RetrogeneDB ID: retro_meug_1854

Retrocopy location

• Organism: Wallaby (Macropus eugenii)
• Coordinates: Scaffold6629:6775..8096(-)
• Located in intron of: None

Retrocopy information

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

Parental gene information

• Parental gene symbol: EIF2D
• Ensembl ID: ENSMEUG00000008777
• Aliases: None
• Description: eukaryotic translation initiation factor 2D [Source:HGNC Symbol;Acc:6583]

Sequence

>retro_meug_1854
GTTACAATTGGAGTGGCCACCATGTCTATAGCTAAGATGCTGGTCTCTGAACTGAAGGGGAGAGGTTTTATGGTGCTTCA
TACCTACCTTGACCATTTGTAGCAATTTGGGGCCAAATCATCTCCACCCTCCATTGCCCTGTTGGACCAGGATCTTCTAG
AGTGTAGAGGGAACATTAAAGAGGAGGGGCCAGTATAGGTAGATTCTGTTCTTCAGGGAAACATGGAATGTCTCACCCTG
CAAGGAGACATTGAGAGCAGCATGGCTCATAAGGCACCTCCTTCACAAGCCACCAAGGAATGGAGGGAAGCACGAATGGA
CCAAGACCCAGCTGATGGCAAGACCTTTCAAGAGCAAATGGATGAACTGTTGCTGAGATGTTTCTTCCATGCCCTGAAGT
GCCAGGCCACAAAGACTGGCCTCCCTTTACTCACCAGTACTTTCCTGGGTAGCCACATGTTTTTCTGCTGCCTTGAAGGA
CAACAGTTGGACATAAAAAAGTCAAGCTACAAAACGCTCTCCAAGTTTCTGCACCACATGATGAAGGAGCAGATTGTACA
GGTGAAAGAACTGAGCAAAGGTGTGGAGAGCATTGTGGCAGTGGACTGGAAACACCCCAGGATTACATCTTTTGTCATGC
CTGAGCCCTCCCCAACTGCCCAGAGTGTCCAAGAGGATACCAAAGAAAAGCTTTATCACCCACCAGAGATCAAACCACTT
TACTGTATCCCAGCCAACATGACTTCTCTCTTCCATGCATCTGGTCACACGAAGGGGATCACCCTCTCAGGCAGTGAAGT
CCGTGCAATCATCATTGACTATGCAAAGAAAAACAATCTGATTGATGCAAACAACAAAATCTTGTGAAGATGGATCCCAT
TTTGTGTGACTGCATCTTGGAAAAAGCCGAACAACACATAATATTGAGGCTTTCTTGGGATAAACTCATTGAAAGGTTCC
TGCAGAGATTGAAGCCTGCTTATCAAATGACCTTTTATGGCCAAGAGCCTATTGTGAAGAAACTAAGAATCTGTCCAATT
GACATCACCTTAGCACAGAGAGCATGCAATGAAAAGGTGACCTTGATCCATAACCTGGAGGTCTTTGGTCTTGACCCACA
TTCCATGGCTGCCATCCCGCAACAACAGGGAAGGCCAGTGCCACCATCACCCCTGTCCCAGGGCCTAAGGATGCCATTCA
GGTCCAAATCCAAGGAAATCAGATCAATCATTTAAGTCGGCTCTTGCTTGAAGAATATGACATCCCTCGAAAATATAGCC
AAGGTTTGGAAAAGGCTCCCAAGACTGGCAAGAAGAAGTCA

Alignment

ORF - retro_meug_1854 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 88.26 %
• Parental protein coverage: 75.51 %
• Number of stop codons detected: 2
• Number of frameshifts detected: 2

Retrocopy - Parental Gene Alignment:

