RetrogeneDB ID: retro_meug_1444

Retrocopy location

• Organism: Wallaby (Macropus eugenii)
• Coordinates: Scaffold40752:1478..2121(-)
• Located in intron of: None

Retrocopy information

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

Parental gene information

• Parental gene symbol: SNUPN
• Ensembl ID: ENSMEUG00000014501
• Aliases: None
• Description: snurportin 1 [Source:HGNC Symbol;Acc:14245]

Sequence

>retro_meug_1444
TGGCTGATTCATATATCTTCAGATCTGAAGTTGGAGTGGGATTATGGTGCTGTGTTCCATGGAGAAAAGACCCCTTGTCA
TGGCCTCAAAGGATTCCACAACAGTATAGATCAAGAATGAGTACTGTGTCAACGGATTTCCTTTCCTTATTCCTAGAGGC
AGTGAGTATAACTCAGCCATGGGAAAGAATACAAAACAATGGATTGCATCCGTACTAAAATTAACCAAACCTACTATTTT
CTAGATGTGATGTGCTGGGGGATGCCCTTTCTATGACTGCCAGGCAAATTTTAGATTCTATTGGATGCATTCAAACTTAT
CTGAAGAGAAGACACTTGGAGAGAAAACCAGGCTTAATTCATTTAAAATCCAGGGTATAAAGAATTTCCCATGCACCCCT
GAGAGCCTATGCAAGGTCTTATCCACTGACCTCTCTTAGGAGTTATATGGGCTTCTTTTCTATCATGTGCAAACACACCA
TAGCCCTGTAAGCACTCCATTAGTTGTCTGATTGCACCCATACATGCTGTAAGATGTCCTTGGCATGATGGTACCAATTG
GCCCTCTGACCACAAAGCCGGGCTATACTGTGCATTAGTTCTAGCAGATCACTGAATGCAAGAGAAGCAAAAACAAATGA
AAT

Alignment

ORF - retro_meug_1444 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 59.17 %
• Parental protein coverage: 60.28 %
• Number of stop codons detected: 7
• Number of frameshifts detected: 4

Retrocopy - Parental Gene Alignment:

Parental  WLIDSLSDPEHEW-IKVVCTIGKRSLIVASKGSTAAYTKSWNCVNRF-LSLFPGGFKHT-STXXXYTILD
          WLI...SD...EW.I.V.C...KR.L..ASK.ST....K...CVN.F.LSLF......T.S....Y...D
Retrocopy WLIHISSDLKLEW>IMVLCSMEKRPLVMASKDSTTV*IKNEYCVNGF>LSLFLEAVSIT>SHGKEYKTMD

Parental  CIYSELNQTYYVLDVMCWRGHP-VYDCQTDFRFYWMHSKLPEEQGLGXXXXXXXFKFVGLKNFPCTPESL
          CI....NQTYY.LDVMCW.G.P..YDCQ..FRFYWMHS.L.EE..LG.......FK..G.KNFPCTPESL
Retrocopy CIRTKINQTYYFLDVMCW-GMP>FYDCQANFRFYWMHSNLSEEKTLGEKTRLNSFKIQGIKNFPCTPESL

Parental  CKVLSTDFPFEVDGLLFYHKQTHYSPGSTPLVGWLRPYMVSDVLGMTVPAGPLTTKPDYAVHQLQQIIEH
          CKVLSTD...E..GLLFYH.QTH.SP.STPLV..L.PYM..DVLGM.VP.GPLTTKP.Y.VH...QI.E.
Retrocopy CKVLSTDLS*ELYGLLFYHVQTHHSPVSTPLVV*LHPYML*DVLGMMVPIGPLTTKPGYTVH*F*QITEC

Parental  KRSKKEAN
          KRSK...N
Retrocopy KRSKNK*N

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_1444 retrocopy.

TSS

Macropus eugenii was not studied using FANTOM5 data.

Lab

retro_meug_1444 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 4 parental genes, and 5 retrocopies.

Species	Parental gene accession	Retrocopies number
Macropus eugenii	ENSMEUG00000014501	1 retrocopy	retro_meug_1444 ,
Mus musculus	ENSMUSG00000055334	1 retrocopy	retro_mmus_752,
Otolemur garnettii	ENSOGAG00000004915	1 retrocopy	retro_ogar_1420,
Rattus norvegicus	ENSRNOG00000005426	2 retrocopies	retro_rnor_2283, retro_rnor_714,