RetrogeneDB ID: retro_btau_1751

Retrocopy location

• Organism: Cow (Bos taurus)
• Coordinates: X:80536234..80538215(+)
• Located in intron of: None

Retrocopy information

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

Parental gene information

• Parental gene symbol: BT.81994
• Ensembl ID: ENSBTAG00000034255
• Aliases: None
• Description: None

Sequence

>retro_btau_1751
AGTGAAGGTGAAGATGATGATGAAAAGGTGTCAGATGAGAAGGACGCTCGGAAAACATTGGATAAAAAGCCAAGCAAAGA
CGTGAGCTCAGAATCTGAGGATGACTCTGACGACGATCGAACTAAAGAAGAACGGGCTTATGACAAAGCAAAACCGAGGA
TTGAGAAACGGTGACTTGAACACAGTAAAAATATAAATACAGAGAAGCTAAGAGCTCCTGTTATTTGTGTACTTGGACAT
GTGGATACAGGGAAGACAAAAATTCTAGATAAGCTCCGTCACACACATGTACAAGATGGTGAAGCAGGTGGTATCACACA
GCAAATTGGTGCCACCAATGTCCCTCTTGAAGCTATTAATGAACAAACTAAGATGATTAAAAATTTTGATCGAGAGAACA
TACGGATTCCAGGAATGCTGATTATTGACACTCCGGGGCATGAGTCTTTCAGTAATCTGAGAAACAGAGGAAGCTCTCTT
TGTGACATTGCCATTTTAGTTGTTGATATTATGCATGGTTTGGAGCCCCAGACAATTGAATCTATCAACCTTTTGAAATC
TAAAAAATGTCCCTTCATTGTTGCCCTCAATAAGATTGATAGGTTGTATGATTGGAAAAAGAGCCCTGACTGACGTGGCC
GCTACTCTGAAGAAGCAGAAGAAGAACACCAGAGATGAATTTGAGGAGCGGGCCAAGGCGATCATTGTGGAATTTGCACA
GCAGGGGCTGAATGCAGCTTTGTTCTATGAGAATAAGGATCCCCGCACTTTTGTGTCCTTGGTACCTACCTCTGCACACA
CTGGCGATGGCATGGGAAGTCTGATCTGCCTTCTTGTTGAGTTGACTCAGACCATGTTGAGTAAGAGGCTTGCCCAGTGT
GAGGAGCTGAGAGCCCAGGTGATGGAGGTTAAGGCTCTCCCGGGAATGGGCACGACTATTGATGTAATACTGATCAACGG
GCGTCTGAAGGAAGGAGACATGATTATTGTTCCCGGAGTAGAAGGGCCTATCGTCACGCAGATCCGAGGCCTCCTGTTAC
CTCCCCCTATGAAGGAGTTAAGAGTGAAGAACCAATATGAGAAGCATAAAGAGGTAGAAGCAGCTCAGGGGGTAAAGATT
CTTGGAAAGGACCTGGAAAAAACATTGGCTGGTTTATCCCTCCTCGTAGCTTATAAAGAAGATGAAGTCCCAGTTCTTAA
AGATGAGCTGATCCACGAGTTAAAGCAGACACTGAACGCTATCAAATTAGAAGAGAAAGGCGTCTACGTCCAGGCCTCGA
CCCTGGGATCTCTGGAAGCTCTCCTTGAATTTCTGAAGACATCAGAAGTGCCCTACGCAGGGATCAACATTGGGCCCGTC
CACAAAAAAGACGTCATGAAGGCTTCGGTGATGCTGGAACACGACCCTCAGTATGCAGTGATTTTGGCCTTTGATGTGAG
AATTGAACGGGATGCCCAAGAAATGGCTGATAGTTTAGGAGTTAGAATTTTTAGTGCAGAAATTATTTATCATTTATTTG
ATGCCTTTACGAAATACAGACAAGACTACAAGAAACAGAAACAAGAAGAATTTAAGCACATAGCAGTATTCCCCTGCAAG
ATAAAGATCCTCCCTCAGTTTATCTTCAATTCTCGGGATCCGATAGTGATGGGCGTGACTGTGGAAGCAGGGCAGGTGAA
GCAGGGGACACCCATGTGCGTGCCCAGCAAAAATTTTGTTGACATTGGAATAGTAACAAGTATTGAAGTAAACCATAAAC
AAGTGGATGTTGCGAAAAAAGGACAAGAAGTCTGTGTCAAAATAGAACCCATCCCAGGTGAATCTCCCAAAATGTATGGA
CGCCATTTTGAAGCTACAGACATTCTCGTCAGTAAGATCAGCCGGCAGTCCATCGATGCTCTCAAAGACTGGTTCAGAGA
CGAGATGCAGAAGAGTGACTGGCAGCTTATTGTGGAGCTGAAGAAAGTGTTTGAAATCATC

Alignment

ORF - retro_btau_1751 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 97.43 %
• Parental protein coverage: 54.18 %
• Number of stop codons detected: 1
• Number of frameshifts detected: 1

Retrocopy - Parental Gene Alignment:

Parental  SEGEDDDEKVSDEKDAGKTLDKKPSKDVSSESEDDSDDDRTKEERAYDKAKRRIEKRRLEHSKNVNTEKL
          SEGEDDDEKVSDEKDA.KTLDKKPSKDVSSESEDDSDDDRTKEERAYDKAK.RIEKR.LEHSKN.NTEKL
Retrocopy SEGEDDDEKVSDEKDARKTLDKKPSKDVSSESEDDSDDDRTKEERAYDKAKPRIEKR*LEHSKNINTEKL

