RetrogeneDB ID: retro_rnor_1626

Retrocopy location

• Organism: Rat (Rattus norvegicus)
• Coordinates: 2:101229987..101231049(-)
• Located in intron of: None

Retrocopy information

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

Parental gene information

• Parental gene symbol: Kat8
• Ensembl ID: ENSRNOG00000019585
• Aliases: Kat8, Myst1
• Description: Histone acetyltransferase KAT8 [Source:UniProtKB/Swiss-Prot;Acc:Q5XI06]

Sequence

>retro_rnor_1626
ATGGCGGCACAGGGAGCAACAGCCTCAGTTGCTGCAACAACTTCAGGAATTGTAGGGTAGGGAGAGCCCGGTCTGGGGGG
AAAATGCAGCGGTCTAGGGGCCTGCCCGGTCCCTGGGCCGGGTCTCTCTGCCGAATCCGGCGCGTGGCGAACCGGAAGTC
ACCGTGGAGATCGGAGAAACATACCTGTGCCGGCGGCCCGACAGCACCTAGCATTCAGCAGAAGTGATCCAGTCTCGAGT
GGATGACCAGGAGGGCCGAAAAAAATTCTATGTTCATTATATGGGCTTTAACAGGCGACTAGACCAGTGGGTGGACAAGA
ACCGACTTGCTCTGACCAAGACAGTGAAGGATGCCGTGCCGAAGAACTCTGAGAAGTACCTGAGTGAGCTGGCAGAGCAG
CCTGAGCGCAAGATCGCTCAAAACCAAAAACGAAAGCATGATGAGATCAACCATGTACAGAAGACCTATGCAGAGATGGA
CCCCACCACAGCAGCCTTGGAAAGGGAGCATGAGACGATCACCAAAGTGAAGTATGTAGACAAGACCCACATTGGCAACT
ATGAAATTGATGCCTGGTATTTCTCACCTTTCCCAGAGGACTATGGGAAGCAGTCCAAGCTTTGACTCTGCGAGTACTGC
CTCAAATACATGAAGTTCGAGAAGAGCTACCGCTTCCACCTGGGCCAGGCCAGTGGCAGCAGCCCCCAGGGAAGGAGATC
TATCGAAAGAGCAACATCTCTGTGTATAAAGTGGATGACAAAGACCATAAGATATATTGTCAGAACCTGTGTCTGCTGGC
CAAGCTTTTCCTGGACCACAAGACCTTGTATTTTAATGTGGAGCCCTTTGTCTTTTACATTTTGACAGAAGTAGATAGGC
AAGGGCCTCACATTGTTGGCTACTTTTCTAAGGAGAAGGAATCCCCCGATGGAAACAACGTGGCCTGCATTCTGACCCTG
CCTCCCTACCAGCGGCATGGCTATGGGAAGTTTCTCATTGCCTTCAGTTATGAGCTTTCTAAGCTTGAGAGTACTGTAGG
CTCCCCAGAGAAGCCACTGAGT

Alignment

ORF - retro_rnor_1626 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 91.01 %
• Parental protein coverage: 77.29 %
• Number of stop codons detected: 4
• Number of frameshifts detected: 2

Retrocopy - Parental Gene Alignment:

Parental  MAAQGATAAVAATTSGIVGEGEPGPG-ENTSVEGPARSPGRVSPPTPARGEPEVTVEIGETYLCRRPDST
          MAAQGATA.VAATTSGIVG.GEPG.G.EN..V.GPARS.GRVS.P.PARGEPEVTVEIGETYLCRRPDST
Retrocopy MAAQGATASVAATTSGIVG*GEPGLG>ENAAV*GPARSLGRVSLPNPARGEPEVTVEIGETYLCRRPDST

Parental  WHSAEVIQSRVNDQEGREEFYVHYVGFNRRLDEWVDKNRLALTKTVKDAVQKNSEKYLSELAEQPERKIT
          .HSAEVIQSRV.DQEGR..FYVHY.GFNRRLD.WVDKNRLALTKTVKDAV.KNSEKYLSELAEQPERKI.
Retrocopy *HSAEVIQSRVDDQEGRKKFYVHYMGFNRRLDQWVDKNRLALTKTVKDAVPKNSEKYLSELAEQPERKIA

Parental  RNQKRKHDEINHVQKTYAEMDPTTAALEKEHEAITKVKYVDKIHIGNYEIDAWYFSPFPEDYGKQPKLWL
          .NQKRKHDEINHVQKTYAEMDPTTAALE.EHE.ITKVKYVDK.HIGNYEIDAWYFSPFPEDYGKQ.KL.L
Retrocopy QNQKRKHDEINHVQKTYAEMDPTTAALEREHETITKVKYVDKTHIGNYEIDAWYFSPFPEDYGKQSKL*L

Parental  CEYCLKYMKFEKSYRFHLGQC-QWRQPPGKEIYRKSNISVYEVDGKDHKIYCQNLCLLAKLFLDHKTLYF
          CEYCLKYMKFEKSYRFHLGQ..QW.QPPGKEIYRKSNISVY.VD.KDHKIYCQNLCLLAKLFLDHKTLYF
Retrocopy CEYCLKYMKFEKSYRFHLGQA<QWQQPPGKEIYRKSNISVYKVDDKDHKIYCQNLCLLAKLFLDHKTLYF

Parental  DVEPFVFYILTEVDRQGAHIVGYFSKEKESPDGNNVACILTLPPYQRRGYGKFLIAFSYELSKLESTVGS
          .VEPFVFYILTEVDRQG.HIVGYFSKEKESPDGNNVACILTLPPYQR.GYGKFLIAFSYELSKLESTVGS
Retrocopy NVEPFVFYILTEVDRQGPHIVGYFSKEKESPDGNNVACILTLPPYQRHGYGKFLIAFSYELSKLESTVGS

Parental  PEKPLS
          PEKPLS
Retrocopy PEKPLS

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
SRP017611_brain	0.00 RPM	19.41 RPM
SRP017611_kidney	0.00 RPM	19.19 RPM
SRP017611_liver	0.00 RPM	10.56 RPM

ChIP-Seq

Rattus norvegicus was not studied using ChIP-Seq data.

EST

No EST(s) were mapped for retro_rnor_1626 retrocopy.

TSS

Rattus norvegicus was not studied using FANTOM5 data.

Lab

retro_rnor_1626 was not experimentally validated.

Homology

Retrocopy orthology:

Retrocopy retro_rnor_1626 has 0 orthologous retrocopies within eutheria group .

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Parental genes homology:

Parental genes homology involve 5 parental genes, and 5 retrocopies.

Species	Parental gene accession	Retrocopies number
Microcebus murinus	ENSMICG00000001625	1 retrocopy	retro_mmur_462,
Myotis lucifugus	ENSMLUG00000004779	1 retrocopy	retro_mluc_1916,
Monodelphis domestica	ENSMODG00000001856	1 retrocopy	retro_mdom_1344,
Rattus norvegicus	ENSRNOG00000019585	1 retrocopy	retro_rnor_1626 ,
Sarcophilus harrisii	ENSSHAG00000011739	1 retrocopy	retro_shar_568,