RetrogeneDB ID: retro_rnor_2545

Retrocopy location

• Organism: Rat (Rattus norvegicus)
• Coordinates: 8:4236445..4237093(+)
• Located in intron of: None

Retrocopy information

• Ensembl ID: ENSRNOG00000050498
• Aliases: None
• Status: KNOWN_PSEUDOGENE

Parental gene information

• Parental gene symbol: Mob1a
• Ensembl ID: ENSRNOG00000042657
• Aliases: Mob1a, Mobk1b, Mobkl1b
• Description: MOB kinase activator 1A [Source:UniProtKB/Swiss-Prot;Acc:Q3T1J9]

Sequence

>retro_rnor_2545
ATGAGCTTCCTTTTCAGCAGCCGCTCTTCGAAAACATTCAAACCAAAGAAGAATATTCCTGAAGGGTCCCATCAGTATGA
ACTCTTAAAACATGCAGAGGCAACTCTCGGGAGTGGCAATCTGAGGCAAGCTGTTATGTTGCCGGAGGGAGAAGACCTCA
ATGAGTGGATCGCTGTTAATACTGTGGATTTCTTCAATCAGATCAACATGCTGTATGGAACCATTACAGAGTTCTGCACT
GAGGCAAGCTGCCCAGTCATGTCAGCAGGTACCAGGTATGAATACCACTGGGCAGATGGCACTAATATTAAAAAGCCAAT
TAAGTGTTCAGCACCAAAATATATTGACTATTTGATGACTTGGGTTCAGGATCAGCTTGATGATGAAACTCTTTTTCCTT
CTAAGATTGGTGTCCCATTTCCCAAAAACTTTATGTCTGTGGCAAAGACTATTCTGAAGCGTCTCTTCAGGGTTTATGTC
CATATTTACCACCAGCACTTTGACTCCGTGATGCAGCTGCAAGAGGAGGCCCACCTCAACACCTCCTTTAAGCACTTTAT
TTTCTTTGTTCAGGAGTTTAATCTGATTGATAGGCGTGAGTTGGCACCACTTCAGGAACTAATTGAGAAGCTTGGATCTA
AAGACAGA

Alignment

ORF - retro_rnor_2545 Open Reading Frame is conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 99.07 %
• Parental protein coverage: 100. %
• Number of stop codons detected: 0
• Number of frameshifts detected: 0

Retrocopy - Parental Gene Alignment:

Parental  MSFLFSSRSSKTFKPKKNIPEGSHQYELLKHAEATLGSGNLRQAVMLPEGEDLNEWIAVNTVDFFNQINM
          MSFLFSSRSSKTFKPKKNIPEGSHQYELLKHAEATLGSGNLRQAVMLPEGEDLNEWIAVNTVDFFNQINM
Retrocopy MSFLFSSRSSKTFKPKKNIPEGSHQYELLKHAEATLGSGNLRQAVMLPEGEDLNEWIAVNTVDFFNQINM

Parental  LYGTITEFCTEASCPVMSAGPRYEYHWADGTNIKKPIKCSAPKYIDYLMTWVQDQLDDETLFPSKIGVPF
          LYGTITEFCTEASCPVMSAG.RYEYHWADGTNIKKPIKCSAPKYIDYLMTWVQDQLDDETLFPSKIGVPF
Retrocopy LYGTITEFCTEASCPVMSAGTRYEYHWADGTNIKKPIKCSAPKYIDYLMTWVQDQLDDETLFPSKIGVPF

Parental  PKNFMSVAKTILKRLFRVYAHIYHQHFDSVMQLQEEAHLNTSFKHFIFFVQEFNLIDRRELAPLQELIEK
          PKNFMSVAKTILKRLFRVY.HIYHQHFDSVMQLQEEAHLNTSFKHFIFFVQEFNLIDRRELAPLQELIEK
Retrocopy PKNFMSVAKTILKRLFRVYVHIYHQHFDSVMQLQEEAHLNTSFKHFIFFVQEFNLIDRRELAPLQELIEK

Parental  LGSKDR
          LGSKDR
Retrocopy LGSKDR

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	14.38 RPM
SRP017611_kidney	0.00 RPM	51.22 RPM
SRP017611_liver	0.00 RPM	17.82 RPM

ChIP-Seq

Rattus norvegicus was not studied using ChIP-Seq data.

EST

No EST(s) were mapped for retro_rnor_2545 retrocopy.

TSS

Rattus norvegicus was not studied using FANTOM5 data.

Lab

retro_rnor_2545 was not experimentally validated.

Homology

Retrocopy orthology:

Retrocopy retro_rnor_2545 has 0 orthologous retrocopies within eutheria group .

---

Parental genes homology:

Parental genes homology involve 15 parental genes, and 25 retrocopies.

Species	Parental gene accession	Retrocopies number
Ailuropoda melanoleuca	ENSAMEG00000017359	1 retrocopy	retro_amel_1889,
Canis familiaris	ENSCAFG00000008735	1 retrocopy	retro_cfam_2054,
Choloepus hoffmanni	ENSCHOG00000007277	1 retrocopy	retro_chof_502,
Dasypus novemcinctus	ENSDNOG00000012838	3 retrocopies	retro_dnov_1948, retro_dnov_2226, retro_dnov_337,
Echinops telfairi	ENSETEG00000018245	1 retrocopy	retro_etel_425,
Homo sapiens	ENSG00000114978	2 retrocopies	retro_hsap_1223, retro_hsap_4670,
Gorilla gorilla	ENSGGOG00000010015	1 retrocopy	retro_ggor_954,
Loxodonta africana	ENSLAFG00000014338	2 retrocopies	retro_lafr_223, retro_lafr_285,
Macaca mulatta	ENSMMUG00000015208	2 retrocopies	retro_mmul_1299, retro_mmul_297,
Mustela putorius furo	ENSMPUG00000007824	2 retrocopies	retro_mputfur_754, retro_mputfur_770,
Nomascus leucogenys	ENSNLEG00000000321	2 retrocopies	retro_nleu_2161, retro_nleu_694,
Otolemur garnettii	ENSOGAG00000003504	1 retrocopy	retro_ogar_2688,
Pongo abelii	ENSPPYG00000012284	2 retrocopies	retro_pabe_1017, retro_pabe_3629,
Pan troglodytes	ENSPTRG00000012079	2 retrocopies	retro_ptro_3103, retro_ptro_837,
Rattus norvegicus	ENSRNOG00000042657	2 retrocopies	retro_rnor_2544, retro_rnor_2545 ,