Parental  VAIGVATMSTAEMLASGLNWRGFTVLHTYLDHLWQFGAKSSPPSIALLDQDPPECRGNVKEEGPVQVDSV
          V.IGVATMS.A.ML.S.L..RGF.VLHTYLDHL.QFGAKSSPPSIALLDQD..ECRGN.KEEGPV.VDSV
Retrocopy VTIGVATMSIAKMLVSELKGRGFMVLHTYLDHL*QFGAKSSPPSIALLDQDLLECRGNIKEEGPV*VDSV

Parental  LQGDMECLTLHGDAESSMAHKALPSEATEEWREAGMDQDPADGKTFQEQMDELLLRCFFHALKCRVTKAD
          LQG.MECLTL.GD.ESSMAHKA.PS.AT.EWREA.MDQDPADGKTFQEQMDELLLRCFFHALKC..TK..
Retrocopy LQGNMECLTLQGDIESSMAHKAPPSQATKEWREARMDQDPADGKTFQEQMDELLLRCFFHALKCQATKTG

Parental  LPLLTSTFLGSHMFSCCPEGQQLDIKKSSYKKLSKFLHHMMKEQIVQVKELSKGVESIVAVDWKHPRITS
          LPLLTSTFLGSHMF.CC.EGQQLDIKKSSYK.LSKFLHHMMKEQIVQVKELSKGVESIVAVDWKHPRITS
Retrocopy LPLLTSTFLGSHMFFCCLEGQQLDIKKSSYKTLSKFLHHMMKEQIVQVKELSKGVESIVAVDWKHPRITS

Parental  FVVPEPSPTAQGVQEDTKEKPYHPPEIEPLYCIPANMTSLFQASGHTKGSTLSGSEVRAIIIDYAKKNNL
          FV.PEPSPTAQ.VQEDTKEK.YHPPEI.PLYCIPANMTSLF.ASGHTKG.TLSGSEVRAIIIDYAKKNNL
Retrocopy FVMPEPSPTAQSVQEDTKEKLYHPPEIKPLYCIPANMTSLFHASGHTKGITLSGSEVRAIIIDYAKKNNL

Parental  VDANNK-NLVKMDPILCDCILEKAEQHTILTLSWDKLIERCLQRLKPAYQVTFYGQEPIVKKGKICPIDI
          .DANNK.NLVKMDPILCDCILEKAEQH.IL.LSWDKLIER.LQRLKPAYQ.TFYGQEPIVKK..ICPIDI
Retrocopy IDANNK<NLVKMDPILCDCILEKAEQHIILRLSWDKLIERFLQRLKPAYQMTFYGQEPIVKKLRICPIDI

Parental  TLAQRACNKKVTLIRNLEVFGLDPHSVAAILQQR-GQASATITPVPGAKDAIQVQIQGNQINHLSRLLLE
          TLAQRACN.KVTLI.NLEVFGLDPHS.AAI.QQ..G.ASATITPVPG.KDAIQVQIQGNQINHLSRLLLE
Retrocopy TLAQRACNEKVTLIHNLEVFGLDPHSMAAIPQQQ<GKASATITPVPGPKDAIQVQIQGNQINHLSRLLLE

Parental  EYHLPRKYIQGLEKAPKTGKKKS
          EY..PRKY.QGLEKAPKTGKKKS
Retrocopy EYDIPRKYSQGLEKAPKTGKKKS

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_1854 retrocopy.

TSS

Macropus eugenii was not studied using FANTOM5 data.

Lab

retro_meug_1854 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.

---

Parental genes homology:

Parental genes homology involve 4 parental genes, and 4 retrocopies.

Species	Parental gene accession	Retrocopies number
Macropus eugenii	ENSMEUG00000008777	1 retrocopy	retro_meug_1854 ,
Myotis lucifugus	ENSMLUG00000001410	1 retrocopy	retro_mluc_63,
Monodelphis domestica	ENSMODG00000002070	1 retrocopy	retro_mdom_2028,
Sarcophilus harrisii	ENSSHAG00000017769	1 retrocopy	retro_shar_54,