RetrogeneDB ID: retro_btau_1797

Retrocopy location

• Organism: Cow (Bos taurus)
• Coordinates: X:10599371..10601653(-)
• Located in intron of: None

Retrocopy information

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

Parental gene information

• Parental gene symbol: PRKRIR
• Ensembl ID: ENSBTAG00000031609
• Aliases: None
• Description: 52 kDa repressor of the inhibitor of the protein kinase [Source:RefSeq peptide;Acc:NP_001179132]

Sequence

>retro_btau_1797
ATGCCGAACTTCTGCGCGGCCCCCAACTGCACGCGGAAGAGCACGCAGTCGGACCTGGCCTTCTTCAGGTTCCCGCGGGA
TCCGACCAGATGCCAGAAGTGGGTGGAGAACTGTAGGAGAGCAGACTTAGAAGATAAAACAGCTGATCAACTAAATAAAC
ATTATCGATTGTGTGCCAAACACTTTGAAACTTCTATGATCTGCAGAACTAGTCCTTACAGGACAGTTCTCCGAGATAAT
GCCATACCAACAATATTCGATCTTACCAGCCATTTGAATAATCCACATAGTAGACACAGAAAACGAATAAAAGAATTGAG
TGAAGATGAAATCAGGACACTGAAACAGAAAAAAATTGATGAAACTTCTGAACAGGAACCCAAACATAAGGAAATAAACA
ACAGCAATGCTCAGAGTCCCAGTGCAGAAGAAGCTGGTGAAGAGCAGGATGAAGACATTTTACCTTTAACTCTTGAAGAG
AAGGAAAACAAAGAATATTTAAAATCTTTATTTGAAATTCTGATTCTTATGGGAAAACAAAACATACCTCTGGATGGACA
TGAAACTGATGAAATCCCAGAAGGTCTTCCTGATAACTTTCAAGCACTGCTAGAGTGCCGGATCAATTCTGGTGAAGAGG
TTCTGAGAAAGCGCTTTGAGACAACAGCAGTTAACACATTGTTCTGTTCCAAAACACAGCAGAAACAGATGCTGGAGATC
TGTGAGAGCTGCATTCGGGAAGAAACCCTCAGGGAAGTGAGAGATTCTCACTTCTTTTCCATCATCACTGATGATGTGGT
GGACATAGCAGGGGAAGAGCACCTGCCGGTGTTGGTGAGGTTTGTTGACGAAGCTCACAACCTGATAGAGGAATTTGTAG
GCTTCCTGCCTTACGAAGCTGATGCAGAAATTTTGGCTGTGAAATTTCACACTACAATAACTGAGAAATGGGGATTAAAC
ATGGAGTACTGTCGTGGCCAGGCTTACATTGTATCTAGTGGATTTTCATCCAAAATGAAAGTTGTTGCTTCTAGACTTTT
AGAGAAATATCCCCAAGCTATCTACACACTCTGCTCTTCCTGTGCCTTAAATATGTGGTTGGCAAAACCAGTGCCTGTTA
TGGGAGTATCTGTTGCATTAGGAACAATTGAGGAAGTTTGTTCTTTTTTTCATCGATCACCACAACTGCTTTTAGAGCTT
GAAAATGTAATTTCTCTCCTCTTTCAGAACAATGAAGAAAGGGGCAAAGAACTGAAGGAAATTTGCCATTCTCAGTGGAC
AGGCAGGCATGATGATTTTGAAATCTTAGTGGACCTCCTACAACCACTTGTTTTATGTTTAGATGGCATAAATAGTGACA
CAAATGTTAGATGGAATAACTGTATAGCTGGCCGAGCATTTGTGCTCTGTAGTGCGGTAACAGATTTTGATTTCATCGTT
ACCATTGTCGTTCTTAAAAATGTTTTATATTTTACAAGAGCTTTTGGGAAAAATCTTCAGGGGCAAACCTCTGATGTCTT
TTTTTGCAGCCAGTAGCTTGACTGCAGTGTTACATTCACTAAATGAAGTTATGGAAAATATTGAAGTTTATCATGAATTT
TGGTTTGAGGAAGCCACAAATTTGGCAACCAAACTTGATATTCAGATGAAACTCCCAGGGAAATTTTGCAGAGCTCAGCA
CAGTAACCTGGAATCTCAGCTAACCTCTGAGAGTTACTATAAAGAAACTCTTAAGTGTTCCAACTGTGGAACACATTATT
CAGGAACTGAAAGATATATTCTCAGAACAGCACCTCAAAGTGCTTTAATGCTTATCCCTGGTACCCTCTGTCATGGGACA
GCTCAAATTCAATACATCAGAGGAGCACCATGCTGACATGTACCGAAGTGACTTACCTAATCCTGACACACTCTCTGCTG
AGCTGCATTGTTGGAGAATCAAATGGAAACACAGAGGGAAAGATATAGAACTTCCATCCACTATTTATGAAGCCCTTCAT
CTACCAGACATCAAGTTTTTTCCTAATGTTTATGCATTGCTGAAGGTCCTATGTATTCTTCCTGTGATGAAAGTTGAGAA
TGAACGCTATGAAAATGGGCGAAAGCATCTCAAAGCATACCTGAGGAACACTTTGACAGATCAAAGATCAAGTAACTTGG
CTTTGCTTAACATAAATTTTGATATAAAACACGATTTGGATTTAATGGTGGATACATATGTCAAACTGTATACAAGTAAG
TCAAAGCTTCATACAGATAATTCAGAAACCATTGAAAATACC

