RetrogeneDB ID: retro_btau_826

Retrocopy location

• Organism: Cow (Bos taurus)
• Coordinates: 2:75188673..75189243(+)
• Located in intron of: None

Retrocopy information

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

Parental gene information

• Parental gene symbol: C2H2ORF33
• Ensembl ID: ENSBTAG00000021319
• Aliases: MFF, C2H2orf33, C2orf33
• Description: Mitochondrial fission factor [Source:UniProtKB/Swiss-Prot;Acc:Q3ZCD8]

Sequence

>retro_btau_826
GAAAAATTAAAGGTGGCACAACCAAATGCTGACCTGTAACAAGGATTCCAAGAAGGAGTTTCAAATACTAGTGTGATTAT
GCAGGTTCCAGAGAGAATTGTGGTAGAGGAAATAATGAAAACATTCCATTTTGAAGACCAGTAGATCTTGACCTTATACA
GTCAAATCCCTTTAAACCTCTGGCACTAAAAACACCGTCTCATGTGCTTATGCTAAATGAAAGACCACCAAATTTTCTGG
ATTAGAAACACCTCCTCCAGCCCCTCAAAGTCAAGAAATCCATGCAGTTGACAGGATAAAAAGGAGCACTCTGTGAGTGA
AAATGCTGTTTGCAAAAACGGACAGCTGGTCAGAACTGACTCCATGTATGGCATTTCAAATATACAGGCAATGACTGAAG
GAACTTCAGAAGACATGACAGTTGTAGATGGAGCTTAATTAAGATGACAGATAATCAAACTAAATAGATGTCTACAACTT
CTTGAAGAGGAGAACAAAGATTGTGCTAAAAGAGAAATGGTCATATATTCAATTACTATATCATTCTGGCTGCCTAATAG
CTGGCTCTGG

Alignment

ORF - retro_btau_826 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 78.35 %
• Parental protein coverage: 87.61 %
• Number of stop codons detected: 4
• Number of frameshifts detected: 3

Retrocopy - Parental Gene Alignment:

Parental  EKLKVAPPNADLEQGFQEGVSNASVIMQVPERIVVA-GNNEDIPFSRPADLDLIQSTPFKPLALKTPPRV
          EKLKVA.PNADL.QGFQEGVSN.SVIMQVPERIVV..GNNE.IPF.RP.DLDLIQS.PFKPLALKTP..V
Retrocopy EKLKVAQPNADL*QGFQEGVSNTSVIMQVPERIVVE<GNNENIPF*RPVDLDLIQSNPFKPLALKTPSHV

Parental  LTLSERPLDFLD-LERPAPTPQNEEIRAVGRLKR-ERSMSENAVRQNGQLVKTDSMYGISNIDAMIEGTS
          L.L.ERP..FLD.LE.P.P.PQ..EI.AV.R.KR.E.S.SENAV..NGQLV.TDSMYGISNI.AM.EGTS
Retrocopy LMLNERPPNFLD<LETPPPAPQSQEIHAVDRIKR<EHSVSENAVCKNGQLVRTDSMYGISNIQAMTEGTS

Parental  EDMTVVDAASLRRQIIKLNRRLQLLEEENKERAKREMVMYSITVAFWLLNSWLW
          EDMTVVD.A.LR.QIIKLNR.LQLLEEENK..AKREMV.YSIT..FWL.NSWLW
Retrocopy EDMTVVDGA*LR*QIIKLNRCLQLLEEENKDCAKREMVIYSITISFWLPNSWLW

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	0.00 RPM	40.45 RPM
ERP005899_muscle	0.00 RPM	57.54 RPM
SRP017611_brain	0.00 RPM	54.08 RPM
SRP017611_kidney	0.00 RPM	47.18 RPM
SRP017611_liver	0.00 RPM	31.79 RPM
SRP030211_testis	0.00 RPM	244.16 RPM

ChIP-Seq

Bos taurus was not studied using ChIP-Seq data.

EST

No EST(s) were mapped for retro_btau_826 retrocopy.

TSS

Bos taurus was not studied using FANTOM5 data.

Lab

retro_btau_826 was not experimentally validated.

Homology

Retrocopy orthology:

Retrocopy retro_btau_826 has 0 orthologous retrocopies within eutheria group .

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Parental genes homology:

Parental genes homology involve 6 parental genes, and 8 retrocopies.

Species	Parental gene accession	Retrocopies number
Bos taurus	ENSBTAG00000021319	2 retrocopies	retro_btau_1233, retro_btau_826 ,
Callithrix jacchus	ENSCJAG00000012973	1 retrocopy	retro_cjac_4058,
Cavia porcellus	ENSCPOG00000011881	1 retrocopy	retro_cpor_803,
Homo sapiens	ENSG00000168958	2 retrocopies	retro_hsap_3391, retro_hsap_347,
Microcebus murinus	ENSMICG00000013200	1 retrocopy	retro_mmur_1002,
Nomascus leucogenys	ENSNLEG00000013420	1 retrocopy	retro_nleu_1706,