RetrogeneDB ID: retro_meug_357

Retrocopy location

• Organism: Wallaby (Macropus eugenii)
• Coordinates: Scaffold104811:3379..4318(-)
• Located in intron of: None

Retrocopy information

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

Parental gene information

• Parental gene symbol: HNRNPK
• Ensembl ID: ENSMEUG00000006975
• Aliases: None
• Description: heterogeneous nuclear ribonucleoprotein K [Source:HGNC Symbol;Acc:5044]

Sequence

>retro_meug_357
AAGCGCCCTGCTGAAGATATGGAAGGGAGCAGGCCTTTAAAAGATTTAGAAACACTGACAAGATGGTTGAACTGCGCTTT
TTGTTTCAAAGCAAGAATGCTGGATCGGTGATTGGGAAAGGAGGCAAAAATATTAAAGCACTTCATACAGATTACAATGC
AAGTGTTTCAGTCCCAGACAGCAGTGGTCCCAAGAGCATATTGAGTATCAGTGCAGATATTGAAACAACTGGAGAAATTC
TGAAGAAAATCATCCCTACCTTGGAAGAGGGCCTACAGTTGCCCTCACCCACTGCAACCAGCCAGCTTCCTCTCAAATCT
GATGCTGTGGAATGCTTAAATTACCAACACTATAAAGGAAGCCACTTTGATTGTAAGTTAAGACTGTTGATTCACCAGAG
TTTGGCAGGAAGAATTATTAGGGTCAAATGTGCTAAAATCAAGGAACTTCAAGAGAACACTCAGACAACTATCAAGCTTT
TCCAGGAATGCTGTCCTCATTCTACAGATATTGGGGGAAAGCCTGATAGGTTGTGGAGTGCATAAAGATCATACTGGATC
TTATATCTGAGTCTTCCATAAAATGACGTGCACAACCCTATTATCCCAATTTCTATGATGAAACCTCTGACTATGGTGGT
TTCACAATGATGCTTGATGATTCGCCGAGGATGTCCTGTCGGATTTCCCATGCGGGGAAGAGGAGGCTTTGATGGAATCA
AAACCAGGTCATGGTGGGCATCCTATGCCCCCATCTAGAAGAGATTATGATGACATGAGCCCTTGCAGAGGAACCCCTCC
ACCTCCTCCTGGATGTGGCAGCAGGGGTGGTAGCAGAGCTCCAAATCTTTCTTTTCCTCCACCACCACCACCACCTAGAG
GAGGAGATCTTATGGCTTATGACAGAAGAGGAAGACCCAGTGACTATTATGGTGGCATG

Alignment

ORF - retro_meug_357 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 82.87 %
• Parental protein coverage: 71.17 %
• Number of stop codons detected: 1
• Number of frameshifts detected: 4

Retrocopy - Parental Gene Alignment:

Parental  KRPAEDME-EEQAFKRSRNTDEMVELRILLQSKNAGAVIGKGGKNIKALRTDYNASVSVPDSSGPERILS
          KRPAEDME..EQAFKR.RNTD.MVELR.L.QSKNAG.VIGKGGKNIKAL.TDYNASVSVPDSSGP..ILS
Retrocopy KRPAEDME<REQAFKRFRNTDKMVELRFLFQSKNAGSVIGKGGKNIKALHTDYNASVSVPDSSGPKSILS

Parental  ISADIETIGEILKKIIPTLEEGLQLPSPTATSQLPLXXXXXXXXXYQHYKGSDFDCELRLLIHQSLAGGI
          ISADIET.GEILKKIIPTLEEGLQLPSPTATSQLPL.........YQHYKGS.FDC.LRLLIHQSLAG.I
Retrocopy ISADIETTGEILKKIIPTLEEGLQLPSPTATSQLPLKSDAVECLNYQHYKGSHFDCKLRLLIHQSLAGRI

Parental  IGVKGAKIKELRENTQTTIKLFQECCPHSTDRVVLIGGKPDR-VVECIKIILDLISESPIKGRAQPYDPN
          I.VK.AKIKEL.ENTQTTIKLFQECCPHSTD....IGGKPDR.VVECIKIILDLISES.IK.RAQPY.PN
Retrocopy IRVKCAKIKELQENTQTTIKLFQECCPHSTD----IGGKPDR<VVECIKIILDLISESSIK*RAQPYYPN

Parental  FYDETYDYGGFTMMFDD-RRGRPVGFPMRGRGGFD-RMPPGRGGRPMPPSRRDYDDMSPRRGPPPPPPGR
          FYDET.DYGGFTMM.DD.RRG.PVGFPMRGRGGFD....PG.GG.PMPPSRRDYDDMSP.RG.PPPPPG.
Retrocopy FYDETSDYGGFTMMLDD>RRGCPVGFPMRGRGGFD>ESKPGHGGHPMPPSRRDYDDMSPCRGTPPPPPGC

Parental  GGRGGSRARNLPL-PPPPPPRGGDLMAYDRRGRPGDRYDGM
          G.RGGSRA.NL...PPPPPPRGGDLMAYDRRGRP.D.Y.GM
Retrocopy GSRGGSRAPNLSFPPPPPPPRGGDLMAYDRRGRPSDYYGGM

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_357 retrocopy.

TSS

Macropus eugenii was not studied using FANTOM5 data.

Lab

retro_meug_357 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 12 parental genes, and 33 retrocopies.

Species	Parental gene accession	Retrocopies number
Gorilla gorilla	ENSGGOG00000015500	2 retrocopies	retro_ggor_1764, retro_ggor_1866,
Macropus eugenii	ENSMEUG00000001887	7 retrocopies	retro_meug_1143, retro_meug_1988, retro_meug_432, retro_meug_526, retro_meug_618, retro_meug_828, retro_meug_964,
Macropus eugenii	ENSMEUG00000006975	3 retrocopies	retro_meug_271, retro_meug_357 , retro_meug_484,
Myotis lucifugus	ENSMLUG00000005871	2 retrocopies	retro_mluc_128, retro_mluc_561,
Macaca mulatta	ENSMMUG00000018871	1 retrocopy	retro_mmul_2111,
Monodelphis domestica	ENSMODG00000008402	1 retrocopy	retro_mdom_1666,
Mus musculus	ENSMUSG00000021546	2 retrocopies	retro_mmus_1131, retro_mmus_2137,
Otolemur garnettii	ENSOGAG00000007478	3 retrocopies	retro_ogar_2635, retro_ogar_2966, retro_ogar_3086,
Pongo abelii	ENSPPYG00000019327	3 retrocopies	retro_pabe_2105, retro_pabe_2106, retro_pabe_42,
Sarcophilus harrisii	ENSSHAG00000017109	1 retrocopy	retro_shar_820,
Tursiops truncatus	ENSTTRG00000004906	1 retrocopy	retro_ttru_1622,
Tursiops truncatus	ENSTTRG00000016693	7 retrocopies	retro_ttru_1144, retro_ttru_180, retro_ttru_1922, retro_ttru_444, retro_ttru_813, retro_ttru_930, retro_ttru_937,