RetrogeneDB ID: retro_btau_398

Retrocopy location

• Organism: Cow (Bos taurus)
• Coordinates: 11:27684707..27685612(+)
• Located in intron of: ENSBTAG00000007508

Retrocopy information

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

Parental gene information

• Parental gene symbol: ZNF326
• Ensembl ID: ENSBTAG00000019133
• Aliases: None
• Description: DBIRD complex subunit ZNF326 [Source:UniProtKB/Swiss-Prot;Acc:F1MJM0]

Sequence

>retro_btau_398
AGTGGTGGTGGTGGTAGGGGTAGCAGCCTATGAGTGATTTTGGAAGCATTCATAGACCTGGAATTGTTGTTGACTATCAA
AATAAACCCACCAATGTGACATTTGCTGCTGCAAGAGGAATAAAGAGAAAAATGATATAACCATTTAATAAGCCTGGTGG
AACCTTTATCAAGAAACCCAAGCTAGCAAAACCTGTGGAGAAGATGAGCCTCAGCAAATCACCCACAAAAACTGATCCTA
AAAATGAAGAAGAAGAAAAGCGGCGAATTGAAGCTCGGAGAGAGAAACAAAGATGCAGAAGAGAAAAAAACAGCGAGAAA
TATGGAGATGGATACAGAATGGCATTCACATGTTCATTTTGTAAATTTTGAACATTTGAAGAAAAAGATATTGAACTCCA
TCTGGGAAGTCCTTCACATCAGGAAACATTAGATCATATTCAAAAACAAACCAAATTTGATAAAGTGGTTATGGAGTTTT
TGCATGAATGTATGGTAAATAAATTCAAGAAAACATCTATTCGTAAGCAACAGACAAATAATCAAACAGAGGCAGTCAAA
ATAATAGAAAAGGATGTTATGGAAGGTGTTACTGCAGATGATCACATGATGAAAGTAGAGACTGTTCACTGCGGTGCTTG
CAGTGTGTATATCCCTGCTTTACATAGCTCAGTTCAGCAGCACTTACAATCTCCTGATCATATCAAAGGAAAGCAGGCTT
ATAAGGAACAAATAAAAAGAGAGAGTGTCTTGACTGCTACAAGCATTTTAAATAATCTAATAGTGAAGGCACGATACGAA
CGTTTTATTAAGGGTGAGAATCCCTTTGAAATTCAAGATCATTCTCAAGATCAACAAATAGAAGGAGATGAGGAGGAAAA
GGAAAAGATTGACGAACCTGTGGAA

Alignment

ORF - retro_btau_398 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 94.72 %
• Parental protein coverage: 52.16 %
• Number of stop codons detected: 2
• Number of frameshifts detected: 1

Retrocopy - Parental Gene Alignment:

Parental  STGRGRGRG-HMSDFGSIHRPGIVVDYQNKPTNVTVAAARGIKRKMIQPFNKPGGTFIKKPKLAKPVEKM
          S.G.GRG....MSDFGSIHRPGIVVDYQNKPTNVT.AAARGIKRKMI.PFNKPGGTFIKKPKLAKPVEKM
Retrocopy SGGGGRGSS<PMSDFGSIHRPGIVVDYQNKPTNVTFAAARGIKRKMI*PFNKPGGTFIKKPKLAKPVEKM

Parental  SLSKSPTKTDPKNEEEEKRRIEARREKQRRRREKNSEKYGDGYRMAFTCSFCKFRTFEEKDIELHLESAS
          SLSKSPTKTDPKNEEEEKRRIEARREKQR.RREKNSEKYGDGYRMAFTCSFCKF.TFEEKDIELHL.S.S
Retrocopy SLSKSPTKTDPKNEEEEKRRIEARREKQRCRREKNSEKYGDGYRMAFTCSFCKF*TFEEKDIELHLGSPS

Parental  HQETLDHIQKQTKFDKVVMEFLHECMVNKFKKTSIRKQQTNNQTEAVKIIEKDVMEGVTADDHMMKVETV
          HQETLDHIQKQTKFDKVVMEFLHECMVNKFKKTSIRKQQTNNQTEAVKIIEKDVMEGVTADDHMMKVETV
Retrocopy HQETLDHIQKQTKFDKVVMEFLHECMVNKFKKTSIRKQQTNNQTEAVKIIEKDVMEGVTADDHMMKVETV

Parental  HCSACSVYIPALHSSVQQHLKSPDHIKGKQAYKEQIKRESVLTATSILNNPIVKARYERFIKGENPFEIQ
          HC.ACSVYIPALHSSVQQHL.SPDHIKGKQAYKEQIKRESVLTATSILNN.IVKARYERFIKGENPFEIQ
Retrocopy HCGACSVYIPALHSSVQQHLQSPDHIKGKQAYKEQIKRESVLTATSILNNLIVKARYERFIKGENPFEIQ

Parental  DHSQDQQIEGDEEEEEKIDEPVE
          DHSQDQQIEGDEEE.EKIDEPVE
Retrocopy DHSQDQQIEGDEEEKEKIDEPVE

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	14.27 RPM
ERP005899_muscle	0.16 RPM	21.96 RPM
SRP017611_brain	0.46 RPM	74.23 RPM
SRP017611_kidney	0.12 RPM	47.24 RPM
SRP017611_liver	0.00 RPM	14.72 RPM
SRP030211_testis	0.13 RPM	44.81 RPM

ChIP-Seq

Bos taurus was not studied using ChIP-Seq data.

EST

No EST(s) were mapped for retro_btau_398 retrocopy.

TSS

Bos taurus was not studied using FANTOM5 data.

Lab

retro_btau_398 was not experimentally validated.

Homology

Retrocopy orthology:

Retrocopy retro_btau_398 has 0 orthologous retrocopies within eutheria group .

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Parental genes homology:

Parental genes homology involve 1 parental gene, and 1 retrocopy.

Species	Parental gene accession	Retrocopies number
Bos taurus	ENSBTAG00000019133	1 retrocopy	retro_btau_398 ,