RetrogeneDB ID: retro_meug_1770

Retrocopy location

• Organism: Wallaby (Macropus eugenii)
• Coordinates: Scaffold5795:11801..12342(+)
• Located in intron of: None

Retrocopy information

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

Parental gene information

• Parental gene symbol: TFB1M
• Ensembl ID: ENSMEUG00000001699
• Aliases: None
• Description: transcription factor B1, mitochondrial [Source:HGNC Symbol;Acc:17037]

Sequence

>retro_meug_1770
TATGGCAGAACACAGATGACGTTGACCTTTCGAAAGGGAAGTGGCTGAGAGACTGAATGCCAATACAGGAAGTATAAAAT
GAAGTCACCTTTCCATCATGGCCCAGTATCTCTGCAAGGTTCAGCATTCCTTTATGATTCCAGGCCGAGCTTTTGTTCCT
GAACCACAGGTGAATGTGGAAGTAGTTCATTTCACTCCCCTGGTGCAACCACAGATAAATCAGCCATTTAAACTTGTGGA
AAAAGTTTTCCAGAGTACTTTTCAATTCAGAGGGAAATACTGCTATCATGGGATTGGAATCATATTCCCACAAGCTGACC
ACTCAAAAAAAACTGAAAAAATGTTAATGTTGGCTGATGTGGACCCTACTTTAAGACCACTCCAGCTCTCCATCTTACAT
TTTAGGAACCTCTGTGATGTCTACAGAAAAATGTGTGATAAAGACCAAAATCTTTTCTCTTACAATTTCAGGGATGATCT
CAAGCAAAACAAAAGCAAAAAGTCTATAAAGGATAAAGATGATGATAATGATTTAGATTAT

Alignment

ORF - retro_meug_1770 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 81.22 %
• Parental protein coverage: 54.88 %
• Number of stop codons detected: 1
• Number of frameshifts detected: 1

Retrocopy - Parental Gene Alignment:

Parental  YGRTQMTLTFQK-EVAERLTANTGSKQRSRLSIMAQYLCKVQHSFTIPGRAFVPKPXVDVGVVHFTPLVQ
          YGRTQMTLTF.K.EVAERL.ANTGS...S.LSIMAQYLCKVQHSF.IPGRAFVP.P.V.V.VVHFTPLVQ
Retrocopy YGRTQMTLTFRK>EVAERLNANTGSIK*SHLSIMAQYLCKVQHSFMIPGRAFVPEPQVNVEVVHFTPLVQ

Parental  PQINQPFKLVEKVVQSTFQFRRKYCHHGIGILFPQADRSKNTEKMLMLADVDPTLRPAQLSILHFKNLCD
          PQINQPFKLVEKV.QSTFQFR.KYC.HGIGI.FPQAD........LMLADVDPTLRP.QLSILHF.NLCD
Retrocopy PQINQPFKLVEKVFQSTFQFRGKYCYHGIGIIFPQADHXXXXXXXLMLADVDPTLRPLQLSILHFRNLCD

Parental  VYRKMCDEDPNLFTYNFREELKQNKSKKPIKDRDGDNDLDY
          VYRKMCD.D.NLF.YNFR..LKQNKSKK.IKD.D.DNDLDY
Retrocopy VYRKMCDKDQNLFSYNFRDDLKQNKSKKSIKDKDDDNDLDY

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_1770 retrocopy.

TSS

Macropus eugenii was not studied using FANTOM5 data.

Lab

retro_meug_1770 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.

---

Parental genes homology:

Parental genes homology involve 3 parental genes, and 3 retrocopies.

Species	Parental gene accession	Retrocopies number
Echinops telfairi	ENSETEG00000005709	1 retrocopy	retro_etel_734,
Macropus eugenii	ENSMEUG00000001699	1 retrocopy	retro_meug_1770 ,
Tursiops truncatus	ENSTTRG00000006327	1 retrocopy	retro_ttru_963,