RetrogeneDB ID: retro_meug_1291

Retrocopy location

• Organism: Wallaby (Macropus eugenii)
• Coordinates: Scaffold35627:5770..6236(+)
• Located in intron of: None

Retrocopy information

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

Parental gene information

• Parental gene symbol: MAK16
• Ensembl ID: ENSMEUG00000006945
• Aliases: None
• Description: MAK16 homolog (S. cerevisiae) [Source:HGNC Symbol;Acc:13703]

Sequence

>retro_meug_1291
GACATGCTTGGAAACAAGCAGGTCTGTTCTTATGAAATGAAAACCAAGAACATAACTTTTGTCAAAATGAATACAACCCA
ATTGGATTGTGCAGTGGTTCTTCCAGGTCCATTAGCAAACAGTCTGTATGCCACCATCAAAGAAGAGAAAGGTCAGTGCT
CCTTGTATATGAAGATGATAGAATGAGCAGCTTTCCCTGTGGGAAAGCTCAGCCTGTGGGAGAGGTCCAACGCAGTAAGA
ATTATGAGAAAACTGAAGCAAATAGAAGAAAATCTTTACTGACCTTGCTTCCTTCAGTACGAATATAAAAAGTGGCTTAC
CAAGACTACCCAGTACCTGATTCGAATCTGTAAACTTACTTTACAGCAACAAAGCAAACTTGTTCCCTTGAGCCAAAAAG
GTGGGAAGGCATGAAAAAAGATGAGTGGAAAAAGCATTAATAGTTGCTTAGCTAGATAATGCAATG

Alignment

ORF - retro_meug_1291 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 64.38 %
• Parental protein coverage: 51.51 %
• Number of stop codons detected: 4
• Number of frameshifts detected: 3

Retrocopy - Parental Gene Alignment:

Parental  DVLGNKQFCSYKMKTKT-QNFCRNEYNLTGLCNRSSC-PLANSQYATIKEEKGQCYLYMKVIERAAFP--
          D.LGNKQ.CSY.MKTK...NFC.NEYN..GLC..SS..PLANS.YATIKEEKGQC.LYMK.IE.AAFP..
Retrocopy DMLGNKQVCSYEMKTKN<HNFCQNEYNPIGLCSGSSR>PLANSLYATIKEEKGQCSLYMKMIE*AAFPVG

Parental  -RRMWERVRLSKNYEKALEQIDENLIYWPRFLRHRCKQRFTKITQYLIRIRKLTLKRQRKLVPLS-KKVE
          ....WER........K.L.QI.ENL.Y.P.FL....K...TK.TQYLIRI.KLTL..Q.KLVPLS.KKV.
Retrocopy KLSLWERSNAVRIMRK-LKQIEENL-Y*PCFLQYEYKKWLTKTTQYLIRICKLTLQQQSKLVPLS>KKVG

Parental  RREKRREEKALIAAQLDNAI
          R.EKR..EKALI.A.LDNA.
Retrocopy RHEKR*VEKALIVA*LDNAM

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_1291 retrocopy.

TSS

Macropus eugenii was not studied using FANTOM5 data.

Lab

retro_meug_1291 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 7 parental genes, and 13 retrocopies.

Species	Parental gene accession	Retrocopies number
Choloepus hoffmanni	ENSCHOG00000009081	5 retrocopies	retro_chof_2336, retro_chof_2538, retro_chof_531, retro_chof_867, retro_chof_948,
Dasypus novemcinctus	ENSDNOG00000008424	1 retrocopy	retro_dnov_624,
Latimeria chalumnae	ENSLACG00000018758	1 retrocopy	retro_lcha_67,
Macropus eugenii	ENSMEUG00000006945	1 retrocopy	retro_meug_1291 ,
Myotis lucifugus	ENSMLUG00000002758	1 retrocopy	retro_mluc_590,
Oryctolagus cuniculus	ENSOCUG00000008735	3 retrocopies	retro_ocun_1053, retro_ocun_1298, retro_ocun_908,
Sus scrofa	ENSSSCG00000015832	1 retrocopy	retro_sscr_917,