RetrogeneDB ID: retro_meug_1458

Retrocopy location

• Organism: Wallaby (Macropus eugenii)
• Coordinates: Scaffold41276:8197..8866(-)
• Located in intron of: None

Retrocopy information

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

Parental gene information

• Parental gene symbol: GALK1
• Ensembl ID: ENSMEUG00000013012
• Aliases: None
• Description: galactokinase 1 [Source:HGNC Symbol;Acc:4118]

Sequence

>retro_meug_1458
GATGGTCTCATCTCTCTTGTAACAACCTTGTAGTATGCTGATGAGCCAAGGCAGGTAGAGTTCCCAGTACCTGCTGCAGA
ACAGCCTCTGAAACCTGGGATGCCTCTTTGGGCCAACTACGTAAAGGGGATGATACAGTATTATTCAGCTGGTCCCCTCC
CTGGCTTCAATGCAGTGGTGATCAACTCAGTGCTCTGAGTGATGGACTGTCCAGTTCTGCATCCCTGGAAGTGGCAATTT
ATACCTTCTTGCAGCAGCTTTGCCCAGACTCTGTGGCAGCCGCCATGCGTGCTCAGGTGTGTCAGCAGGCAGAGCACAGC
TTTGCAGGGGTGCCCTGTGGCATCAAGGACCAGCTCATCTCATTGTTCAGGCTGACGAGCCACCCCCTACTCATTAATTG
CAAGTCCCTAGAGACACGCCTGGTGCCCTTGTGAGACTTAGGGGTAGCTGTGCTCATTACCAGCTTCAATGTCAGTCACT
CACTTGGTTCCAGTGAGTACCCTATATGCTGGCATCAGTGTGAATCACCTCCCAAGGCACTGGGCAAGAAGAGTTTGCGA
GAAGTAGACATGGAAGATCTAGAGGCCCGGGAAGGAGCTACTGACCAAGGAGGAATTCCAGTGGACACAGCACATTGTGG
GGGAGATTCAGTGCACATCTGAGGCTGCA

Alignment

ORF - retro_meug_1458 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 77.33 %
• Parental protein coverage: 54.39 %
• Number of stop codons detected: 2
• Number of frameshifts detected: 2

Retrocopy - Parental Gene Alignment:

Parental  DGLISLVTTSEYADEPRRVEFPLPTADQPLEPGMPRWANYVKGVIQHYPASPLPGFSAVVTSSV-PLGGG
          DGLISLVTT..YADEPR.VEFP.P.A.QPL.PGMP.WANYVKG.IQ.Y.A.PLPGF.AVV..SV..L..G
Retrocopy DGLISLVTTL*YADEPRQVEFPVPAAEQPLKPGMPLWANYVKGMIQYYSAGPLPGFNAVVINSV<ALSDG

Parental  LSSSASLEVATYTFLQQLCPDSVAAVMRAQVCQQAEHSFAGVPCGIMDQLISLFGQKGHALLIDCRSLET
          LSSSASLEVA.YTFLQQLCPDSVAA.MRAQVCQQAEHSFAGVPCGI.DQLISLF....H.LLI.C.SLET
Retrocopy LSSSASLEVAIYTFLQQLCPDSVAAAMRAQVCQQAEHSFAGVPCGIKDQLISLFRLTSHPLLINCKSLET

Parental  CPVPLSDPGVAVLITNSNVRHSLGSSEYPIRRRQCESAAKALGKKSLREVDMKDLEAR-KELLTKEEFRR
          ..VPL.D.GVAVLIT..NV.HSLGSSEYPI...QCES..KALGKKSLREVDM.DLEAR.KELLTKEEF..
Retrocopy RLVPL*DLGVAVLITSFNVSHSLGSSEYPICWHQCESPPKALGKKSLREVDMEDLEAR>KELLTKEEFQW

Parental  ARHVVGEIQRTSDGA
          ..H.VGEIQ.TS..A
Retrocopy TQHIVGEIQCTSEAA

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_1458 retrocopy.

TSS

Macropus eugenii was not studied using FANTOM5 data.

Lab

retro_meug_1458 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 2 parental genes, and 2 retrocopies.

Species	Parental gene accession	Retrocopies number
Macropus eugenii	ENSMEUG00000013012	1 retrocopy	retro_meug_1458 ,
Rattus norvegicus	ENSRNOG00000006359	1 retrocopy	retro_rnor_1839,