RetrogeneDB ID: retro_btau_718

Retrocopy location

• Organism: Cow (Bos taurus)
• Coordinates: 18:30157969..30158278(-)
• Located in intron of: None

Retrocopy information

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

Parental gene information

• Parental gene symbol: BLVRB
• Ensembl ID: ENSBTAG00000010508
• Aliases: None
• Description: Flavin reductase (NADPH) [Source:UniProtKB/Swiss-Prot;Acc:P52556]

Sequence

>retro_btau_718
ATGGCTGTTAAGAAGATTGCCCTCTTTGGCGCCATGGGAGGACCAGGCTCACCACCTGGTCAGGCGATGCAGGTAGGCTC
TGAGATGATAGTGCTGGTGTGGAACACCTCCTCCAGGCTGCCTGCAGAGGGTCCCAGCCAGCCCACGTGATAGAGGGTGA
TGTCCAGCAGGTGGCTGACATGACTAGACTGAGGCTGGAAAGAACGCCATCATCACGCTGCTGGGCACCAGCAGTGATCT
CGGTCCTCCCACAGTGATATCTGAGGGTGCCTGGAACATTGTGGGGCCATAAGGGCCCATGACATGGAC

Alignment

ORF - retro_btau_718 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 59.26 %
• Parental protein coverage: 50.49 %
• Number of stop codons detected: 1
• Number of frameshifts detected: 3

Retrocopy - Parental Gene Alignment:

Parental  MVVKKIALFGATGNTGLTTLAQAVQAGYEVTVLV-RDPSRLPSEGP-QPAHVVVGDVRQPADV-DKTVAG
          M.VKKIALFGA.G..G.....QA.Q.G.E..VLV....SRLP.EGP.QPAHV..GDV.Q.AD..D.T.AG
Retrocopy MAVKKIALFGAMGGPG-SPPGQAMQVGSEMIVLVWNTSSRLPAEGP<QPAHVIEGDVQQVADM<D*TEAG

Parental  QDAVIVLLGTRNDLSPTTVMSEGAQNIV-AAMKAHGVD
          ..A.I.LLGT..DL.P.TV.SEGA.NIV..A..AH..D
Retrocopy KNAIITLLGTSSDLGPPTVISEGAWNIV<GAIRAHDMD

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	13.77 RPM
ERP005899_muscle	0.00 RPM	51.52 RPM
SRP017611_brain	0.00 RPM	9.46 RPM
SRP017611_kidney	0.00 RPM	27.21 RPM
SRP017611_liver	0.00 RPM	38.96 RPM
SRP030211_testis	0.03 RPM	3.70 RPM

ChIP-Seq

Bos taurus was not studied using ChIP-Seq data.

EST

No EST(s) were mapped for retro_btau_718 retrocopy.

TSS

Bos taurus was not studied using FANTOM5 data.

Lab

retro_btau_718 was not experimentally validated.

Homology

Retrocopy orthology:

Retrocopy retro_btau_718 has 0 orthologous retrocopies within eutheria group .

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Parental genes homology:

Parental genes homology involve 4 parental genes, and 6 retrocopies.

Species	Parental gene accession	Retrocopies number
Bos taurus	ENSBTAG00000010508	2 retrocopies	retro_btau_289, retro_btau_718 ,
Rattus norvegicus	ENSRNOG00000024410	1 retrocopy	retro_rnor_1341,
Ictidomys tridecemlineatus	ENSSTOG00000002958	1 retrocopy	retro_itri_1079,
Tupaia belangeri	ENSTBEG00000015357	2 retrocopies	retro_tbel_2799, retro_tbel_4031,