Alignment

ORF - retro_btau_1797 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 97.38 %
• Parental protein coverage: 100.0 %
• Number of stop codons detected: 1
• Number of frameshifts detected: 2

Retrocopy - Parental Gene Alignment:

Parental  MPNFCAAPNCTRKSTQSDLAFFRFPRDPTRCQKWVENCRRADLEDKTPDQLNKHYRLCAKHFETSMICRT
          MPNFCAAPNCTRKSTQSDLAFFRFPRDPTRCQKWVENCRRADLEDKT.DQLNKHYRLCAKHFETSMICRT
Retrocopy MPNFCAAPNCTRKSTQSDLAFFRFPRDPTRCQKWVENCRRADLEDKTADQLNKHYRLCAKHFETSMICRT

Parental  SPYRTVLRDNAIPTIFDLTSHLNNPHSRHRKRIKELSEDEIRTLKQKKIDETSEQEPKHKEINNSNAQNP
          SPYRTVLRDNAIPTIFDLTSHLNNPHSRHRKRIKELSEDEIRTLKQKKIDETSEQEPKHKEINNSNAQ.P
Retrocopy SPYRTVLRDNAIPTIFDLTSHLNNPHSRHRKRIKELSEDEIRTLKQKKIDETSEQEPKHKEINNSNAQSP

Parental  SAEEVGEEQDEDILPLTLEEKENKEYLKSLFEILILMGKQNIPLDGHETDEIPEGLFTPDNFQALLECRI
          SAEE.GEEQDEDILPLTLEEKENKEYLKSLFEILILMGKQNIPLDGHETDEIPEGL..PDNFQALLECRI
Retrocopy SAEEAGEEQDEDILPLTLEEKENKEYLKSLFEILILMGKQNIPLDGHETDEIPEGL--PDNFQALLECRI

Parental  NSGEEVLRKRFETTAVNTLFCSKTQQKQMLEICESCIREETLREVRDSHFFSIITDDVVDIAGEEHLPVL
          NSGEEVLRKRFETTAVNTLFCSKTQQKQMLEICESCIREETLREVRDSHFFSIITDDVVDIAGEEHLPVL
Retrocopy NSGEEVLRKRFETTAVNTLFCSKTQQKQMLEICESCIREETLREVRDSHFFSIITDDVVDIAGEEHLPVL

Parental  VRFVDEAHNLREEFVGFLPYEADAEILAVKFHTTITEKWGLNMEYCRGQAYVVSSGFSSKMKVVASRLLE
          VRFVDEAHNL.EEFVGFLPYEADAEILAVKFHTTITEKWGLNMEYCRGQAY.VSSGFSSKMKVVASRLLE
Retrocopy VRFVDEAHNLIEEFVGFLPYEADAEILAVKFHTTITEKWGLNMEYCRGQAYIVSSGFSSKMKVVASRLLE

Parental  KYPQAIYTLCSSCALNMWLAKSVPVMGVSVALGTIEEVCSFFHRSPQLLLELENVISLLFQNNEERGKEL
          KYPQAIYTLCSSCALNMWLAK.VPVMGVSVALGTIEEVCSFFHRSPQLLLELENVISLLFQNNEERGKEL
Retrocopy KYPQAIYTLCSSCALNMWLAKPVPVMGVSVALGTIEEVCSFFHRSPQLLLELENVISLLFQNNEERGKEL

