RetrogeneDB ID: retro_meug_1007

Retrocopy location

• Organism: Wallaby (Macropus eugenii)
• Coordinates: Scaffold25746:16306..17002(-)
• Located in intron of: None

Retrocopy information

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

Parental gene information

• Parental gene symbol: POLB
• Ensembl ID: ENSMEUG00000012619
• Aliases: None
• Description: polymerase (DNA directed), beta [Source:HGNC Symbol;Acc:9174]

Sequence

>retro_meug_1007
GTTAGTGGCATAGGTCCATCTGCTGCAAGGAAGCTTGTTGATGAAGGAATTAAAACATTGGAAGATCTTAGGAAAAATGA
ACACAAGTTGAACCATCATCAGCGAATTGGGCTAAGATATTTTGAAGACTTTGAAAAAAGAATTCCCAGGGAAGAGATGT
TACAAATGCAAGATATTGTATTGAATGAAATTAAGAAAGTTGATCCAAAATATATTGCTACAGTCTGTGGAAGTTTCCGA
CGAGGTGCAGAATCAAGTGGAGATATGGATATTCTCCTCACCCATCCTAGCTTCACTTCTGAGTCAGCTAAACAGCCTAA
GCTGTTGCATCAAGTTGTAGAACAACTACAGAAAGTCCACTTCATCACAGATATTCTGTCAAAGGGGGACACAAAATTTA
TGGGTGTTTGTCAGCTGTCAAGTGAAGATGAAGATGCATATCCATATAGAAGAATTGATATCAGATTGATTCCCAAGGAT
CAGTATTACTGTGGTGTTCTTTACTTCACTGGCAGTGATATTTTCAATAAGAATATGAGGGCCCATGCCTTAGAAAAGGG
CTTCACAATCAATGAGTATACAATCCGGCCCCTGGGAGTCACAGGAGTTGCTGGAGAACCCCTCCCAGTGGACAGTGAGA
AAGACATCTTTGACTATATCCAGTGGAAATACCGAGAACCCAAGGACAGAAGCGAG

Alignment

ORF - retro_meug_1007 Open Reading Frame is conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 86.21 %
• Parental protein coverage: 78.91 %
• Number of stop codons detected: 0
• Number of frameshifts detected: 0

Retrocopy - Parental Gene Alignment:

Parental  VSGIGXXXXXXXXXXXXXXXXXLRKNEHKLNHHQRIGLRYFEDFEKRIPREEMLQMQDIVLNEIKKVDPK
          VSGIG.................LRKNEHKLNHHQRIGLRYFEDFEKRIPREEMLQMQDIVLNEIKKVDPK
Retrocopy VSGIGPSAARKLVDEGIKTLEDLRKNEHKLNHHQRIGLRYFEDFEKRIPREEMLQMQDIVLNEIKKVDPK

Parental  YIATVCGSFRRGAESSGDMDILLTHPSFTSESAKQPKLLHQVVEQLQKVHFITDILSKGDTKFMGVCQLS
          YIATVCGSFRRGAESSGDMDILLTHPSFTSESAKQPKLLHQVVEQLQKVHFITDILSKGDTKFMGVCQLS
Retrocopy YIATVCGSFRRGAESSGDMDILLTHPSFTSESAKQPKLLHQVVEQLQKVHFITDILSKGDTKFMGVCQLS

Parental  SEDEDAYPYRRIDIRLIPKDQYYCGVLYFTGSDIFNKNMRAHALEKGXXXXXXXXXXXXXXXVAGEPLPV
          SEDEDAYPYRRIDIRLIPKDQYYCGVLYFTGSDIFNKNMRAHALEKG...............VAGEPLPV
Retrocopy SEDEDAYPYRRIDIRLIPKDQYYCGVLYFTGSDIFNKNMRAHALEKGFTINEYTIRPLGVTGVAGEPLPV

Parental  DSEKDIFDYIQWKYREPKDRSE
          DSEKDIFDYIQWKYREPKDRSE
Retrocopy DSEKDIFDYIQWKYREPKDRSE

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_1007 retrocopy.

TSS

Macropus eugenii was not studied using FANTOM5 data.

Lab

retro_meug_1007 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 5 parental genes, and 5 retrocopies.

Species	Parental gene accession	Retrocopies number
Ailuropoda melanoleuca	ENSAMEG00000005134	1 retrocopy	retro_amel_1482,
Canis familiaris	ENSCAFG00000005517	1 retrocopy	retro_cfam_891,
Echinops telfairi	ENSETEG00000002644	1 retrocopy	retro_etel_37,
Macropus eugenii	ENSMEUG00000012619	1 retrocopy	retro_meug_1007 ,
Procavia capensis	ENSPCAG00000007734	1 retrocopy	retro_pcap_463,