RetrogeneDB ID: retro_btau_591

Retrocopy location

• Organism: Cow (Bos taurus)
• Coordinates: 15:25313618..25314098(-)
• Located in intron of: None

Retrocopy information

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

Parental gene information

• Parental gene symbol: MPHOSPH6
• Ensembl ID: ENSBTAG00000009746
• Aliases: None
• Description: M-phase phosphoprotein 6 [Source:RefSeq peptide;Acc:NP_001069032]

Sequence

>retro_btau_591
ATGGCAGCCGAGCGCAAAACTAAGTTGTCCAAGAACTTGCCGCGCGTGAAGTTCATGCAAAGGGGACTGGACTCGGAAAC
CAAGAAACAACTAGAAGAGGAAGAAAAGAAAATCATTAGTGAAGAGCACTAGTACTTGGATTTGCCTGAGCTGAAAGAGA
AAGAGAGTTTCATTATAGAAGAGCAGAGTTTCTTGTTGTGTGAAGATCTTCTCTATGGAAGAACGTCATTCAGAGGATTT
AATCCTGAGGTTGAGAAATTAATGCTTCAGATGAACACCAAGAACAAAGCAGAAGAAGTTAAAGAGCAAACAGTGGAGCC
CGATGTGTCAGATGAAGAAATGGCTAGAAGATATGAGACCTTGGTGGGGACAATTGGGAAAAAGTTTGCTAAGAAAAGAG
ACCTTGCCATTTACGAAGAAGATGAAAATGGAGACATAAAACCAGTTAAAGCAAAGAAGATGTTCTTAAAGCCCCAAGAT

Alignment

ORF - retro_btau_591 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 95.62 %
• Parental protein coverage: 100. %
• Number of stop codons detected: 1
• Number of frameshifts detected: 0

Retrocopy - Parental Gene Alignment:

Parental  MAAERKTKLSKNLLRMKFMQRGLDSETKKQLEEEEKKIISEEHWYLDLPELKEKESFIIEEQSFLLCEDL
          MAAERKTKLSKNL.R.KFMQRGLDSETKKQLEEEEKKIISEEH.YLDLPELKEKESFIIEEQSFLLCEDL
Retrocopy MAAERKTKLSKNLPRVKFMQRGLDSETKKQLEEEEKKIISEEH*YLDLPELKEKESFIIEEQSFLLCEDL

Parental  LYGRMSFRGFNPEVEKLMLQMNTKNKAEEVEEQTVELDVSDEEMARRYETLVGTIGKKFAKKRDRAIYEE
          LYGR.SFRGFNPEVEKLMLQMNTKNKAEEV.EQTVE.DVSDEEMARRYETLVGTIGKKFAKKRD.AIYEE
Retrocopy LYGRTSFRGFNPEVEKLMLQMNTKNKAEEVKEQTVEPDVSDEEMARRYETLVGTIGKKFAKKRDLAIYEE

Parental  DENGDIKPVKAKKMFLKPQD
          DENGDIKPVKAKKMFLKPQD
Retrocopy DENGDIKPVKAKKMFLKPQD

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	6.78 RPM
ERP005899_muscle	0.11 RPM	10.45 RPM
SRP017611_brain	0.00 RPM	12.88 RPM
SRP017611_kidney	0.06 RPM	13.34 RPM
SRP017611_liver	0.08 RPM	4.08 RPM
SRP030211_testis	0.03 RPM	22.37 RPM

ChIP-Seq

Bos taurus was not studied using ChIP-Seq data.

EST

No EST(s) were mapped for retro_btau_591 retrocopy.

TSS

Bos taurus was not studied using FANTOM5 data.

Lab

retro_btau_591 was not experimentally validated.

Homology

Retrocopy orthology:

Retrocopy retro_btau_591 has 0 orthologous retrocopies within eutheria group .

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Parental genes homology:

Parental genes homology involve 9 parental genes, and 28 retrocopies.

Species	Parental gene accession	Retrocopies number
Bos taurus	ENSBTAG00000009746	1 retrocopy	retro_btau_591 ,
Echinops telfairi	ENSETEG00000010276	6 retrocopies	retro_etel_1269, retro_etel_1300, retro_etel_1307, retro_etel_749, retro_etel_795, retro_etel_855,
Macropus eugenii	ENSMEUG00000000580	1 retrocopy	retro_meug_726,
Myotis lucifugus	ENSMLUG00000000268	1 retrocopy	retro_mluc_78,
Mus musculus	ENSMUSG00000031843	2 retrocopies	retro_mmus_1998, retro_mmus_3662,
Oryctolagus cuniculus	ENSOCUG00000024341	2 retrocopies	retro_ocun_1042, retro_ocun_749,
Rattus norvegicus	ENSRNOG00000050087	6 retrocopies	retro_rnor_1760, retro_rnor_2298, retro_rnor_2318, retro_rnor_2320, retro_rnor_2390, retro_rnor_2391,
Ictidomys tridecemlineatus	ENSSTOG00000019608	1 retrocopy	retro_itri_1186,
Tupaia belangeri	ENSTBEG00000013110	8 retrocopies	retro_tbel_1037, retro_tbel_1812, retro_tbel_3027, retro_tbel_32, retro_tbel_333, retro_tbel_4213, retro_tbel_4385, retro_tbel_4415,