RetrogeneDB ID: retro_mmur_1349

Retrocopy location

• Organism: Mouse Lemur (Microcebus murinus)
• Coordinates: scaffold_47249:4065..4808(-)
• Located in intron of: None

Retrocopy information

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

Parental gene information

• Parental gene symbol: HTR3C
• Ensembl ID: ENSMICG00000011090
• Aliases: None
• Description: 5-hydroxytryptamine (serotonin) receptor 3C, ionotropic [Source:HGNC Symbol;Acc:24003]

Sequence

>retro_mmur_1349
GATCTGTGGCTTCCAGATATGTTCATCCAGGAGTTCATGAATGTGGATCCGACACCTGCTGGTCTCATGGCTTACGTCAA
CAGTGAAGGTCACACCAAATATAATAAGCCAATGCAGGTGGACACCAACTGTAATCTGGACATCTTCTATTTCCCCTTTG
ATGAACAGAACTGCACGCTTTCCTTTAGCTCATTTGCCTACACAGTGGAGAACATGCTCCTGAGCACGGAGACGGAAGTG
CAAGAGCTCTCGAACACATCGAGGAACCTCATTCAGTGCAAGGTGGAGTGGGTACTTCTGGGTATCACCCAAAGAGCAAT
AAGGATACCCGTGTCCCCCAGCCAGTATGACCAAATCATTTTCTACGTGGCCATCAGGCGCAGGCCCAGACTCTACATCG
TAAACCTCCTGGTGCCCAGTGGCTTTCTGGTTGCCATCGACGCCCTCAGCTTCTACCTGCCAGCAGAGAGCCAGAATCGC
ACCCCATCCAAGATGACCCTTCAGCTGGGCTACAATGTCTTCCTGCTTATGGTGAATGACTTACTCCCCACCAGTGGCAC
CCCCCTCATCAGTGTCTACTTTGCCCTGTGCCTGTCGCTGATGGTGCTCAGCTTGTTGGAGACCGTCTTCATCACCTACC
TGCTGCTCCTGGCCACTGCCCAGCCCCACCCATGCCGAGGTGGCTCCACTCCCTGCTGCTGCACTGCACCTGCCCAAGGA
AATGCTGCCCCACTGCGCCCCAC

Alignment

ORF - retro_mmur_1349 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 73.09 %
• Parental protein coverage: 55.48 %
• Number of stop codons detected: 0
• Number of frameshifts detected: 1

Retrocopy - Parental Gene Alignment:

Parental  NLWLPDIFIMESMDEDETPSGLTAYVSSEGRIKYDKPMRVTSICNLDIFYFPFDQQNCTFTFTSFLYTVD
          .LWLPD.FI.E.M..D.TP.GL.AYV.SEG..KY.KPM.V...CNLDIFYFPFD.QNCT..F.SF.YTV.
Retrocopy DLWLPDMFIQEFMNVDPTPAGLMAYVNSEGHTKYNKPMQVDTNCNLDIFYFPFDEQNCTLSFSSFAYTVE

Parental  SMLLGMDKEVWEITDTSRNVIRTQGEWELLGINKASPKMLVGDNLYDQIMFYXAIRRRPSLYIVNLLVPS
          .MLL....EV.E...TSRN.I....EW.LLGI........V....YDQI.FY.AIRRRP.LYIVNLLVPS
Retrocopy NMLLSTETEVQELSNTSRNLIQCKVEWVLLGITQRAIRIPVSPSQYDQIIFYVAIRRRPRLYIVNLLVPS

Parental  GFLVAIDALSFYLPAESEIRAPFKITLLLGYNVFLLMMNDLLPSSGTPLISVYFALCLSLMVLSLLETVF
          GFLVAIDALSFYLPAES..R.P.K.TL.LGYNVFLLM.NDLLP.SGTPLISVYFALCLSLMVLSLLETVF
Retrocopy GFLVAIDALSFYLPAESQNRTPSKMTLQLGYNVFLLMVNDLLPTSGTPLISVYFALCLSLMVLSLLETVF

Parental  ITYLLHLATTQP-PPMPEWLHSLLLHCTGPRKCCPTASH
          ITYLL.LAT.QP.PPMP.WLHSLLLHCT.PRKCCPTA.H
Retrocopy ITYLLLLATAQP<PPMPRWLHSLLLHCTCPRKCCPTAPH

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_1349 retrocopy.

TSS

Microcebus murinus was not studied using FANTOM5 data.

Lab

retro_mmur_1349 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 1 parental gene, and 1 retrocopy.

Species	Parental gene accession	Retrocopies number
Microcebus murinus	ENSMICG00000011090	1 retrocopy	retro_mmur_1349 ,