RetrogeneDB ID: retro_meug_1326

Retrocopy location

• Organism: Wallaby (Macropus eugenii)
• Coordinates: Scaffold36832:17301..18239(-)
• Located in intron of: None

Retrocopy information

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

Parental gene information

• Parental gene symbol: DND1
• Ensembl ID: ENSMEUG00000016276
• Aliases: None
• Description: dead end homolog 1 (zebrafish) [Source:HGNC Symbol;Acc:23799]

Sequence

>retro_meug_1326
ATGCAGTCCAAACGGGAGTGTGAGTTGTGGTGTGAGCGGGTGAATCCAGTGAACAAGGCCGCGCTGGAGGCTTGGGTGAG
GGAAACGGGGATCCGACTGGTGCAAGTGAACGGGCAAAGGAAATACGGCGGTCCACCCCCAGGCTGGGTGGGCAGCCCCC
CACCAGCAGGTCAGAGGTATTCATCGGTCGCCTGCCCCAGGATGTGTATGAGCATCAGCTGATTCCACTGTTCCAGCGAG
TGGGGCGTCTCTACGAGTTTCGCCTCATGATGACTTTTAGCGGTCTGAACCGAGGCTTCGCCTACGCTCGATACAGCTCC
CGCCGGGGCGCCCAGGCTGCCATCGCCACTCTTCACAACCACCCTCTTCGGCCTGCCTGCCCACTGCTGGTCTGCCGGAG
CACCGAGAAGTGCGAGCTGACCCTGGACGGGCTGCCGCCAGCGCTGAGCCACCAGGCCTTGCTGCAGGCCCTGCAGCCTC
TGGGCCCCGGTCTGCAGGAAGCACTGCTGCTCCCCAGCCTTATGCGCCCCTACACAAAGATTGCCCTGCTGAAGTTTAGC
TCCCACCGGGCTGCGGCCATGGCCAAGAAGGCTCTAGTGGAAGGGCGCTCAAAGCTCTGTGGTGAACAGGTGACAGTAGA
ATGGCTGAAGCCCGACCTGAAGCAGCGACTGCGACAGCAAACTGAAGGTCCTTTATTTCGAGGTTTGGCGACTGAGAACA
GTCAAAGGACCCTACCTGAGAAATTGGGGACCCTGATAACCCCTAGCTGTGCCCAGACCACCCTTGAAACGCTATGCCAA
CAGAGACGCCTAGGCATACCTGTATTCCTCACTAAGTGCTTGGGAGCTGGGCCTGCAGGCTGGCACCACTTCTGGTACCA
GGTGGTGATTCCTGGTCACCCCATGCCTTTCAGTGGCCTCATCTGGGTAGTTGTAACA

Alignment

ORF - retro_meug_1326 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 97.13 %
• Parental protein coverage: 92.84 %
• Number of stop codons detected: 0
• Number of frameshifts detected: 1

Retrocopy - Parental Gene Alignment:

Parental  MQSKRECELWCERVNPVNKAALEAWVRETGIRLVQVNGQRKYGGPPPGWVGSPPPAG-SEVFIGRLPQDV
          MQSKRECELWCERVNPVNKAALEAWVRETGIRLVQVNGQRKYGGPPPGWVGSPPPAG.SEVFIGRLPQDV
Retrocopy MQSKRECELWCERVNPVNKAALEAWVRETGIRLVQVNGQRKYGGPPPGWVGSPPPAG<SEVFIGRLPQDV

Parental  YEHQLIPLFQRVGRLYEFRLMMTFSGLNRGFAYARYSSRRGAQAAIATLHNHPLRPACPLLVCRSTEKCE
          YEHQLIPLFQRVGRLYEFRLMMTFSGLNRGFAYARYSSRRGAQAAIATLHNHPLRPACPLLVCRSTEKCE
Retrocopy YEHQLIPLFQRVGRLYEFRLMMTFSGLNRGFAYARYSSRRGAQAAIATLHNHPLRPACPLLVCRSTEKCE

Parental  LTLDGLPPALSHQALLQALQPLGPGLQEALLLPSLAP--LQIALLKFSSHRAAAMAKKALVEGRSKLCGE
          LTLDGLPPALSHQALLQALQPLGPGLQEALLLPSL......IALLKFSSHRAAAMAKKALVEGRSKLCGE
Retrocopy LTLDGLPPALSHQALLQALQPLGPGLQEALLLPSLMRPYTKIALLKFSSHRAAAMAKKALVEGRSKLCGE

Parental  QVTVEWLKPDLKQRLRQQTEGPLFRGLATENSQRTLPEKLGTLITPSCAQTTLETLCQQRRLGMPVFLTK
          QVTVEWLKPDLKQRLRQQTEGPLFRGLATENSQRTLPEKLGTLITPSCAQTTLETLCQQRRLG.PVFLTK
Retrocopy QVTVEWLKPDLKQRLRQQTEGPLFRGLATENSQRTLPEKLGTLITPSCAQTTLETLCQQRRLGIPVFLTK

Parental  CLGAGPAGWHHFWYQVVIPGHPMPFSGLIWVVLT
          CLGAGPAGWHHFWYQVVIPGHPMPFSGLIWVV.T
Retrocopy CLGAGPAGWHHFWYQVVIPGHPMPFSGLIWVVVT

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_1326 retrocopy.

TSS

Macropus eugenii was not studied using FANTOM5 data.

Lab

retro_meug_1326 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 6 parental genes, and 7 retrocopies.

Species	Parental gene accession	Retrocopies number
Callithrix jacchus	ENSCJAG00000016345	1 retrocopy	retro_cjac_557,
Homo sapiens	ENSG00000256453	1 retrocopy	retro_hsap_1760,
Macropus eugenii	ENSMEUG00000016276	2 retrocopies	retro_meug_1326 , retro_meug_614,
Mus musculus	ENSMUSG00000044595	1 retrocopy	retro_mmus_2548,
Pongo abelii	ENSPPYG00000015863	1 retrocopy	retro_pabe_1502,
Rattus norvegicus	ENSRNOG00000016894	1 retrocopy	retro_rnor_2782,