RetrogeneDB ID: retro_mmur_127

Retrocopy location

• Organism: Mouse Lemur (Microcebus murinus)
• Coordinates: GeneScaffold_1370:79183..79748(+)
• Located in intron of: None

Retrocopy information

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

Parental gene information

• Parental gene symbol: SDCBP2
• Ensembl ID: ENSMICG00000014370
• Aliases: None
• Description: syndecan binding protein (syntenin) 2 [Source:HGNC Symbol;Acc:15756]

Sequence

>retro_mmur_127
AGCCTGGGCCTAGAGCGGGAGATCAAGCCTGGAGTGCACAAGATCCGCCTGTGCAAGGACAAGCGTGGCAAGACCAGGCT
GCAGCTGTGGACCATCAGCAAGGGGCTCTTAGTACAGTTGGTCCAGGCTAACACCTCTGCATCCCTCGTGGCACTGTGCT
TTGGGAACCAGATCCTGCAATCAATGGGTGCCACTTTGCCTGGTGGAGCACGGACAAAACTCATCCAGTGGTGAAGAGGG
CATCAGCTAAGAAGATTGTTATGGCTGTTCAGGACAGGCCATTCCAGCAGACTGCCACCATGCACAGGGAGAGTATGGGC
CATGTCAGCTTTATCAAGAAGGGCAGGGTCAGGGGAAGTTCTGCCCACAATGGGTTCCTCACCAACTACTAAGTATGCGA
GGCAAATGGGTGGAGGTCATTAGTCTGAAAGACAACAAAGAGATCATGGAGATTCAAGCCACAGCCAGAAATGTCATCAC
CCTATCATCCTCATTTGTGATCCATCAGCACATGGTCAGAAAGTTGTCCCTGACCCTGCTCTACCACGCCATGGACCAAT
CCATC

Alignment

ORF - retro_mmur_127 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 64.32 %
• Parental protein coverage: 67.12 %
• Number of stop codons detected: 1
• Number of frameshifts detected: 2

Retrocopy - Parental Gene Alignment:

Parental  SLGVRRAEIRPGVREIHLCKDERGKTGLRLRAIDKGLFVQLVQANTPSSLVGLRFGDQILQ-IDGRDCAG
          SLG..R.EI.PGV..I.LCKD.RGKT.L.L..I.KGL.VQLVQANT..SLV.L.FG.QILQ.I.G...A.
Retrocopy SLGLER-EIKPGVHKIRLCKDKRGKTRLQLWTISKGLLVQLVQANTSASLVALCFGNQILQ<INGCHFAW

Parental  WSTDKAHRAVKRASAEKIVMIVRDRPFQRTVTMHKDSSGQVGFNIKKGKVVSVVKGSSAACNGLLTNHYV
          WSTDK.H..VKRASA.KIVM.V.DRPFQ.T.TMH..S.G.V.F.IKKG.V.....GSSA..NG.LTN..V
Retrocopy WSTDKTHPVVKRASAKKIVMAVQDRPFQQTATMHRESMGHVSF-IKKGRV----RGSSAH-NGFLTNY*V

Parental  CEVNG-QNVIGLKD-KEITEILATAGNVITLTVIPTVIYEHMVKKLSPTLLHHTMDHSI
          CE.NG...VI.LKD.KEI.EI.ATA.NVITL.....VI..HMV.KLS.TLL.H.MD.SI
Retrocopy CEANG<VEVISLKDNKEIMEIQATARNVITLS-SSFVIHQHMVRKLSLTLLYHAMDQSI

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_127 retrocopy.

TSS

Microcebus murinus was not studied using FANTOM5 data.

Lab

retro_mmur_127 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 4 parental genes, and 5 retrocopies.

Species	Parental gene accession	Retrocopies number
Microcebus murinus	ENSMICG00000003968	1 retrocopy	retro_mmur_170,
Microcebus murinus	ENSMICG00000014370	1 retrocopy	retro_mmur_127 ,
Pteropus vampyrus	ENSPVAG00000003014	1 retrocopy	retro_pvam_106,
Tursiops truncatus	ENSTTRG00000002740	2 retrocopies	retro_ttru_1733, retro_ttru_1902,