RetrogeneDB ID: retro_btau_942

Retrocopy location

• Organism: Cow (Bos taurus)
• Coordinates: 21:68897553..68898178(+)
• Located in intron of: ENSBTAG00000012143

Retrocopy information

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

Parental gene information

• Parental gene symbol: ZNF511
• Ensembl ID: ENSBTAG00000012416
• Aliases: None
• Description: zinc finger protein 511 [Source:RefSeq peptide;Acc:NP_001193163]

Sequence

>retro_btau_942
CGGGAGCACGCGTTCTTCAAGAACAGGGGCGTGCAGAGGCACCTCAGCCTCCAGGATGTGTTCACGTGGGTGGCTGGGGA
GCCTGAGAGGCCCTGAGTGCTGAGGTCACCTGTCGGGCGGCCAGCTGCTGCCAGGTGCTTGGCGCCCTGGAAGACTGTGA
GCACCACCAGCATTCTCTGCACGGATACATCTGCTCCTTCTGCAGGCGGGCCTTCCCCTCCGGTCACCTGCTGGACCCCC
ACGTCCTGGAGTGCCATGACCCGCCGTTCCAGATCCTGGCCGAGCACGGGACATGTCCCAGTGCCGGGTGGAGGGCTGCA
CAGAGGCGCTCGGGACAGCAGGGACCGGGAGGAGCACCTGGTGACGTGTCCCCTCACCCTGCAGACCCCCGCTTTGATAG
ACGGAGGAAAAGCAGAGGCCCAGCCCGCAGGTGTCCACAGAAGCCATGGGGGAGGACCGGGCGCCTCGGAAGGAGACACC
ATGGGAGTCTGCTCTGAGCACACAGAGGCCCACCCAGAACCTCCGAGAGAGAGGCGGGCCTACGGCCACAGGATGCCATC
ACCATCTGTTCTGGTCAAGGTGCCGCAGGAGGATTTAAAGCGCCAGGAAGAGAAACAGGCAGCAG

Alignment

ORF - retro_btau_942 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 65.75 %
• Parental protein coverage: 82.75 %
• Number of stop codons detected: 1
• Number of frameshifts detected: 8

Retrocopy - Parental Gene Alignment:

Parental  REHEFFEDGDVQRHLYLQDVITQVAAEPERPRV-PEFTCQVAGCCQAFDTLEDYEHHYHTLHGNVCSSCK
          REH.FF....VQRHL.LQDV.T.VA.EPERP.V..E.TC..A.CCQ....LED.EHH.H.LHG..CS.C.
Retrocopy REHAFFKNRGVQRHLSLQDVFTWVAGEPERP*V<AEVTCRAASCCQVLGALEDCEHHQHSLHGYICSFCR

Parental  RAFPSGHLLDTHIQEWHDSLFQILAER-QDMYQCLVEGCTEKF-RTSRDRKEHLVTHHL-YPADFRFDKP
          RAFPSGHLLD.H..E.HD..FQILAE...DM.QC.VEGCTE...R.SRDR.EHLVT..L..PAD.RFD..
Retrocopy RAFPSGHLLDPHVLECHDPPFQILAEH<RDMSQCRVEGCTEAL<RDSRDREEHLVTCPL<HPADPRFDRR

Parental  RKGR-RPASQVSTEAIGEDWAP-SEGDAMEVCSEQAEAHPEPPRERRVYSHRIPS-TVCFGQGASRGFK-
          RK.R.RP..QVSTEA.GED.AP.SEGD.M.VCSE..EAHPEPPRERR.Y.HR.PS.T.C.GQGA..GFK.
Retrocopy RKSR<RPSPQVSTEAMGEDRAP<SEGDTMGVCSEHTEAHPEPPRERRAYGHRMPS<TICSGQGAAGGFK<

Parental  STKKRSKRQ
          S..KR...Q
Retrocopy SARKRNRQQ

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	1.59 RPM
ERP005899_muscle	0.05 RPM	14.62 RPM
SRP017611_brain	0.82 RPM	18.50 RPM
SRP017611_kidney	0.59 RPM	12.21 RPM
SRP017611_liver	0.23 RPM	4.15 RPM
SRP030211_testis	4.25 RPM	20.11 RPM

ChIP-Seq

Bos taurus was not studied using ChIP-Seq data.

EST

No EST(s) were mapped for retro_btau_942 retrocopy.

TSS

Bos taurus was not studied using FANTOM5 data.

Lab

retro_btau_942 was not experimentally validated.

Homology

Retrocopy orthology:

Retrocopy retro_btau_942 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	ENSBTAG00000012416	1 retrocopy	retro_btau_942 ,