RetrogeneDB ID: retro_meug_1835

Retrocopy location

• Organism: Wallaby (Macropus eugenii)
• Coordinates: Scaffold64197:11682..12315(-)
• Located in intron of: None

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_1835
ATGATGATGGAGACCTTTGTGAAAGACTTTAAGCCAGGACTTAACAATCTGAATCTTACCTTCATTGTGCTAGAGACAGG
CTGAGTGACCAAGACAAAAGATGGACAGGCGGTGAGGACCTTCAAAGTGGCAGATAAAACAGGTAGCATCAGTATACCTC
TTTGGGATGATGTCAGCAACCTGATCCAACCTGGGGACATTATTCAGCTCATCAAGGGGTATGCTTCAGTATTTAAAGGC
TGTCTGAAGCTCTACACTGGCCATGGAGGTGATCTGCAGAAGACTGGAGAATTCTGTATGGTTAATTCTGAGATCCCCAA
CTTCAGTGAGCCAAAGCCTGAGCACAGTGCCCAGCAGCTCCTCAGCAAAACAGTACAGAGCAACAGTCCTTCTGCCACTT
TCCAGCCCCCTTCTGGCCCTCCTGCTGTCTCTCCAGCCTCCACAGTCAAAATTGGAATGGCCTAACCACCCTCCCTGGCC
CAGGCAGCGGCCCCCCATGTACCCCACACTCCCCCTCACCCTATCCGCACCCAAATTAATCAAAGTCAGTCTAGCCACAC
ACCTGCTGGCCCTCCAGGTCCCTCCTCCAACCCTGTCAGCCATGGCAAAGAGACCCAGAGAAGCAGCAAGAGA

Alignment

ORF - retro_meug_1835 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 80.75 %
• Parental protein coverage: 100.0 %
• Number of stop codons detected: 1
• Number of frameshifts detected: 2

Retrocopy - Parental Gene Alignment:

Parental  MTTETFVKDIKPGLKNLNLIFIVLETGRVTKTKDGHEVRTCKVADKTGSINISVWDDVGNLIQPGDIIRL
          M..ETFVKD.KPGL.NLNL.FIVLETG.VTKTKDG..VRT.KVADKTGSI.I..WDDV.NLIQPGDII.L
Retrocopy MMMETFVKDFKPGLNNLNLTFIVLETG*VTKTKDGQAVRTFKVADKTGSISIPLWDDVSNLIQPGDIIQL

Parental  TKGYASVFKGCLTLYTGRGGDLQKIGEFCMVYSEVPNFSEPNPEYSAQQLPSKTVQNDSPSATSQSPSGP
          .KGYASVFKGCL.LYTG.GGDLQK.GEFCMV.SE.PNFSEP.PE.SAQQL.SKTVQ..SPSAT.Q.PSGP
Retrocopy IKGYASVFKGCLKLYTGHGGDLQKTGEFCMVNSEIPNFSEPKPEHSAQQLLSKTVQSNSPSATFQPPSGP

Parental  PAVSPAS-ESQNGNGLTTPPGPGSG-PHAPHTPPHPISTRITRSQPSHTPAGAPGPSSNPVSNGKETRRS
          PAVSPAS..SQN.NGLTT.PGPGSG.PH.PHTPPHPI.T.I..SQ.SHTPAG.PGPSSNPVS.GKET.RS
Retrocopy PAVSPAS<HSQNWNGLTTLPGPGSG>PHVPHTPPHPIRTQINQSQSSHTPAGPPGPSSNPVSHGKETQRS

Parental  SKR
          SKR
Retrocopy SKR

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_1835 retrocopy.

TSS

Macropus eugenii was not studied using FANTOM5 data.

Lab

retro_meug_1835 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,