Parental  KEICHSQWTGRHDAFEILVDLLQALVLCLDGINSDTNVRWNNCIAGRAFVLCSAVTDFDFIVTIVVLKNV
          KEICHSQWTGRHD.FEILVDLLQ.LVLCLDGINSDTNVRWNNCIAGRAFVLCSAVTDFDFIVTIVVLKNV
Retrocopy KEICHSQWTGRHDDFEILVDLLQPLVLCLDGINSDTNVRWNNCIAGRAFVLCSAVTDFDFIVTIVVLKNV

Parental  LSFTRAFGKNLQGQTSDV-FFAASSLTAVLHSLNEVMENIEVYHEFWFEEATNLATKLDIQMKLPGKFRR
          L.FTRAFGKNLQGQTSDV.FFAASSLTAVLHSLNEVMENIEVYHEFWFEEATNLATKLDIQMKLPGKF.R
Retrocopy LYFTRAFGKNLQGQTSDV>FFAASSLTAVLHSLNEVMENIEVYHEFWFEEATNLATKLDIQMKLPGKFCR

Parental  AQHSNLESQLTSESYYKET-LSVPTVEHIIQELKDIFSEQHLKALKCLSLVPSVMGQLKFNTSEEHHADM
          AQHSNLESQLTSESYYKET.LSVPTVEHIIQELKDIFSEQHLK.L.CLSLVPSVMGQLKFNTSEEHHADM
Retrocopy AQHSNLESQLTSESYYKET>LSVPTVEHIIQELKDIFSEQHLKVL*CLSLVPSVMGQLKFNTSEEHHADM

Parental  YRSDLPNPDTLSAELHCWRIKWKHRGKDIELPSTIYEALHLPDIKFFPNVYALLKVLCILPVMKVENERY
          YRSDLPNPDTLSAELHCWRIKWKHRGKDIELPSTIYEALHLPDIKFFPNVYALLKVLCILPVMKVENERY
Retrocopy YRSDLPNPDTLSAELHCWRIKWKHRGKDIELPSTIYEALHLPDIKFFPNVYALLKVLCILPVMKVENERY

Parental  ENGRKRLKAYLRNTLTDQRSSNLALLNINFDIKHDLDLMVDTYIKLYTSKSELPTDNSETIENT
          ENGRK.LKAYLRNTLTDQRSSNLALLNINFDIKHDLDLMVDTY.KLYTSKS.L.TDNSETIENT
Retrocopy ENGRKHLKAYLRNTLTDQRSSNLALLNINFDIKHDLDLMVDTYVKLYTSKSKLHTDNSETIENT

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	5.34 RPM
ERP005899_muscle	0.05 RPM	13.94 RPM
SRP017611_brain	0.18 RPM	6.17 RPM
SRP017611_kidney	0.12 RPM	6.82 RPM
SRP017611_liver	0.15 RPM	4.98 RPM
SRP030211_testis	0.08 RPM	13.16 RPM

ChIP-Seq

Bos taurus was not studied using ChIP-Seq data.

EST

No EST(s) were mapped for retro_btau_1797 retrocopy.

TSS

Bos taurus was not studied using FANTOM5 data.

Lab

retro_btau_1797 was not experimentally validated.

Homology

Retrocopy orthology:

Retrocopy retro_btau_1797 has 0 orthologous retrocopies within eutheria group .

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Parental genes homology:

Parental genes homology involve 8 parental genes, and 9 retrocopies.

Species	Parental gene accession	Retrocopies number
Anolis carolinensis	ENSACAG00000024488	1 retrocopy	retro_acar_167,
Bos taurus	ENSBTAG00000031609	2 retrocopies	retro_btau_1797 , retro_btau_780,
Canis familiaris	ENSCAFG00000005274	1 retrocopy	retro_cfam_663,
Equus caballus	ENSECAG00000021982	1 retrocopy	retro_ecab_150,
Homo sapiens	ENSG00000137492	1 retrocopy	retro_hsap_4080,
Mustela putorius furo	ENSMPUG00000008784	1 retrocopy	retro_mputfur_1571,
Pan troglodytes	ENSPTRG00000004091	1 retrocopy	retro_ptro_2766,
Tursiops truncatus	ENSTTRG00000013287	1 retrocopy	retro_ttru_126,