RetrogeneDB ID: retro_meug_675

Retrocopy location

• Organism: Wallaby (Macropus eugenii)
• Coordinates: Scaffold1583:54191..54608(+)
• Located in intron of: None

Retrocopy information

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

Parental gene information

• Parental gene symbol: EIF1AD
• Ensembl ID: ENSMEUG00000004948
• Aliases: None
• Description: eukaryotic translation initiation factor 1A domain containing [Source:HGNC Symbol;Acc:28147]

Sequence

>retro_meug_675
AAATGGAAGCATGAAGTGTAAAAGGTGTTGGGGGAGCACATGGAGCCCTCTGACTGGCAGTATATTATTATGGTTTTAGG
GACCCCTGGTAACAACTGCATGAGGTAGAGACTGCCCAGGGGCAGCACTCTTGTCAGCATGCCCTCCAAATACCATAAGA
GCATCTAGATCAAGACAGATGACTTCCTCATTTTAGACCGTATGGAGAAAGGGGTGAAGGTAAAGGCCAGTGTCCTGTGT
CCTCTGCAAGGATCATATCTGCTTTCTACAAAAGGAGAGACTCTGGCCTGAAGCCATCTCTGAAGTCATGGAGAAACAAA
GCCACAGCAGAAACATATCTCCTCAGTCAGAACTCCCGAGAAAACTCAGTCTTCCAAGGATGCCAGTTCTGAAGACGATT
CAGACCTCCTTGATAAC

Alignment

ORF - retro_meug_675 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 59.03 %
• Parental protein coverage: 86.42 %
• Number of stop codons detected: 3
• Number of frameshifts detected: 3

Retrocopy - Parental Gene Alignment:

Parental  KRKHVVQEVLGEHMVPSDQQQIVRVLGTPGNNLHEVETAQGQRFLVSMPSKYRKNIWIKRGDFLIVD-PI
          K.KH.V..VLGEHM.PSD.Q.I..VLGTPGNN........G...LVSMPSKY.K.I.IK..DFLI.D.P.
Retrocopy KWKHEV*KVLGEHMEPSDWQYIIMVLGTPGNNCMR*RLPRGST-LVSMPSKYHKSI*IKTDDFLILD<PY

Parental  EEGEKVKAE-ISFVLCKDHVRSLQKEGLWPEAFSEVAEKQ-NSRSRPPQPEL-PGEAQSSEDDSSADDSD
          .E....K....S.VLCKDH...LQKE.LWPEA.SEV.EKQ..SR...PQ.EL.P...QSS.D.SS.DDSD
Retrocopy GERGEGKGQ<VSCVLCKDHICFLQKERLWPEAISEVMEKQSHSRNISPQSEL<PEKTQSSKDASSEDDSD

Parental  LFVN
          L..N
Retrocopy LLDN

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_675 retrocopy.

TSS

Macropus eugenii was not studied using FANTOM5 data.

Lab

retro_meug_675 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 3 retrocopies.

Species	Parental gene accession	Retrocopies number
Macropus eugenii	ENSMEUG00000004948	1 retrocopy	retro_meug_675 ,
Monodelphis domestica	ENSMODG00000008964	2 retrocopies	retro_mdom_105, retro_mdom_1370,