RetrogeneDB ID: retro_meug_392

Retrocopy location

• Organism: Wallaby (Macropus eugenii)
• Coordinates: Scaffold108779:8592..9020(-)
• Located in intron of: None

Retrocopy information

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

Parental gene information

• Parental gene symbol: PITPNB
• Ensembl ID: ENSMEUG00000010442
• Aliases: None
• Description: phosphatidylinositol transfer protein, beta [Source:HGNC Symbol;Acc:9002]

Sequence

>retro_meug_392
GGGTTTGTAAGGATAATTGTTCCTGAGGGCTCTTTGGTAGTTCATGATAAAGCCTTTGCACATCCCTTCTGCAGAACAGT
TGTGATGAATGAACACATGAAAGACAACTTCTTCATTAAAATTGAAAGCTGGAACAAACCAAAGTTGGGAACAATAGAAA
AGGCACATGATTAGGTTCTAACACTTGGAAGATGGTTAGAATTGTCCTCATCAATACTGCAGACTGAGGTCAAGTAGAAC
TTGCAGATTCCAAACAAGTTGAAGACCCAGCATTATTGCCGTCACTCAAAACCAAATGAGGAACTTCAGAACCCAGTTGG
AAGCAAGAGCTGGCAAATAATCAAGATTGTCCTTGAATGTGTGCCTGCAAGCTGGAAATCATCAAATTCAAGTGATGGGG
TCTGCAGAGTAAAACAGAAAACATTATT

Alignment

ORF - retro_meug_392 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 65.52 %
• Parental protein coverage: 56.47 %
• Number of stop codons detected: 4
• Number of frameshifts detected: 1

Retrocopy - Parental Gene Alignment:

Parental  GFVRMIAPEGSLVFHEKAWNAYPYCRTIVTNEYMKDDFFIKIETWHKPDLGTIENVHN-LDPNTWKTVEI
          GFVR.I.PEGSLV.H.KA..A.P.CRT.V.NE.MKD.FFIKIE.W.KP.LGTIE..H..L..NTWK.V.I
Retrocopy GFVRIIVPEGSLVVHDKAF-AHPFCRTVVMNEHMKDNFFIKIESWNKPKLGTIEKAHD<LGSNTWKMVRI

Parental  VHIDIADRSQVEPADYKPDEDPALFQSVKTKRGPLGPNWKKDLANNQDSPQMCAYKLVTIKFKWWGLQSK
          V.I..AD..QVE.AD.K..EDPAL..S.KTK.G...P.WK..LANNQD.P.MCA.KL..IKFK.WGLQSK
Retrocopy VLINTAD*GQVELADSKQVEDPALLPSLKTK*GTSEPSWKQELANNQDCP*MCACKLEIIKFK*WGLQSK

Parental  VENFI
          .EN.I
Retrocopy TENII

Legend:

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

Expression

RNA-Seq

Macropus eugenii was not studied using RNA-Seq expression data.

ChIP-Seq

Macropus eugenii was not studied using ChIP-Seq data.

EST

No EST(s) were mapped for retro_meug_392 retrocopy.

TSS

Macropus eugenii was not studied using FANTOM5 data.

Lab

retro_meug_392 was not experimentally validated.

Homology

Retrocopy orthology:

Macropus eugenii 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 10 parental genes, and 14 retrocopies.

Species	Parental gene accession	Retrocopies number
Choloepus hoffmanni	ENSCHOG00000012309	2 retrocopies	retro_chof_2374, retro_chof_860,
Cavia porcellus	ENSCPOG00000012298	1 retrocopy	retro_cpor_957,
Macropus eugenii	ENSMEUG00000010442	3 retrocopies	retro_meug_392 , retro_meug_689, retro_meug_786,
Oryctolagus cuniculus	ENSOCUG00000000511	1 retrocopy	retro_ocun_1620,
Otolemur garnettii	ENSOGAG00000000391	1 retrocopy	retro_ogar_1300,
Ochotona princeps	ENSOPRG00000002540	1 retrocopy	retro_opri_931,
Tupaia belangeri	ENSTBEG00000000293	1 retrocopy	retro_tbel_4285,
Takifugu rubripes	ENSTRUG00000018546	1 retrocopy	retro_trub_36,
Tarsius syrichta	ENSTSYG00000001148	1 retrocopy	retro_tsyr_503,
Tursiops truncatus	ENSTTRG00000001278	2 retrocopies	retro_ttru_1060, retro_ttru_1439,