RetrogeneDB ID: retro_meug_123

Retrocopy location

• Organism: Wallaby (Macropus eugenii)
• Coordinates: GeneScaffold_3372:18163..18682(-)
• Located in intron of: ENSMEUG00000012736

Retrocopy information

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

Parental gene information

• Parental gene symbol: NABP2
• Ensembl ID: ENSMEUG00000004485
• Aliases: None
• Description: nucleic acid binding protein 2 [Source:HGNC Symbol;Acc:28412]

Sequence

>retro_meug_123
CATGAGGTGAGGATCTGCAAAGTAGCAGACAAAACAGGTAGCATCAATATATCTGTTTGGGATGATATTGGCAACCTGAT
CCATCCTGGGGACATTATCCGACTCACCAAGGGGTATACTTCAGTTTTAAAGGCTTTCAGACCCTCTACACTGACCATGG
GGTTGATGTACAGAAGATTGGAGAATTCTGTATGGTTTATTCTGAGGGCCCCAACTTCAGCAAGCCAGACCCTGAGTAGA
GTGCCCAGCAGCTCCCCAGCAAGATGATACAGAACAACAGTACCTCTGCCACTTCCCAGCCTCCAGCTGGCTTTTCTGCA
GCCTCTCCAGACTCTGAGAGTCAGAATGGGAATGGCCTTACCACCCCCCTCCCCACCCTCGCCCAGGCAGTGATCCCTAT
TCACCCCATGTTCCCCTTCACCCCACCAGCATATGAATCACTGGAAGTCAGCCTAGCCACAATCAGCTTTTGCTGGCACT
CTAAGCCCCTCCTCCAATCCTGTCAGCAACGGCAAAGAA

Alignment

ORF - retro_meug_123 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 65.14 %
• Parental protein coverage: 80.09 %
• Number of stop codons detected: 3
• Number of frameshifts detected: 2

Retrocopy - Parental Gene Alignment:

Parental  HEVRTCKVADKTGSINISVWDDVGNLIQPGDIIRLTKGYASV-FKGCLTLYTGRGGDLQKIGEFCMVYSE
          HEVR.CKVADKTGSINISVWDD.GNLI.PGDIIRLTKGY.SV.FKG..TLYT..G.D.QKIGEFCMVYSE
Retrocopy HEVRICKVADKTGSINISVWDDIGNLIHPGDIIRLTKGYTSV<FKGFQTLYTDHGVDVQKIGEFCMVYSE

Parental  VPNFSEPNPEYSAQQLPSKTVQNDSPSATSQSPSGPPAVSPASESQN-GNGLTTPPGPGSGPHAPHTP--
          .PNFS.P.PE.SAQQLPSK..QN.S.SATSQ.P.G..A.SP.SESQN.G..L..P..P........TP..
Retrocopy GPNFSKPDPE*SAQQLPSKMIQNNSTSATSQPPAGFSAASPDSESQN>GMALPPPSPPSPRQ*SLFTPCS

Parental  --PHPISTRITRSQPSHTPAGAPGPSSNPVSNGKE
          ..PH..........P....AG...PSSNPVSNGKE
Retrocopy PSPHQHMNHWKSA*PQSAFAGTLSPSSNPVSNGKE

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_123 retrocopy.

TSS

Macropus eugenii was not studied using FANTOM5 data.

Lab

retro_meug_123 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 8 parental genes, and 11 retrocopies.

Species	Parental gene accession	Retrocopies number
Bos taurus	ENSBTAG00000002798	1 retrocopy	retro_btau_545,
Callithrix jacchus	ENSCJAG00000011455	1 retrocopy	retro_cjac_1961,
Dasypus novemcinctus	ENSDNOG00000013517	1 retrocopy	retro_dnov_1189,
Erinaceus europaeus	ENSEEUG00000001325	1 retrocopy	retro_eeur_1,
Gorilla gorilla	ENSGGOG00000009050	1 retrocopy	retro_ggor_2094,
Macropus eugenii	ENSMEUG00000004485	4 retrocopies	retro_meug_1118, retro_meug_123 , retro_meug_1835, retro_meug_540,
Mustela putorius furo	ENSMPUG00000001297	1 retrocopy	retro_mputfur_59,
Sarcophilus harrisii	ENSSHAG00000002240	1 retrocopy	retro_shar_493,