RetrogeneDB ID: retro_meug_2049

Retrocopy location

• Organism: Wallaby (Macropus eugenii)
• Coordinates: Scaffold8402:46578..47347(+)
• Located in intron of: None

Retrocopy information

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

Parental gene information

• Parental gene symbol: NRBF2
• Ensembl ID: ENSMEUG00000010849
• Aliases: None
• Description: nuclear receptor binding factor 2 [Source:HGNC Symbol;Acc:19692]

Sequence

>retro_meug_2049
GCAGGGAAATACAAACAGGTCATTTTGTGTCACCAAGAGGTGGGCACATATCTTTTTGAAACCATGAAGCTGACACAGTC
TGAACAGCGTCAGTTATCACTGGAATTACAAAGGGATATCCACATGAAATAACTCTTGCTTTTTCAGGATAGGTGGAAAA
GGGTCAACTGGAGGAAAGGTGGAAGGTCCAGCAGACTCCTGATGGAAACTTTCATCTTCTCTAGTCTATCAGGCTGCTGC
CTGAGGATAGATCTGAGGGCCCAAACATGCCAAGGTCTCAGCAGTTTAGTTCTGCAACGGTGCCAGGGGTCCTTGAAAAG
GACCCAGAACTCTTCTTTTTCTCCCTCAGACGAGGAAAATCCCAATAGAACTGTTTCCTGGCAGCAAAGTTCTCAAAAAC
GCAAAACAACAATAGAAGATCAAGCCATCAAGGTTGCTGTTCTGAAGTGACACGTGGAGTTTCTTGTGACCTGACAATGA
AAGGTTGATGAACGAAAACAAGCAGCTCCGGGTTGAAAAGGTCAGGCTCCCAAAAGCTCTGCCTGACAAGGAATTGGATG
CAGATGCTGATTTTGTAGAAGAATCAGAATTATGGATTCTGCCTCCCCCTGCACAGACTGCCACACCCTCTTTTCCCTGA
CAGGAGTTTGCAGCCATCACAGGGAAAGCCAAAGACATTCCCATCCCCAACCTTCCTCCCTTGGACTTCCCATCCCCAGA
GCTCCTGCTTCTGGAACTCCCGGAAGATGTTCTGAAAGGACTCATAAAC

Alignment

ORF - retro_meug_2049 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 68.2 %
• Parental protein coverage: 94.83 %
• Number of stop codons detected: 4
• Number of frameshifts detected: 4

Retrocopy - Parental Gene Alignment:

Parental  AGKYEEAILCHQKAAXXXXXXXXXXXXXXAQLSLELQRDSHMKQLLLIQERWKRA-KREERWKAQQTPDE
          AGKY...ILCHQ..................QLSLELQRD.HMK.LLL.Q.RWKR....EERWK.QQTPD.
Retrocopy AGKYKQVILCHQEVGTYLFETMKLTQSEQRQLSLELQRDIHMK*LLLFQDRWKRV<QLEERWKVQQTPDG

Parental  TPHLLMSTRPLTEDGSEGPSVPRSQQFSPASVPGVLDRDPD-TLLFLLQKRKDPTELCPGSKVPKDDK-T
          ..HLL.S.R.L.ED.SEGP..PRSQQFS.A.VPGVL..DP..TLLFL.Q.RK.P.EL.PGSKV.K..K.T
Retrocopy NFHLL*SIRLLPEDRSEGPNMPRSQQFSSATVPGVLEKDPE<TLLFLPQTRKIPIELFPGSKVLKNAK<T

Parental  TIEEQATKIADLKRHVEFLVA-DNERLRRENKQLRAEKAKLQKAPPEKELDVDADFVEKSELWSLPPSAQ
          TIE.QA.K.A.LK.HVEFLV..DNERL..ENKQLR.EK..L.KA.P.KELD.DADFVE.SELW.LPP.AQ
Retrocopy TIEDQAIKVAVLK*HVEFLVT>DNERLMNENKQLRVEKVRLPKALPDKELDADADFVEESELWILPPPAQ

Parental  TATASSPWQEFAASTGKSKDIPIPNLPPLDFPSPELPLLELSEDILKGLMN
          TAT.S.P.QEFAA.TGK.KDIPIPNLPPLDFPSPEL.LLEL.ED.LKGL.N
Retrocopy TATPSFP*QEFAAITGKAKDIPIPNLPPLDFPSPELLLLELPEDVLKGLIN

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_2049 retrocopy.

TSS

Macropus eugenii was not studied using FANTOM5 data.

Lab

retro_meug_2049 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 13 parental genes, and 26 retrocopies.

Species	Parental gene accession	Retrocopies number
Choloepus hoffmanni	ENSCHOG00000004648	3 retrocopies	retro_chof_1032, retro_chof_2250, retro_chof_2568,
Homo sapiens	ENSG00000148572	3 retrocopies	retro_hsap_2643, retro_hsap_3999, retro_hsap_433,
Gorilla gorilla	ENSGGOG00000013016	2 retrocopies	retro_ggor_1846, retro_ggor_2685,
Macropus eugenii	ENSMEUG00000010849	3 retrocopies	retro_meug_1385, retro_meug_2049 , retro_meug_671,
Macaca mulatta	ENSMMUG00000017726	1 retrocopy	retro_mmul_1523,
Monodelphis domestica	ENSMODG00000017183	1 retrocopy	retro_mdom_1995,
Mus musculus	ENSMUSG00000075000	2 retrocopies	retro_mmus_1278, retro_mmus_1279,
Otolemur garnettii	ENSOGAG00000005856	1 retrocopy	retro_ogar_2110,
Pongo abelii	ENSPPYG00000002411	3 retrocopies	retro_pabe_2327, retro_pabe_3285, retro_pabe_3286,
Pan troglodytes	ENSPTRG00000002539	3 retrocopies	retro_ptro_1780, retro_ptro_194, retro_ptro_2715,
Rattus norvegicus	ENSRNOG00000000641	2 retrocopies	retro_rnor_1681, retro_rnor_994,
Sarcophilus harrisii	ENSSHAG00000004744	1 retrocopy	retro_shar_427,
Ictidomys tridecemlineatus	ENSSTOG00000011341	1 retrocopy	retro_itri_183,