RetrogeneDB ID: retro_meug_2130

Retrocopy location

• Organism: Wallaby (Macropus eugenii)
• Coordinates: Scaffold92821:1612..2170(-)
• Located in intron of: None

Retrocopy information

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

Parental gene information

• Parental gene symbol: PIGH
• Ensembl ID: ENSMEUG00000011325
• Aliases: None
• Description: phosphatidylinositol glycan anchor biosynthesis, class H [Source:HGNC Symbol;Acc:8964]

Sequence

>retro_meug_2130
ATGGAGCAGCAACACAACTTCTCAGACATTGACAGCAGTTGCCCGACTTTCCAGCACCACTACTACTCCCCCTCCTGCCA
GGAGTTCTGCCTTGGCTGCCAAAGGCTCTCACTGTGCTCACTCACCACCACCACCTGCACAGTGTGACTGGTGCCCTACA
GGCTCTTCACTCTTTTTTAGAACAGTATGGTCTTCTCTGCTGCTATCTTCATCACTTTATTAGGTTTGTTTGGTTACCTC
CACTTTGTGAAGATTGATCAAGAAACCCTACTGATCATTGGCTCTCTTGGCATCCAGATGACCTCATCCTGTACCTCAGG
GAAAAAGAGTACGACCTTCATTGACATGGGCAAGGTGAAAGACATTGTCGACAGTGAAGCCATTTACGTGCAAAAAGTGA
TCTACTACTTGTGTATTTTATTGAAGGACCCAGGAGAACCATACAGGGTGTCACAAGTAGTACCTATCTTCCAGAGTACT
GGACTGGACTGCTTGATTGAAGTATACAGGAGCCACTAAGAGATCCTAGCCTACCAGGCAGTCACATCAACAAGCCTA

Alignment

ORF - retro_meug_2130 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 77.66 %
• Parental protein coverage: 100. %
• Number of stop codons detected: 3
• Number of frameshifts detected: 0

Retrocopy - Parental Gene Alignment:

Parental  MEEQRSFSDIDGGRLALQRRYYSPSCREFCLGCPRLSLRSLTAATCTVWLVAYGLFTLCQNSMVLSAAIF
          ME.Q..FSDID......Q..YYSPSC.EFCLGC.RLSL.SLT..TCTV.LV.Y.LFTL..NSMV.SAAIF
Retrocopy MEQQHNFSDIDSSCPTFQHHYYSPSCQEFCLGCQRLSLCSLTTTTCTV*LVPYRLFTLF*NSMVFSAAIF

Parental  ITLLGLLGYLHFVKIDQETLLIIGSLGIQMTSSYASGKESTTFIEMGKVKDVVINEAIYMQKVIYYLCIL
          ITLLGL.GYLHFVKIDQETLLIIGSLGIQMTSS..SGK.STTFI.MGKVKD.V..EAIY.QKVIYYLCIL
Retrocopy ITLLGLFGYLHFVKIDQETLLIIGSLGIQMTSSCTSGKKSTTFIDMGKVKDIVDSEAIYVQKVIYYLCIL

Parental  LKDPVEPHGVSQVVPVFQSAKPRLDCLIEVYRSCQEILAHQAVTSTSL
          LKDP.EP..VSQVVP.FQS....LDCLIEVYRS..EILA.QAVTSTSL
Retrocopy LKDPGEPYRVSQVVPIFQST--GLDCLIEVYRSH*EILAYQAVTSTSL

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_2130 retrocopy.

TSS

Macropus eugenii was not studied using FANTOM5 data.

Lab

retro_meug_2130 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 10 parental genes, and 10 retrocopies.

Species	Parental gene accession	Retrocopies number
Cavia porcellus	ENSCPOG00000003328	1 retrocopy	retro_cpor_815,
Echinops telfairi	ENSETEG00000008623	1 retrocopy	retro_etel_844,
Homo sapiens	ENSG00000100564	1 retrocopy	retro_hsap_1506,
Gorilla gorilla	ENSGGOG00000001507	1 retrocopy	retro_ggor_1155,
Macropus eugenii	ENSMEUG00000011325	1 retrocopy	retro_meug_2130 ,
Myotis lucifugus	ENSMLUG00000004467	1 retrocopy	retro_mluc_910,
Nomascus leucogenys	ENSNLEG00000000739	1 retrocopy	retro_nleu_1747,
Pongo abelii	ENSPPYG00000005925	1 retrocopy	retro_pabe_1255,
Pan troglodytes	ENSPTRG00000006466	1 retrocopy	retro_ptro_1020,
Tarsius syrichta	ENSTSYG00000008465	1 retrocopy	retro_tsyr_1926,