RetrogeneDB ID: retro_btau_79

Retrocopy location

• Organism: Cow (Bos taurus)
• Coordinates: 11:47884973..47885885(+)
• Located in intron of: None

Retrocopy information

• Ensembl ID: ENSBTAG00000002545
• Aliases: None
• Status: KNOWN_PROTEIN_CODING

Parental gene information

• Parental gene symbol: TBPL2
• Ensembl ID: ENSBTAG00000018277
• Aliases: None
• Description: None

Sequence

>retro_btau_79
ATGGATCGGAATGATAGCCTCTCTCCGTTTGACCAGTATCTGGCCTCCCCTCAAGGTGCCATGAGTCCTGGAATCCCTGT
CTTCAGTCCAGTGATGCATTATGGCACAGGACTGACTCCGCAGCCAATTCAGAGCACCGACAGTCTGTCTACTTCAGAGG
AGGAGCAGCAGCAGCAGACGACGGTGAGAACAGGTCGGCTTTCGACGACATCCCAGGAGGCAACCCAGGAGGCCTTGGAC
CAGACACCACAGCTCTTCGACTCACAGCCTCTTACGACCGCACCCTTGCTGGGTACCACTCCCCTGTATCCATCCCCCAT
GACCCCCATGATCCCCATGACCCCTGCCATGCCAGCCTCAGAGATCGCTGAGTTGGTGCCACAGCTGCACAATGTTGTAT
GCACAGTGAATCTTGGTTGTAAACTTGACCTAAAGAGCATCGCCCTTCTTGCTCGAAATGCTGAATATAATCCCAAGAGG
TTTGCTGCTGTAATCATGAGAATAAGAGAGCCCCGAACCACTGCACTTTTATTCAGTTCTGGGAAGATGGTGTGCACAGG
AGGCAAGAGTGAAGAACAGTCCAGGCTAGCAGCAAGAAAATATGCCAGAATCATACAGAAGTTGGGTTTTCCAGCTAAGT
TCTTGGACTTCAAGATTCAGAATATGGTGGGGAGCTGTGATGTGAAGTTCCCCATAAGGTTAGAACCCCTTGTGCTTAGC
CACCAACAGTTCGCTAGTTATGAGCCAGAGTTATTTCCTGGTTTAGTCTACAGAATGATCAAACCGAGAATTGTTCTCCT
TATCTTTGTCTCTGGAAAAGTTGTGTTAACAGGTGCTAAAGTCAGAAGTGAAATTTATGAAGCCTTTAATAACATCTACT
CTATTCTAAAGGGTTTCAGGAAGACATCGTAA

Alignment

ORF - retro_btau_79 Open Reading Frame is conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 80.61 %
• Parental protein coverage: 51.99 %
• Number of stop codons detected: 0
• Number of frameshifts detected: 0

Retrocopy - Parental Gene Alignment:

Parental  PLASITPMTPMAPISECSGIVPQLQNIVSTVNLACKLDLKKIALHAKNAEYNPKRFAAVIMRIREPRTTA
          P.....PMTP..P.SE....VPQL.N.V.TVNL.CKLDLK.IAL.A.NAEYNPKRFAAVIMRIREPRTTA
Retrocopy PMTPMIPMTPAMPASEIAELVPQLHNVVCTVNLGCKLDLKSIALLARNAEYNPKRFAAVIMRIREPRTTA

Parental  LIFSSGKMVCTGAKSEEQSRLAARKYARVVQKLGFPARFLDFTIQNMVASCDVRFPISLEGLVLTHQQFS
          L.FSSGKMVCTG.KSEEQSRLAARKYAR..QKLGFPA.FLDF.IQNMV.SCDV.FPI.LE.LVL.HQQF.
Retrocopy LLFSSGKMVCTGGKSEEQSRLAARKYARIIQKLGFPAKFLDFKIQNMVGSCDVKFPIRLEPLVLSHQQFA

Parental  SYEPELFPGLIYRMVKPRIVLLIFVSGKVVLTGAKKRSDIYEAFENIYPILKGFKK
          SYEPELFPGL.YRM.KPRIVLLIFVSGKVVLTGAK.RS.IYEAF.NIY.ILKGF.K
Retrocopy SYEPELFPGLVYRMIKPRIVLLIFVSGKVVLTGAKVRSEIYEAFNNIYSILKGFRK

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	0.00 RPM
ERP005899_muscle	0.00 RPM	0.00 RPM
SRP017611_brain	0.00 RPM	0.00 RPM
SRP017611_kidney	0.12 RPM	0.00 RPM
SRP017611_liver	0.00 RPM	0.00 RPM
SRP030211_testis	0.01 RPM	0.02 RPM

ChIP-Seq

Bos taurus was not studied using ChIP-Seq data.

EST

No EST(s) were mapped for retro_btau_79 retrocopy.

TSS

Bos taurus was not studied using FANTOM5 data.

Lab

retro_btau_79 was not experimentally validated.

Homology

Retrocopy orthology:

Retrocopy retro_btau_79 has 0 orthologous retrocopies within eutheria group .

---

Parental genes homology:

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

Species	Parental gene accession	Retrocopies number
Bos taurus	ENSBTAG00000018277	1 retrocopy	retro_btau_79 ,