RetrogeneDB ID: retro_mluc_2217

Retrocopy location

• Organism: Microbat (Myotis lucifugus)
• Coordinates: GL430110:313969..314594(-)
• Located in intron of: None

Retrocopy information

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

Parental gene information

• Parental gene symbol: PPP1CC
• Ensembl ID: ENSMLUG00000010661
• Aliases: None
• Description: protein phosphatase 1, catalytic subunit, gamma isozyme [Source:HGNC Symbol;Acc:9283]

Sequence

>retro_mluc_2217
TACAAAATCAAATATCCCGAGAATTTTTCCTCCTCAGAGGAACCACGAATGTGCCAGCATCAATAGAATGTATGGATTTT
GTGATGAAGGTAAAAGAAGATACAACATTAGACTAAGGAAAGCTTTCAGACTACTTTGTTTACAGGCAGCAGCCATCGTG
GATGAGAAATGTGTTACTCTCATGGGGGTTGGTCACCAGACCTTCAATCTATGGAGCAGATTTGTTCATTATATGACCAA
CTGGTGGGCCAGACCAAGGTCTCCTTTGGGACCTTTGTGGGCTGAGCCTGATGAGGATCCTTGGGCTGGGGTGAAAGACA
GAGGCGTGTCCGTCGCAGTGGGTGCAGAAGTGGTTGCAGAATTTCCCCGGCAGCAGCGTGACTTGGATCTTCTATGTCGC
GCTCACCAGGTGGCTGAAGAGGATCTGAATATTTTTCAGAGAGGCAGTTAGTCACTATCCTTTCTGCACCCGACTGTTGT
GGAGAGTTTGACCACGCAGATGCCATGATACGTGTGGACAAAACGCAAATGTGTTCTTTTCAGATTTAAAGCCTGCGGAG
AAAAAGAAGCCAAAGGCACAGGCCCTGACACCTCTACGGGTCTGATCACAACGGCAACGAGGAAA

Alignment

ORF - retro_mluc_2217 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 64.57 %
• Parental protein coverage: 70.39 %
• Number of stop codons detected: 1
• Number of frameshifts detected: 8

Retrocopy - Parental Gene Alignment:

Parental  YKIKYPENF-FLLRG-NHECASINRIYGFYDECKRRYNIKLWKTFTDCFNCLPIAAIVDEKIFCC-HGGL
          YKIKYPENF.FLLRG.NHECASINR.YGF.DE.KRRYNI.L.K.F.....CL..AAIVDEK.....HGG.
Retrocopy YKIKYPENF<FLLRG<NHECASINRMYGFCDEGKRRYNIRLRKAFR--LLCLQAAAIVDEKCVTL<HGGW

Parental  SPDLQSMEQIRR-IMRPTDVPDQGLLCDL-LWSDPDKDVLGWGENDRGVSFTFGAEVVAKF-LHKHDLDL
          SPDLQSMEQI...I..PT..PDQGLL.DL.LW..PD.D....G..DRGVS...GAEVVA.F.....DLDL
Retrocopy SPDLQSMEQICS<II*PTGGPDQGLLWDL<LWAEPDEDPWA-GVKDRGVSVAVGAEVVAEFPRQQRDLDL

Parental  ICRAHQVVED-GYEFFAKRQLVTLFSAPNYCGEFDNAGAMMSVDETLMCSFQI-LKPAEKKKPSATRPVT
          .CRAHQV.E..G.E.F..RQLVT..SAP..CGEFD.A.AM..VD.T.MCSFQI.LKPAEKKKP.A....T
Retrocopy LCRAHQVAEE<GSEYFSERQLVTILSAPDCCGEFDHADAMIRVDKTQMCSFQI<LKPAEKKKPKA-QALT

Parental  PPR-GMITKQAKK
          P.R.G.IT....K
Retrocopy PLR<GLITTATRK

Legend:

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

Expression

RNA-Seq

Myotis lucifugus was not studied using RNA-Seq expression data.

ChIP-Seq

Myotis lucifugus was not studied using ChIP-Seq data.

EST

Myotis lucifugus was not studied using EST data.

TSS

Myotis lucifugus was not studied using FANTOM5 data.

Lab

retro_mluc_2217 was not experimentally validated.

Homology

Retrocopy orthology:

Myotis lucifugus 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 12 parental genes, and 31 retrocopies.

Species	Parental gene accession	Retrocopies number
Ailuropoda melanoleuca	ENSAMEG00000013861	1 retrocopy	retro_amel_1721,
Bos taurus	ENSBTAG00000011198	2 retrocopies	retro_btau_6, retro_btau_960,
Ciona intestinalis	ENSCING00000004542	1 retrocopy	retro_cint_3,
Callithrix jacchus	ENSCJAG00000009147	7 retrocopies	retro_cjac_1062, retro_cjac_1165, retro_cjac_1408, retro_cjac_2304, retro_cjac_2535, retro_cjac_3288, retro_cjac_822,
Equus caballus	ENSECAG00000017228	1 retrocopy	retro_ecab_853,
Echinops telfairi	ENSETEG00000015721	1 retrocopy	retro_etel_2065,
Myotis lucifugus	ENSMLUG00000003785	1 retrocopy	retro_mluc_1907,
Myotis lucifugus	ENSMLUG00000010661	2 retrocopies	retro_mluc_15, retro_mluc_2217 ,
Mus musculus	ENSMUSG00000004455	5 retrocopies	retro_mmus_2274, retro_mmus_2968, retro_mmus_3418, retro_mmus_851, retro_mmus_925,
Sorex araneus	ENSSARG00000000571	1 retrocopy	retro_sara_700,
Tupaia belangeri	ENSTBEG00000013852	4 retrocopies	retro_tbel_1710, retro_tbel_2116, retro_tbel_2311, retro_tbel_4450,
Drosophila melanogaster	FBgn0003134	5 retrocopies	retro_dmel_21, retro_dmel_37, retro_dmel_42, retro_dmel_48, retro_dmel_81,