RetrogeneDB ID: retro_meug_1409

Retrocopy location

• Organism: Wallaby (Macropus eugenii)
• Coordinates: Scaffold395197:1813..3018(+)
• Located in intron of: None

Retrocopy information

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

Parental gene information

• Parental gene symbol: WASH4P
• Ensembl ID: ENSMEUG00000003621
• Aliases: None
• Description: WAS protein family homolog 4 pseudogene [Source:HGNC Symbol;Acc:14126]

Sequence

>retro_meug_1409
AAGAGAGTCTCTTTGGCTCAGGCCAAGATTGAGAAGATCAAGGGCAGCAAGAAAGCAATCAAGGTGTTCTCTAGTGCCAA
GTATCCAACTCCAGAGAAAGTGCAGGAGAACAACTTCATCTTTGCAGGAGCCCAGGATCCTGGGTCTCAGAGGAGCCTCC
GACACAAGATCCAGAGCAGACATTGACACCTAGAAGAAACGGTCTTGCAGAAAAAAATGGAAGTACTTCCCCGTGTGTGA
GCACCAGACCCCAGGCTGAAGATAAGGCCGAGGAGGAACTTGGGGGCCTCCCCAGCAGCATCAAACTCCCTCAGCTCGTT
GCTGTTTTTCAACACCACTGAGAACTTGTACAAGAAATATGTCTTTCTGGACCCTCTGGCTGGGGCTGTGATAAAGACTC
ATGTGATACTAGAGATAGAGACTGAGAAGTTGTTTGATGCCCCCTTATCTACCAGCAAAAGGGAGCAACTGGAGCAGCAG
GTAGCAGAGAATTACTTTTATGTACCAGATCTGGGCCAGGTGCCTGAGATTGATGTGCCATCCTACCTTCCTGACCTTCC
TGGCATTGCTGATGATCTCATGTACAGTGCTGATCTAGGCCCTGGCATAGCACCTTCTGCCCCTGGCACCATTCCTGAGC
TACTCACCTTCAACACTGAACTTGCCTAGCCATTTAAGTCAGAAATAGATGGTGGCATGCCAGTAACACGCCCACCACCT
CCACTTCCACCACCTCCTCTACCAGCGCCTGTGGTATTGATCAGTGCACCTCCACCCCCTCCTCTGTCCCAGTTCACCTC
AGCCCAACCAGCCAGTGAGGATAACAGCAGCATGCCTCCTTCAGGTGCAGTTCACATATCCCCAAAAGAAGTAGTGGATC
CTTCCAGATGGGCAACCCTGCTAAAGTCAATTCACCAGGCCGAGGTATTGGCAAGGCCAAGCTACAGAGTATGAAGGAGT
GAAAGCTGCAGAAAAAGAGGCAGAAAGAACAGGAACAAGTGAGAGTCACAAGCCAAGGTGGTGACCTAATGTTAGATCTT
TTCAACAAACTAGTCATGAAGTGCAAAGGCATCTCAGGGAAAGAACCTGGGGCAAGCACTGGGGAAGGCCCTGGGGGAGC
CTTTGCCAGAATATCAGACTCAATTCCACCCCTACCAATGCTGCAACAACCACCTGGAGAGGAAGATGAGGATGAGTGGG
AGTCA

Alignment

ORF - retro_meug_1409 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 82.06 %
• Parental protein coverage: 96.16 %
• Number of stop codons detected: 3
• Number of frameshifts detected: 3

Retrocopy - Parental Gene Alignment:

Parental  ERVSLAQAKIEKIKGSKKAIKVFSSAKYPAPDRLQEYNSIFAGAQDPGSQRRLRHKIQSKHRPLDERALQ
          .RVSLAQAKIEKIKGSKKAIKVFSSAKYP.P...QE.N.IFAGAQDPGSQR.LRHKIQS.H..L.E..LQ
Retrocopy KRVSLAQAKIEKIKGSKKAIKVFSSAKYPTPEKVQENNFIFAGAQDPGSQRSLRHKIQSRH*HLEETVLQ

Parental  EKLKYFP-VCVSTRPQPEDEAEEGLGGLPSNI-NSLSSLLLFNTTENLYKKYVFLDPLAGAVTKTHVTLG
          .K....P..CVSTRPQ.ED.AEE.LGGLPS.I.NSLSSLL.FNTTENLYKKYVFLDPLAGAV.KTHV.L.
Retrocopy KKMEVLP<PCVSTRPQAEDKAEEELGGLPSSI>NSLSSLLFFNTTENLYKKYVFLDPLAGAVIKTHVILE

Parental  TETEKLFDAPLSISKREQLEQQVAENYFYVPDLGQVPEINVPSYLPDLPGIADDLMYSADLGPGIAPSAP
          .ETEKLFDAPLS.SKREQLEQQVAENYFYVPDLGQVPEI.VPSYLPDLPGIADDLMYSADLGPGIAPSAP
Retrocopy IETEKLFDAPLSTSKREQLEQQVAENYFYVPDLGQVPEIDVPSYLPDLPGIADDLMYSADLGPGIAPSAP

Parental  GTIPELPTFNTELAEPFKPELDGDTPVAPPPPPPLPPPPPPAPVVLVSAPPPPPLPQLTSA-ASQEDNSS
          GTIPEL.TFNTELA.PFK.E.DG..PV...PPPPLPPPP.PAPVVL.SAPPPPPL.Q.TSA....EDNSS
Retrocopy GTIPELLTFNTELA*PFKSEIDGGMPVT-RPPPPLPPPPLPAPVVLISAPPPPPLSQFTSAQPASEDNSS

Parental  MSPS--VHIPPKEVVDPSSGRATLLESIRQA-GGIGKAKLRSVKERKLEKKKQKEQEQVRATSQGGDLMS
          M.PS..VHI.PKEVVDPS...ATLL.SI.QA..GIGKAKL.S.KE.KL.KK.QKEQEQVR.TSQGGDLM.
Retrocopy MPPSGAVHISPKEVVDPSRW-ATLLKSIHQA<RGIGKAKLQSMKE*KLQKKRQKEQEQVRVTSQGGDLML

Parental  DLFNKLVMRRKGISGKGPGASTGEGPGGAFARMSDSIPPLPMLQPPPGEEDEDEWES
          DLFNKLVM..KGISGK.PGASTGEGPGGAFAR.SDSIPPLPMLQ.PPGEEDEDEWES
Retrocopy DLFNKLVMKCKGISGKEPGASTGEGPGGAFARISDSIPPLPMLQQPPGEEDEDEWES

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_1409 retrocopy.

TSS

Macropus eugenii was not studied using FANTOM5 data.

Lab

retro_meug_1409 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 2 parental genes, and 2 retrocopies.

Species	Parental gene accession	Retrocopies number
Canis familiaris	ENSCAFG00000015743	1 retrocopy	retro_cfam_843,
Macropus eugenii	ENSMEUG00000003621	1 retrocopy	retro_meug_1409 ,