Parental  RAPVICVLGHVDTGKTKILDKLRHTHVQDGEAGGITQQIGATNVPLEAINEQTKMIKNFDRENVRIPGML
          RAPVICVLGHVDTGKTKILDKLRHTHVQDGEAGGITQQIGATNVPLEAINEQTKMIKNFDREN.RIPGML
Retrocopy RAPVICVLGHVDTGKTKILDKLRHTHVQDGEAGGITQQIGATNVPLEAINEQTKMIKNFDRENIRIPGML

Parental  IIDTPGHESFSNLRNRGSSLCDIAILVVDIMHGLEPQTIESINLLKSKKCPFIVALNKIDRLYDWKKSPD
          IIDTPGHESFSNLRNRGSSLCDIAILVVDIMHGLEPQTIESINLLKSKKCPFIVALNKIDRLYDWKKSPD
Retrocopy IIDTPGHESFSNLRNRGSSLCDIAILVVDIMHGLEPQTIESINLLKSKKCPFIVALNKIDRLYDWKKSPD

Parental  -SDVAATLKKQKKNTRDEFEERAKAIIVEFAQQGLNAALFYENKDPRTFVSLVPTSAHTGDGMGSLICLL
          ....A...K..K.NTRDEFEERAKAIIVEFAQQGLNAALFYENKDPRTFVSLVPTSAHTGDGMGSLICLL
Retrocopy >DVAATLKKQKK-NTRDEFEERAKAIIVEFAQQGLNAALFYENKDPRTFVSLVPTSAHTGDGMGSLICLL

Parental  VELTQTMLSKRLAQCEELRAQVMEVKALPGMGTTIDVILINGRLKEGDTIIVPGVEGPIVTQIRGLLLPP
          VELTQTMLSKRLAQCEELRAQVMEVKALPGMGTTIDVILINGRLKEGD.IIVPGVEGPIVTQIRGLLLPP
Retrocopy VELTQTMLSKRLAQCEELRAQVMEVKALPGMGTTIDVILINGRLKEGDMIIVPGVEGPIVTQIRGLLLPP

Parental  PMKELRVKNQYEKHKEVEAAQGVKILGKDLEKTLAGLPLLVAYKEDEVPVLKDELIHELKQTLNAIKLEE
          PMKELRVKNQYEKHKEVEAAQGVKILGKDLEKTLAGL.LLVAYKEDEVPVLKDELIHELKQTLNAIKLEE
Retrocopy PMKELRVKNQYEKHKEVEAAQGVKILGKDLEKTLAGLSLLVAYKEDEVPVLKDELIHELKQTLNAIKLEE

Parental  KGVYVQASTLGSLEALLEFLKTSEVPYAGINIGPVHKKDVMKASVMLEHDPQYAVILAFDVRIERDAQEM
          KGVYVQASTLGSLEALLEFLKTSEVPYAGINIGPVHKKDVMKASVMLEHDPQYAVILAFDVRIERDAQEM
Retrocopy KGVYVQASTLGSLEALLEFLKTSEVPYAGINIGPVHKKDVMKASVMLEHDPQYAVILAFDVRIERDAQEM

Parental  ADSLGVRIFSAEIIYHLFDAFTKYRQDYKKQKQEEFKHIAVFPCKIKILPQFIFNSRDPIVMGVTVEAGQ
          ADSLGVRIFSAEIIYHLFDAFTKYRQDYKKQKQEEFKHIAVFPCKIKILPQFIFNSRDPIVMGVTVEAGQ
Retrocopy ADSLGVRIFSAEIIYHLFDAFTKYRQDYKKQKQEEFKHIAVFPCKIKILPQFIFNSRDPIVMGVTVEAGQ

Parental  VKQGTPMCVPSKNFVDIGIVTSIEVNHKQVDVAKKGQEVCVKIEPIPGESPKMYGRHFEATDILVSKISR
          VKQGTPMCVPSKNFVDIGIVTSIEVNHKQVDVAKKGQEVCVKIEPIPGESPKMYGRHFEATDILVSKISR
Retrocopy VKQGTPMCVPSKNFVDIGIVTSIEVNHKQVDVAKKGQEVCVKIEPIPGESPKMYGRHFEATDILVSKISR

Parental  QSIDALKDWFRDEMQKSDWQLIVELKKVFEII
          QSIDALKDWFRDEMQKSDWQLIVELKKVFEII
Retrocopy QSIDALKDWFRDEMQKSDWQLIVELKKVFEII

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	2.31 RPM	36.05 RPM
ERP005899_muscle	0.69 RPM	69.31 RPM
SRP017611_brain	0.64 RPM	81.04 RPM
SRP017611_kidney	0.59 RPM	67.10 RPM
SRP017611_liver	1.13 RPM	61.39 RPM
SRP030211_testis	1.73 RPM	135.31 RPM

ChIP-Seq

Bos taurus was not studied using ChIP-Seq data.

EST

No EST(s) were mapped for retro_btau_1751 retrocopy.

TSS

Bos taurus was not studied using FANTOM5 data.

Lab

retro_btau_1751 was not experimentally validated.

Homology

Retrocopy orthology:

Retrocopy retro_btau_1751 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	ENSBTAG00000034255	1 retrocopy	retro_btau_1751 ,
Rattus norvegicus	ENSRNOG00000023356	1 retrocopy	retro_rnor_274,