates: Scaffold152620:5..379(-)
• Located in intron of: None

Retrocopy information

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

Parental gene information

• Parental gene symbol: GNPDA1
• Ensembl ID: ENSMEUG00000015442
• Aliases: None
• Description: glucosamine-6-phosphate deaminase 1 [Source:HGNC Symbol;Acc:4417]

Sequence

>retro_meug_655
TTCTTCAAGCACCTTGATACTTGCTAGGATAACACCTATATCATAGGTGGAATGCAGCTGATCTTAAAGCAGAATAAAAT
GTTTTTGAAGAAGAGATTAAGGCAGATGGAGAGATTGAACTATTTGTTGGAAGCATTGGCCCTGATGGGTACATTGTCTT
CAGATAACCTGAATTAAGTTTGGTGTCTAGGACATAAGTGAAGATTCTGGTCATGAATATCACCTAAGCCAATTCCTCTT
TCTTCAATGGAGAACTTTTGAAATTCACTATGATGGCTCTGACTATGGATGTGGGCATAGTCATGGATGCCAATGAGGTC
ATCATTCTAACTACAGAAATTCACAAGGTATTTGCTATGGAGAACACCACTGAA

Alignment

ORF - retro_meug_655 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 54.76 %
• Parental protein coverage: 52.97 %
• Number of stop codons detected: 5
• Number of frameshifts detected: 1

Retrocopy - Parental Gene Alignment:

Parental  FFKHIDISPQNVFILDG-NAADLQAECDAFEKKIKESGGIELFVGGIGPDGHVAFNEPGSSLASRTRVKT
          FFKH.D....N..I..G.NAADL.AE...FE..IK..G.IELFVG.IGPDG...F..P..SL.SRT.VK.
Retrocopy FFKHLDTC*DNTYIIGG<NAADLKAE*NVFEEEIKADGEIELFVGSIGPDGYIVFR*PELSLVSRT*VKI

Parental  LAVDTIMANSRFFEGDLSKVPTMALTVGVGTVMDAREVMILITGAHKAFALHAIEE
          L......ANS.FF.G.L.K...MALT..VG.VMDA.EV.IL.T..HK.FA.....E
Retrocopy LVMNIT*ANSSFFNGELLKFTMMALTMDVGIVMDANEVIILTTEIHKVFAMENTTE

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_655 retrocopy.

TSS

Macropus eugenii was not studied using FANTOM5 data.

Lab

retro_meug_655 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 11 parental genes, and 17 retrocopies.

Species	Parental gene accession	Retrocopies number
Bos taurus	ENSBTAG00000007865	1 retrocopy	retro_btau_535,
Choloepus hoffmanni	ENSCHOG00000009884	2 retrocopies	retro_chof_2278, retro_chof_42,
Dasypus novemcinctus	ENSDNOG00000007804	3 retrocopies	retro_dnov_1363, retro_dnov_1608, retro_dnov_508,
Macropus eugenii	ENSMEUG00000015385	1 retrocopy	retro_meug_1772,
Macropus eugenii	ENSMEUG00000015442	1 retrocopy	retro_meug_655 ,
Monodelphis domestica	ENSMODG00000010398	1 retrocopy	retro_mdom_1337,
Mus musculus	ENSMUSG00000052102	1 retrocopy	retro_mmus_2711,
Oryctolagus cuniculus	ENSOCUG00000016963	1 retrocopy	retro_ocun_1266,
Otolemur garnettii	ENSOGAG00000007303	3 retrocopies	retro_ogar_2251, retro_ogar_2506, retro_ogar_446,
Ictidomys tridecemlineatus	ENSSTOG00000016508	1 retrocopy	retro_itri_1135,
Tupaia belangeri	ENSTBEG00000003330	2 retrocopies	retro_tbel_2431, retro_tbel_59,