RetrogeneDB ID: retro_mmur_1458

Retrocopy location

• Organism: Mouse Lemur (Microcebus murinus)
• Coordinates: scaffold_63582:226..1011(+)
• Located in intron of: None

Retrocopy information

• Ensembl ID: ENSMICG00000011461
• Aliases: None
• Status: KNOWN_PSEUDOGENE

Parental gene information

• Parental gene symbol: COPS7A
• Ensembl ID: ENSMICG00000013661
• Aliases: None
• Description: COP9 signalosome subunit 7A [Source:HGNC Symbol;Acc:16758]

Sequence

>retro_mmur_1458
ATGGCAGGTGAACAGAAACCCTCGAGTAACCTCCTGGAACAGTTTATTTTACCAGCTGAAGGTACCAGTGGCTCAGCCCT
CACTGCTCTCTAAGCCAGGTGTTGGAGGCTCCTGGAGTATATGTTTTTGGAGAACTGCTAGAGCTGGCCAATGTGCAGGA
GCTTGCAGAAGGAGCTAATGCTGCTTATTTGCAGTTACTGAACCTGTCTGCCTATGGAACATACCCAGATCACACAGCCA
ACGAGGAGAGCCTGCCAGAACTAAGCACAGCTCAGCAGAACAAGCTGAAACATCCCACCATCGTGAGCGTGGCATCGAGA
ATGAAGTGTATCCCCTACTCCGTGCTGCTGACGGACCTGGAGATGCGGAATCCCCGGGAACTAGAAGACCTCATCATTGA
GGCTGTCTACACTGACATCATCCAGGGCAAGCTGGACCAGCGAAACCAGCTGCTGGAAGTGGATTTCTGCATTGGCCGTG
ACATCCGAAAGAAGGATATCAATAATATTGTCAAGACCTTGCGTGAATGGTGTGATGGCTGCGAAGCAGTTCTGCTGGGC
ATCGAGCAGCAAGTCTTGAGAGCCAACCAGGACAAAGAGAACCACGACCGAACTCAGCAGCAGGTAGAGGCAGAGGTTAC
CAACATCCAGAAGACACTCAAAGCCACGGCGTCCTCCTCAGCTCAGGAGATGGAGCGGCAGCTGGCTGAACGGGAGTGTC
CCCCTCATGCTGAGCAGAGGCAACCCACCAAGAAGATGTCCAAAGTGAAAGGTCTGGTCTCTAGC

Alignment

ORF - retro_mmur_1458 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 53.36 %
• Parental protein coverage: 97.07 %
• Number of stop codons detected: 0
• Number of frameshifts detected: 1

Retrocopy - Parental Gene Alignment:

Parental  MSAEVKVTGQNQEQFLLLAKSAKG-ALATL-IHQVL-TPGVYVFGELLDMPNVRELAESDFASTFRLLTV
          M..E.K......EQF.L.A....G.AL..L...QVL..PGVYVFGELL...NV.ELAE...A....LL..
Retrocopy MAGEQKPSSNLLEQFILPAEGTSGSALTAL<LSQVLEAPGVYVFGELLELANVQELAEGANAAYLQLLNL

Parental  FAYGTYADYLAEARNLPPLTEAQKNKLRHLSVVTLAAKVKCIPYAVLLEALALRNVRQLEDLVIEAVYAD
          .AYGTY.D..A....LP.L..AQ.NKL.H...V..A...KCIPY.VLL..L..RN.R.LEDL.IEAVY.D
Retrocopy SAYGTYPDHTANEESLPELSTAQQNKLKHPTIVSVASRMKCIPYSVLLTDLEMRNPRELEDLIIEAVYTD

Parental  VLRGSLDQRNQRLEVDYSIGRDIQRQDLSAIARTLQEWCVGCEVVLSGIEEQVSRANQHKEQQLGLKQQI
          ...G.LDQRNQ.LEVD..IGRDI...D...I..TL.EWC.GCE.VL.GIE.QV.RANQ.KE......QQ.
Retrocopy IIQGKLDQRNQLLEVDFCIGRDIRKKDINNIVKTLREWCDGCEAVLLGIEQQVLRANQDKENHDRTQQQV

Parental  ESEVANLKKTIKVTTAAAAAATSQDPEQHLTELREPAPGTNQRQPSKKASKGKGLRGS
          E.EV.N..KT.K.T....A....Q..E..L.E.RE..P...QRQP.KK.SK.KGL..S
Retrocopy EAEVTNIQKTLKAT----ASSSAQEMERQLAE-RECPPHAEQRQPTKKMSKVKGLVSS

Legend:

• *: Stop codon
• >: Forward frameshift by one nucleotide
• <: Reverse frameshift by one nucleotide

Expression

RNA-Seq

Microcebus murinus was not studied using RNA-Seq expression data.

ChIP-Seq

Microcebus murinus was not studied using ChIP-Seq data.

EST

No EST(s) were mapped for retro_mmur_1458 retrocopy.

TSS

Microcebus murinus was not studied using FANTOM5 data.

Lab

retro_mmur_1458 was not experimentally validated.

Homology

Retrocopy orthology:

Microcebus murinus does not belong to any of the species groups (eutheria, teleost or neognath), studied for retrocopy-based homology. For more information about studied groups, please go to help section.

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Parental genes homology:

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

Species	Parental gene accession	Retrocopies number
Loxodonta africana	ENSLAFG00000004634	1 retrocopy	retro_lafr_297,
Macropus eugenii	ENSMEUG00000010451	1 retrocopy	retro_meug_724,
Microcebus murinus	ENSMICG00000013661	1 retrocopy	retro_mmur_1458 ,
Oryctolagus cuniculus	ENSOCUG00000011187	1 retrocopy	retro_ocun_1086,
Ictidomys tridecemlineatus	ENSSTOG00000027250	1 retrocopy	retro_itri_538,