RetrogeneDB ID: retro_meug_1103

Retrocopy location

• Organism: Wallaby (Macropus eugenii)
• Coordinates: Scaffold289113:727..1312(-)
• Located in intron of: None

Retrocopy information

• Ensembl ID: ENSMEUG00000014806
• Aliases: None
• Status: KNOWN_PSEUDOGENE

Parental gene information

• Parental gene symbol: MAEU-DBB
• Ensembl ID: ENSMEUG00000004650
• Aliases: None
• Description: MHC class II antigen [Source:UniProtKB/TrEMBL;Acc:A5JEE1]

Sequence

>retro_meug_1103
AAGAGTCTGCACAATGGAGAGGAGAATGTCCGCTTGGACAGCGACGTGGGGCAGTTCGTGGCGGGGACGGAGCTGGGGCG
GCCAAGTGCTGAGTACTGGAACGGTCCGAAGGATATCCTGGAGGAAAAGCGAGCCGTTGTGGACACGGTGTGCAGACACA
ACTACGAGGTATACAAGCCCTTCACGTTGGACAGGAGAGTCCAGCCCAGAGTGACCATCTCCCCCTCCAAGACAGACGCC
CTGCAGCACCTGCTGCTCTGCTCTGTCACTGGCTTCCATCCAAGCAAGATCAAGGTCACCTGGTTCAAGAATGGGCAGGA
GGAGACAACTGGGGTCGTGTCCAGGGGAGTGATACAACATGGTGACTGGACCTACCAGACACTGGTCATGTTGGAAATGA
CTTCCCAGAGCAGAGATGTCTACACCTGCAGTGTGGAGCATGCCAGCCTACAGAGCCCCATCAGTGTGGAATGGAGGGCA
CAGTCTGAATCTGCCCAGAGCAAACTGCTGAGTGGAATTGGAGGCTTTGTCCTGGGGCTTATCTTCCTCAGTGTAGGACT
AATCATCCACCTGAAGAACAAGAAA

Alignment

ORF - retro_meug_1103 Open Reading Frame is conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 86.15 %
• Parental protein coverage: 89.35 %
• Number of stop codons detected: 0
• Number of frameshifts detected: 0

Retrocopy - Parental Gene Alignment:

Parental  RDIYNGEEDVRFDSDVGQFVAVTELGRPDAEYWNGQEDSLEEYRGYVDTLCRHNYEA--TLHLDRRVQPR
          ....NGEE.VR.DSDVGQFVA.TELGRP.AEYWNG..D.LEE.R..VDT.CRHNYE......LDRRVQPR
Retrocopy KSLHNGEENVRLDSDVGQFVAGTELGRPSAEYWNGPKDILEEKRAVVDTVCRHNYEVYKPFTLDRRVQPR

Parental  VTISPSKTDALQHLLVCSVTGFYPSKIKVTWFKNGQEETAGIVSTGVIQHGDWTYQTLVMLEMTPQSRDV
          VTISPSKTDALQHLL.CSVTGF.PSKIKVTWFKNGQEET.G.VS.GVIQHGDWTYQTLVMLEMT.QSRDV
Retrocopy VTISPSKTDALQHLLLCSVTGFHPSKIKVTWFKNGQEETTGVVSRGVIQHGDWTYQTLVMLEMTSQSRDV

Parental  YTCSVEHASLQSPISVEWRAQSESAQSKLLSGIGGFVLGLIFLSVGLIIHLKNKK
          YTCSVEHASLQSPISVEWRAQSESAQSKLLSGIGGFVLGLIFLSVGLIIHLKNKK
Retrocopy YTCSVEHASLQSPISVEWRAQSESAQSKLLSGIGGFVLGLIFLSVGLIIHLKNKK

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_1103 retrocopy.

TSS

Macropus eugenii was not studied using FANTOM5 data.

Lab

retro_meug_1103 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 1 parental gene, and 1 retrocopy.

Species	Parental gene accession	Retrocopies number
Macropus eugenii	ENSMEUG00000004650	1 retrocopy	retro_meug_1103 ,