RetrogeneDB ID: retro_btau_480

Retrocopy location

• Organism: Cow (Bos taurus)
• Coordinates: 12:83054348..83055380(+)
• Located in intron of: ENSBTAG00000014043

Retrocopy information

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

Parental gene information

• Parental gene symbol: BT.105466
• Ensembl ID: ENSBTAG00000032234
• Aliases: STK24, MST3B
• Description: serine/threonine-protein kinase 24 [Source:RefSeq peptide;Acc:NP_001093420]

Sequence

>retro_btau_480
ATGCAGGACACTAAATTGTGGATAATAATGGAATATCTTGGCGGGGGCTCTGCACTGGACCTCTTAGAACCTGGCCCTTT
AGATGAAACCCAGATTGCTACTATATTAAGAGAAATACTGAAAGGACTTGATTATTTGCATTCGGAGAAGAAAATTCACA
GAGATATTAAAGCTGCCAACGTCCTGCTCTCTGAACACGGGGAGGTGAAGCTGGCGGACTTTGGAGTGGCGGGCCAGCTG
ACAGACACCCAGATAAAGAGAAACACCTTTGTGGGCACCCCTTTCTGGATGGCGCCTGAAGTCATCAAGCTGTCAGCCTA
CGACTCAAAGGCGGACATCTGGTCCCTGGGCATCACGGCCATCGAGCTTGCCAAGGGGGAGCCGCCGCATTCCGAGCTGC
ATCCCATGAAGGTCCTGTTCCTTATCCCAAAGAACAACCCCTCGACGCTGGAAGGGAACTACAGCAAACCCCTCAAGGAG
TTCGTGGAGGCCTGTTTGAACAAGGAGCCGAGCTTTAGACCCACCGCTAAGGAGTTACTGAAGCACAAGTTCATAATCCG
CAACGCAAAGAACACATCCTACTTGACCGAGCTCATCGACAGGTACAAGAGGTGGAAGGCCGAGCAGAGCCACGAAGACT
CCAGCTCGGAAGACTCCGACACGGAGACGGACACAGACGGCCAGGCTTCCGGAGGCAGCAACTCGGGGGACTGGATCTTC
ACGATCCGGGAGAAGGATCCAAAGAGTCTGGAGAACGGAGCTCTCCAGCCGTCGGATCTGGAAAGAAACAAGATGAAAGA
CATCCCAAAGAGGCCTTTCTCCCAGTGTTTATCTACAATTATTTCTCCGCTCTTTGCAGAGCTGAAGGAGAAGAGCCAGG
CGTGTGGAGGAAACCTGGGCTCCATCGAGGAGCTGCGCAGGGCCATCTACCTGGCGGAGGAGGCCTGCCCCGGCATCTCT
GACACCATGGTAGCCCAGCTGGTGCAGCGGCTGCAGAGATATTCTCTAAGTGGTGGAGGAACTTCATCCCAT

Alignment

ORF - retro_btau_480 Open Reading Frame is conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 97.97 %
• Parental protein coverage: 81.32 %
• Number of stop codons detected: 0
• Number of frameshifts detected: 0

Retrocopy - Parental Gene Alignment:

Parental  LKDTKLWIIMEYLGGGSALDLLEPGPLDETQIATILREILKGLDYLHSEKKIHRDIKAANVLLSEHGEVK
          ..DTKLWIIMEYLGGGSALDLLEPGPLDETQIATILREILKGLDYLHSEKKIHRDIKAANVLLSEHGEVK
Retrocopy MQDTKLWIIMEYLGGGSALDLLEPGPLDETQIATILREILKGLDYLHSEKKIHRDIKAANVLLSEHGEVK

Parental  LADFGVAGQLTDTQIKRNTFVGTPFWMAPEVIKQSAYDSKADIWSLGITAIELAKGEPPHSELHPMKVLF
          LADFGVAGQLTDTQIKRNTFVGTPFWMAPEVIK.SAYDSKADIWSLGITAIELAKGEPPHSELHPMKVLF
Retrocopy LADFGVAGQLTDTQIKRNTFVGTPFWMAPEVIKLSAYDSKADIWSLGITAIELAKGEPPHSELHPMKVLF

Parental  LIPKNNPPTLEGNYSKPLKEFVEACLNKEPSFRPTAKELLKHKFIIRNAKKTSYLTELIDRYKRWKAEQS
          LIPKNNP.TLEGNYSKPLKEFVEACLNKEPSFRPTAKELLKHKFIIRNAK.TSYLTELIDRYKRWKAEQS
Retrocopy LIPKNNPSTLEGNYSKPLKEFVEACLNKEPSFRPTAKELLKHKFIIRNAKNTSYLTELIDRYKRWKAEQS

Parental  HEDSSSEDSDTETDTDGQASGGSDSGDWIFTIREKDPKSLENGALQPSDLERNKMKDIPKRPFSQCLSTI
          HEDSSSEDSDTETDTDGQASGGS.SGDWIFTIREKDPKSLENGALQPSDLERNKMKDIPKRPFSQCLSTI
Retrocopy HEDSSSEDSDTETDTDGQASGGSNSGDWIFTIREKDPKSLENGALQPSDLERNKMKDIPKRPFSQCLSTI

Parental  ISPLFAELKEKSQACGGNLGSIEELRGAIYLAEEACPGISDTMVAQLVQRLQRYSLSGGGTSSH
          ISPLFAELKEKSQACGGNLGSIEELR.AIYLAEEACPGISDTMVAQLVQRLQRYSLSGGGTSSH
Retrocopy ISPLFAELKEKSQACGGNLGSIEELRRAIYLAEEACPGISDTMVAQLVQRLQRYSLSGGGTSSH

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	0.07 RPM	4.18 RPM
ERP005899_muscle	0.63 RPM	44.18 RPM
SRP017611_brain	0.82 RPM	19.60 RPM
SRP017611_kidney	0.36 RPM	33.96 RPM
SRP017611_liver	0.08 RPM	6.12 RPM
SRP030211_testis	1.23 RPM	31.86 RPM

ChIP-Seq

Bos taurus was not studied using ChIP-Seq data.

EST

No EST(s) were mapped for retro_btau_480 retrocopy.

TSS

Bos taurus was not studied using FANTOM5 data.

Lab

retro_btau_480 was not experimentally validated.

Homology

Retrocopy orthology:

Retrocopy retro_btau_480 has 0 orthologous retrocopies within eutheria group .

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Parental genes homology:

Parental genes homology involve 2 parental genes, and 2 retrocopies.

Species	Parental gene accession	Retrocopies number
Bos taurus	ENSBTAG00000032234	1 retrocopy	retro_btau_480 ,
Rattus norvegicus	ENSRNOG00000011511	1 retrocopy	retro_rnor_510,