RetrogeneDB ID: retro_mmur_1146

Retrocopy location

• Organism: Mouse Lemur (Microcebus murinus)
• Coordinates: scaffold_2569:11677..12784(+)
• Located in intron of: None

Retrocopy information

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

Parental gene information

• Parental gene symbol: UBQLN4
• Ensembl ID: ENSMICG00000002222
• Aliases: None
• Description: ubiquilin 4 [Source:HGNC Symbol;Acc:1237]

Sequence

>retro_mmur_1146
AAGGCTCCTGATCTGGCCGCTGCCACTGTATCCTCCCCCTCCACTCCAGACCCTGCTCAGTACACCCCACCACTACCACT
TCACCTACAACCCCTGCCAGCCCTCTACCTCTGTGCTGCTTTGGATGCTGGTGGTGGAAGCCAGAAGACCAGTGAGGAGG
GGGTTCCCTTCCTAGGGCTTGGGAGGGACCCCAGTGCTACTATATCTATATTGTCTGACTTTGGGGCATACTGAGGCTGT
GCCGCCCGGGCTTGGGCTCCACCAGCTGCATGGAGCAGGTGCAGCAGCAGGTGCAGAGGCAGCTGGTGTCCAATCCCGAG
ATGCTGTTGTAGATCATAGAGAGCATTCTGGTCCATGACATGATGTCTAAAGCCTGATCTGATGCTCCATAGATCATGGC
CAAACCGGAGATGCAGCAGCGATGGAGCAGAACCCTGAGATGAGCTATATGCTCCACAACCCCAAGTTCATGAGGCAGAT
GACAGAGCTTACTCAGAATCCAGCCATGATACAGGAGATGATGTACAGCTAGGACCAGGCCCTGAGCAACCTTGAGAATA
TTCCCAGATGGTATAATGCCTTTTGCTGCTCATACATAGACATCCAAGGTGCCCGTGTTTAGTGCTGCCCAGGAATAGTC
TGGCAATAATCCCTTCTTTGCCCTCTCTGGGAATTTAGACAGCTCATGCTCCCAGCCTCTGTAGACTGAGAATTGAGAGC
CCCTCCCTAACCTGTGAAGCCCCTTGCCTTCCACCTCTCAGGCATTTGGGTCAGGTGGGGAAGGCATTGGAGGATTGGGG
ACCAGTCAGGTGCACCTGACAGTCTCAAACCTTTTTGGGATCAATGCAGTTAGCCTGCGGGTATGGATGTTCAACAGCCC
AGGAATGCAGGCCACCCCTTTAACAGATCTCTGAGAACCTCCAGCTGATACAGAATGTGATCTCAGCCCTCTACATGCAC
AGCACACTGCAAGTGCTTACCCAGAACCCCAACTTTGCTGCTCAGATGCTACTGTTTGCAGAGAAGCCCTCGCTGCAGGA
GCAGCTCTGCCTGCAGCGCCAGGTCTTTTTGCAACAGATGCAGAACATGGAGCCACTCTTAATCCTG

Alignment

ORF - retro_mmur_1146 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 62.3 %
• Parental protein coverage: 66.91 %
• Number of stop codons detected: 7
• Number of frameshifts detected: 6

Retrocopy - Parental Gene Alignment:

Parental  QAQDPAVATASSPSTPDPASAPSTTPASPATPAQPSTSGSAISDAGSGSRRSSGGGPSPAAGEG-PPSAT
          .A.D.A.AT.SSPSTPDPA....T.P........P.....A..DAG.GS...S..G..P..G.G..PSAT
Retrocopy KAPDLAAATVSSPSTPDPAQY--TPPLPLHLQPLPALYLCAALDAGGGSQKTSEEGV-PFLGLGRDPSAT

Parental  ASILSGFG-GILGLGSLGLGSANFME-LQQQMQRQLMSNPEMLSQIMENPLVQDMMSN-PDLMRHM-IMA
          .SILS.FG.GIL.L...GLGS...ME..QQQ.QRQL.SNPEML..I.E..LV.DMMS..PDLM.H..IMA
Retrocopy ISILSDFG<GILRLCRPGLGSTSCMEQVQQQVQRQLVSNPEMLL*IIESILVHDMMSK>PDLMLHR<IMA

Parental  NPQMQQ-LMERNPEISHMLNNPELMRQTMELARNPAMMQEMMRNQDRALSNLESIPGGYNALRRMYTDIQ
          .P.MQQ..ME.NPE.S.ML.NP..MRQ..EL..NPAM.QEMM...D.ALSNLE.IP..YNA....Y.DIQ
Retrocopy KPEMQQ<AMEQNPEMSYMLHNPKFMRQMTELTQNPAMIQEMMYS*DQALSNLENIPRWYNAFCCSYIDIQ

Parental  -EPMFSAAREQFGNNPFSSLAGNSDSTSSQPLRTENREPLPNPWSPSPPTSQAPGSGGEGTGGSGTSQVH
          ..P.FSAA.E..GNNPF..L.GN.DS..SQPL.TEN.EPLPN..SP.P.TSQA.GSGGEG.GG.GTSQVH
Retrocopy >VPVFSAAQE*SGNNPFFALSGNLDSSCSQPL*TEN*EPLPNL*SPLPSTSQAFGSGGEGIGGLGTSQVH

Parental  PTVSNPFGINAASLGSGMFNSPEMQAL-LQQISENPQLMQNVISAPYMRSMMQTLAQNPDFAAQMMVNVP
          .TVSN.FGINA.SL...MFNSP.MQA..L.QISEN.QL.QNVISA.YM.S..Q.L.QNP.FAAQM.....
Retrocopy LTVSNLFGINAVSLRVWMFNSPGMQAT>L*QISENLQLIQNVISALYMHSTLQVLTQNPNFAAQML----

Parental  LFAGNPQLQEQLRLQLPVFLQQMQNPESLSIL
          LFA..P.LQEQL.LQ..VFLQQMQN.E.L.IL
Retrocopy LFAEKPSLQEQLCLQRQVFLQQMQNMEPLLIL

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_1146 retrocopy.

TSS

Microcebus murinus was not studied using FANTOM5 data.

Lab

retro_mmur_1146 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 7 parental genes, and 7 retrocopies.

Species	Parental gene accession	Retrocopies number
Homo sapiens	ENSG00000160803	1 retrocopy	retro_hsap_2859,
Gorilla gorilla	ENSGGOG00000008916	1 retrocopy	retro_ggor_26,
Macropus eugenii	ENSMEUG00000016573	1 retrocopy	retro_meug_109,
Microcebus murinus	ENSMICG00000002222	1 retrocopy	retro_mmur_1146 ,
Macaca mulatta	ENSMMUG00000009983	1 retrocopy	retro_mmul_905,
Monodelphis domestica	ENSMODG00000016961	1 retrocopy	retro_mdom_530,
Pan troglodytes	ENSPTRG00000001444	1 retrocopy	retro_ptro_1934,