RetrogeneDB ID: retro_rnor_792

Retrocopy location

• Organism: Rat (Rattus norvegicus)
• Coordinates: 11:32109954..32110699(+)
• Located in intron of: None

Retrocopy information

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

Parental gene information

• Parental gene symbol: Kansl2
• Ensembl ID: ENSRNOG00000010904
• Aliases: Kansl2, RGD1303127
• Description: KAT8 regulatory NSL complex subunit 2 [Source:UniProtKB/Swiss-Prot;Acc:Q6AY70]

Sequence

>retro_rnor_792
ATGAACAGGATTCAGATTCACGTCTCACCAACGAATCGGAGGAGGATCACCCCAGTGCCCTGATCTCAGGAGCCCCTCTC
TTGTTCGTTCACTCACCACCCATGCGCTCAGCTGTGTCTGGAAGGGCAGGAGTTTTGCCTTGAGCATATTCTTGAAGACA
AGAATGCACCCTTCAAACAGTGTAGCTACATTTCGACGAAGAATGGGAAAAGGTGCCCCAGTGCTGCGCAAAGCCCGAGA
AGAAAGGTGGGGTGTTTTTCTGTGCTGAACATGCTCGAAGGAATGCCCTAGCACTTCATGGGCAAATGAAGAAGAGTAAC
CCAGGCCCTATGGGTGAAACCCTCTTGTGCCAGTTGAGCTCAGATGCTAAAACAGAGCTGGGCTCACAGACCCAGAGAGT
AGCCGAAGTGAGGCGAGCCGGATAGTAGATAAAGACAGCTGGAATGATGGGGACCAGGAACCCATTACTGTGGAACAGAC
ATGGAGAGGTGACCCTGACAGTGAAGCTGGTAGCATAGGCAGTGAACAAGAAGATCCCTTAAAACATGCTGGTGTCTATA
CAGCTGAGGAGGTGGCTCTTAGTATGAGAGAAAAGCTAATTCGTTTGCAGTCTTTGTACATTGATCAGTTTAAATAACTA
CAGCACCTGCTCAAAGAGAAGAAGCGCGGATACTTACATAATCAGAAAGTGGAGCACGAAGCTTTAGGTAGTAGTCTCCT
GACTGGCCCCGAGGGACTTTTGGCC

Alignment

ORF - retro_rnor_792 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 89.24 %
• Parental protein coverage: 51.02 %
• Number of stop codons detected: 2
• Number of frameshifts detected: 2

Retrocopy - Parental Gene Alignment:

Parental  MNRIRIHVLPTNRGRITPVPRSQEPLSCSFTHRPCSQPRLEGQEFCLKHILEDKNAPFKQCSYISTKNGK
          MNRI.IHV.PTNR.RITPVP.SQEPLSCSFTH.PC.Q..LEGQEFCL.HILEDKNAPFKQCSYISTKNGK
Retrocopy MNRIQIHVSPTNRRRITPVP*SQEPLSCSFTHHPCAQLCLEGQEFCLEHILEDKNAPFKQCSYISTKNGK

Parental  RCPSAAP-KPEKKDGVSFCAEHARRNALALHAQMKKSNPGPMGETLLCQLSSYAKTELGSQT-PESSRSE
          RCPSAA..KPEKK.GV.FCAEHARRNALALH.QMKKSNPGPMGETLLCQLSS.AKTELGSQT.PESSRSE
Retrocopy RCPSAAQ<KPEKKGGVFFCAEHARRNALALHGQMKKSNPGPMGETLLCQLSSDAKTELGSQT<PESSRSE

Parental  ASRILDEDSWSDGDQEPITVDQTWRGDPDSEADSIDSDQEDPLKHAGVYTAEEVALIMREKLIRLQSLYI
          ASRI.D.DSW.DGDQEPITV.QTWRGDPDSEA.SI.S.QEDPLKHAGVYTAEEVAL.MREKLIRLQSLYI
Retrocopy ASRIVDKDSWNDGDQEPITVEQTWRGDPDSEAGSIGSEQEDPLKHAGVYTAEEVALSMREKLIRLQSLYI

Parental  DQFKRLQHLLKEKKRRYLHNRKVEHEALGSSLLTGPEGLLA
          DQFK.LQHLLKEKKR.YLHN.KVEHEALGSSLLTGPEGLLA
Retrocopy DQFK*LQHLLKEKKRGYLHNQKVEHEALGSSLLTGPEGLLA

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	48.03 RPM
SRP017611_kidney	0.14 RPM	35.59 RPM
SRP017611_liver	0.00 RPM	24.34 RPM

ChIP-Seq

Rattus norvegicus was not studied using ChIP-Seq data.

EST

No EST(s) were mapped for retro_rnor_792 retrocopy.

TSS

Rattus norvegicus was not studied using FANTOM5 data.

Lab

retro_rnor_792 was not experimentally validated.

Homology

Retrocopy orthology:

Retrocopy retro_rnor_792 has 0 orthologous retrocopies within eutheria group .

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Parental genes homology:

Parental genes homology involve 5 parental genes, and 8 retrocopies.

Species	Parental gene accession	Retrocopies number
Cavia porcellus	ENSCPOG00000005760	1 retrocopy	retro_cpor_1491,
Dipodomys ordii	ENSDORG00000001180	1 retrocopy	retro_dord_474,
Mus musculus	ENSMUSG00000022992	2 retrocopies	retro_mmus_2944, retro_mmus_3134,
Rattus norvegicus	ENSRNOG00000010904	3 retrocopies	retro_rnor_1071, retro_rnor_2831, retro_rnor_792 ,
Tupaia belangeri	ENSTBEG00000016536	1 retrocopy	retro_tbel_1374,