RetrogeneDB ID: retro_meug_651

Retrocopy location

• Organism: Wallaby (Macropus eugenii)
• Coordinates: Scaffold15220:16573..17084(+)
• Located in intron of: None

Retrocopy information

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

Parental gene information

• Parental gene symbol: NDUFS4
• Ensembl ID: ENSMEUG00000001362
• Aliases: None
• Description: NADH dehydrogenase (ubiquinone) Fe-S protein 4, 18kDa (NADH-coenzyme Q reductase) [Source:HGNC Symbol;Acc:7711]

Sequence

>retro_meug_651
ATGGTGGCGGTCTCAATGTCAGCAGCTCTGAGGCAGGCTCTGGGGGCCAGAAGGGCAGTGGCCGTGGCCTCCCAACTTCC
CACTAGGTCACTGAGCACTTCCACATGGTGGCTGGCAAAGGACCAAACTCAAGACACGCAACTCATCACAGTTGATGAAA
AATTGGATATCACTACATTGACTGGTGTTCCAGAGGAACATATCAAAACCAGAAAAGTTCAGATTTTTGTTCCTACTCGC
ATTAACATGCAATCTGGAGTAAACAACACAAAGAAATGGAAGATGGAGTTTGATACCAGAGAGCGATGGGAAAACCCTTT
GATGGGTTGGGCATCAATGGCAGATCCTCTATCAAACCTGGTTCTAACCTTCAGTACAAAAGAAGATGCAATTGCATTTG
CAGAAAAAATTGCTGGAGCTATGATGTTCAAGAGAGAAAGGTCCCCAAACCTAAATCCAAGTCTTACAGTGCAAACTTTT
CTGGAGCAAAAGAACAAGAGTGTCCAACAAA

Alignment

ORF - retro_meug_651 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 91.33 %
• Parental protein coverage: 100. %
• Number of stop codons detected: 0
• Number of frameshifts detected: 2

Retrocopy - Parental Gene Alignment:

Parental  MAAVSMSAALRQALGARRAAAAASRLPTRSLSTSTWWLAKDQTQDTQLITVDEKLDITTLTGVPEEHIKP
          M.AVSMSAALRQALGARRA.A.AS.LPTRSLSTSTWWLAKDQTQDTQLITVDEKLDITTLTGVPEEHIK.
Retrocopy MVAVSMSAALRQALGARRAVAVASQLPTRSLSTSTWWLAKDQTQDTQLITVDEKLDITTLTGVPEEHIKT

Parental  RKVQIFV-TRNNMQAGVNNTKKWKMEFDTRERWENPLMGWASTADPLSNLVLTFSTKEDAIAFAE-KNGW
          RKVQIFV.TR.NMQ.GVNNTKKWKMEFDTRERWENPLMGWAS.ADPLSNLVLTFSTKEDAIAFAE.KN.W
Retrocopy RKVQIFVPTRINMQSGVNNTKKWKMEFDTRERWENPLMGWASMADPLSNLVLTFSTKEDAIAFAE<KNCW

Parental  SYDVQERKVPKPKSKSYGANFS-WNKRTRVSTK
          SYDVQERKVPKPKSKSY.ANFS.W.KRTRVS.K
Retrocopy SYDVQERKVPKPKSKSYSANFS<WSKRTRVSNK

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_651 retrocopy.

TSS

Macropus eugenii was not studied using FANTOM5 data.

Lab

retro_meug_651 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 13 retrocopies.

Species	Parental gene accession	Retrocopies number
Cavia porcellus	ENSCPOG00000005452	1 retrocopy	retro_cpor_1111,
Erinaceus europaeus	ENSEEUG00000015851	3 retrocopies	retro_eeur_133, retro_eeur_30, retro_eeur_347,
Macropus eugenii	ENSMEUG00000001362	1 retrocopy	retro_meug_651 ,
Microcebus murinus	ENSMICG00000015138	1 retrocopy	retro_mmur_355,
Monodelphis domestica	ENSMODG00000019465	1 retrocopy	retro_mdom_1227,
Mus musculus	ENSMUSG00000021764	1 retrocopy	retro_mmus_3372,
Ochotona princeps	ENSOPRG00000013784	1 retrocopy	retro_opri_508,
Procavia capensis	ENSPCAG00000013496	1 retrocopy	retro_pcap_268,
Pongo abelii	ENSPPYG00000015455	1 retrocopy	retro_pabe_193,
Sus scrofa	ENSSSCG00000016893	1 retrocopy	retro_sscr_999,
Tupaia belangeri	ENSTBEG00000004605	1 retrocopy	retro_tbel_2068,