RetrogeneDB ID: retro_btau_225

Retrocopy location

• Organism: Cow (Bos taurus)
• Coordinates: 16:27058046..27058913(+)
• Located in intron of: None

Retrocopy information

• Ensembl ID: ENSBTAG00000044081
• Aliases: None
• Status: KNOWN_PROTEIN_CODING

Parental gene information

• Parental gene symbol: AUH
• Ensembl ID: ENSBTAG00000047649
• Aliases: None
• Description: methylglutaconyl-CoA hydratase, mitochondrial [Source:RefSeq peptide;Acc:NP_001098906]

Sequence

>retro_btau_225
ATGGCGGTGGCAGCTTCCGCGGCACCTGGGGCCTTGGGCACTTTGCAAGCCAGCCGTGCCCGCTTGGTGGCCGCTTGCTG
TACGCGGCTAGGCGCCAGGTGCAGGCTGCCCGGCTCCTGGACGTGCCCGCGGGTCGACTCGACATGGGCCCGGGGCTGGA
CGCCCGCGGCCGGGAAAGCAGCCTGGCAGAGGGGCTACAGCGCAGAGGTGAAGACTGAGGACGAGCTGCGGGTGTGGTAC
CTGGAGGAGGAAAACCGAGGAATTGTGGTGCTTGGAATAAACAGAGCCTATGCCAAAAATTCACTGAGTAAAAATCTTAT
AAAAATGCTTTCAAGAGCTGTGGATGCTTTAAAATCTGATAAGAAAGTACGGACCATAATAGTCAGAAATGAAGTCCCGG
GGATATTCTGTGCTGGTGCTGATCTTAAGGAAAGAGCCAAAATGAGTTCCAGTGAAGTTGGTCCTTTTGTCTCCAAAATA
AGAGCAATGATTAATGAAATTGGGGGAACACAGCGACTGCCACGTGCCATTGGGATGTCCCTGGGGAAAGAGCTCATCTT
CTCTGCACGTGTGCTTGATGGCCAAGAAGCCAAGTCAGTGGGCTTGATCAGCCATGTTCTAGAACAGAACCAGGAGGGGG
ATGCTGCCTACAGAAAGGCCTTGGACCTAGCAAGAGAGTTTTTACCTCAGGGACCTGTTGCAATGACAGTGGCAAAATTA
GCAATTAATCAAGGAATGGAGGTCGATTTAGTAACAGGATTAGCCATAGAAGAAGCATGTTATGCTCAGACCATTCCAAC
AAAAGACAGACTTGAAGGTCTTCTTGCTTTTAAAGAGAAAAGGACCCCTCACTATAAAGGAGAATAG

Alignment

ORF - retro_btau_225 Open Reading Frame is conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 91.1 %
• Parental protein coverage: 90.68 %
• Number of stop codons detected: 0
• Number of frameshifts detected: 0

Retrocopy - Parental Gene Alignment:

Parental  MAVAASAAPGALGTLQASRARLVAACCARLGPRWRLPGSWTCPRVDSTIWARGWTPAAGGAAWQRGYSAE
          MAVAASAAPGALGTLQASRARLVAACC.RLG.R.RLPGSWTCPRVDST.WARGWTPAAG.AAWQRGYSAE
Retrocopy MAVAASAAPGALGTLQASRARLVAACCTRLGARCRLPGSWTCPRVDST-WARGWTPAAGKAAWQRGYSAE

Parental  VKTEDELRVRYLEEENRGIVVLGINRAYAKNSLSKNLIKMLSKAVDALKSDKKVRTIIVRSEVPGIFCAE
          VKTEDELRV.YLEEENRGIVVLGINRAYAKNSLSKNLIKMLS.AVDALKSDKKVRTIIVR.EVPGIFCA.
Retrocopy VKTEDELRVWYLEEENRGIVVLGINRAYAKNSLSKNLIKMLSRAVDALKSDKKVRTIIVRNEVPGIFCAG

Parental  TYCKRR
          ...K.R
Retrocopy ADLKER

Legend:

• *: Stop codon
• >: Forward frameshift by one nucleotide
• <: Reverse frameshift by one nucleotide

Expression

RNA-Seq

Expression validation based on RNA-Seq data:

Library	Retrocopy expression	Parental gene expression
ERP005899_liver	6.56 RPM	2.02 RPM
ERP005899_muscle	2.01 RPM	1.48 RPM
SRP017611_brain	4.43 RPM	5.25 RPM
SRP017611_kidney	8.59 RPM	8.71 RPM
SRP017611_liver	3.55 RPM	4.15 RPM
SRP030211_testis	1.87 RPM	3.20 RPM

ChIP-Seq

Bos taurus was not studied using ChIP-Seq data.

EST

No EST(s) were mapped for retro_btau_225 retrocopy.

TSS

Bos taurus was not studied using FANTOM5 data.

Lab

retro_btau_225 was not experimentally validated.

Homology

Retrocopy orthology:

Retrocopy retro_btau_225 has 0 orthologous retrocopies within eutheria group .

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Parental genes homology:

Parental genes homology involve 1 parental gene, and 1 retrocopy.

Species	Parental gene accession	Retrocopies number
Bos taurus	ENSBTAG00000047649	1 retrocopy	retro_btau_225 ,