RetrogeneDB ID: retro_meug_1325

Retrocopy location

• Organism: Wallaby (Macropus eugenii)
• Coordinates: Scaffold36821:7620..8406(+)
• Located in intron of: None

Retrocopy information

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

Parental gene information

• Parental gene symbol: None
• Ensembl ID: ENSMEUG00000006532
• Aliases: None
• Description: None

Sequence

>retro_meug_1325
AAGACCATGGACTGCTACCTGAAGTCTTGGGGAGGGTTGTATGTTTTTTGCGTACATTCTAGCCACCTGAAAGATATCCC
TGAAAAGCACAACCAGGTAGTGCAGTGCTTTGAGACATTTCTGTGGCAGTCCACACTGGGTCCCTTTGATTCTCACAAAG
GGGGCCCTGGCATGAACTCATAGTGCGTACCACCTTCCTTGGGCATAGGATAGCCATTATCATCTTCAATCCCCAGGAAT
TAAGTCAAGAGGAGTTCTGTGTTCAGAAGGAAGAAATAAAGGAGTTTTTCTCTATGGGGCCTAGAACTGTGTGTGACTTG
ACCTCATTTTATGTGAAAGAAAGGACCCCTCACCACCAATAGCTAACCCCCTTCCAACTCCCTTCTGGAGAGCCACACCT
CTTTGAAAAAATCCTGGGCTTGAAGGTTCAAATCTCTCCAGGAGTCTCTTCAGCTTAATACATCTGCAACAGAAGTTCTG
TACCGGAGAGTGGGAAAGCTGGGTAGAGTGGACCCCAATACTGTCATCTTTGATTTTAGCCATGGAACTGGTGCCACTGC
CCTCTCTCTGGCTTGGCAGCCATCCCAGATCTTTAGTATGGGCCTAGTAGGGCAGGCACTGGAGGACCCTAAATGGACTT
CAGCCTTCAATGGCATCATCAACTGGGAATCTCACCCTGGCAATGTGAAGGAGATTTTATTGTAGGTATTAGAGTCCCAG
GAGGATGGCTGGTCACTCATGGCTTTGGTAGATCCATCCCAGTATGGACTGAGAAACAGAGTTGTT

Alignment

ORF - retro_meug_1325 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 76.49 %
• Parental protein coverage: 63.07 %
• Number of stop codons detected: 2
• Number of frameshifts detected: 3

Retrocopy - Parental Gene Alignment:

Parental  KTVGYYLKSWSN--IFCVQPSHLKDIXXXXXXXXXCFEAFLQQSRLGHFDSCKV-GPWHELIVRTTFLGH
          KT...YLKSW.....FCV..SHLKDI.........CFE.FL.QS.LG.FDS.K..GPWHELIVRTTFLGH
Retrocopy KTMDCYLKSWGGLYVFCVHSSHLKDIPEKHNQVVQCFETFLWQSTLGPFDSHKG<GPWHELIVRTTFLGH

Parental  TMAIIIFNPQELSQEELCVQKEEIKEFFSTGPGAVCDLTSLYVKESTRTPRHQQLTPFQLLAGEPYLFEE
          ..AIIIFNPQELSQEE.CVQKEEIKEFFS.GP..VCDLTS.YVKE..RTP.HQ.LTPFQL..GEP.LFE.
Retrocopy RIAIIIFNPQELSQEEFCVQKEEIKEFFSMGPRTVCDLTSFYVKE--RTPHHQ*LTPFQLPSGEPHLFEK

Parental  ILGLKVRISPG-AFFQL-NTSAAEVLYRTVGELGGVDPNTVIFDFSHGTGATALSLARQTSQIFSMGLVG
          ILGLKV.ISPG...F.L.NTSA.EVLYR.VG.LG.VDPNTVIFDFSHGTGATALSLA.Q.SQIFSMGLVG
Retrocopy ILGLKVQISPG<SLFSL<NTSATEVLYRRVGKLGRVDPNTVIFDFSHGTGATALSLAWQPSQIFSMGLVG

Parental  QALEDAKWTAAFNGITNWESHTGNVKEILSQLLESQEDGRSLMALVDPSQCGLSNRVV
          QALED.KWT.AFNGI.NWESH.GNVKEIL...LESQEDG.SLMALVDPSQ.GL.NRVV
Retrocopy QALEDPKWTSAFNGIINWESHPGNVKEILL*VLESQEDGWSLMALVDPSQYGLRNRVV

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_1325 retrocopy.

TSS

Macropus eugenii was not studied using FANTOM5 data.

Lab

retro_meug_1325 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 9 parental genes, and 10 retrocopies.

Species	Parental gene accession	Retrocopies number
Callithrix jacchus	ENSCJAG00000004570	1 retrocopy	retro_cjac_1676,
Homo sapiens	ENSG00000188917	1 retrocopy	retro_hsap_272,
Gorilla gorilla	ENSGGOG00000023759	1 retrocopy	retro_ggor_319,
Macropus eugenii	ENSMEUG00000006532	2 retrocopies	retro_meug_1325 , retro_meug_74,
Macaca mulatta	ENSMMUG00000010394	1 retrocopy	retro_mmul_567,
Monodelphis domestica	ENSMODG00000025630	1 retrocopy	retro_mdom_77,
Nomascus leucogenys	ENSNLEG00000007522	1 retrocopy	retro_nleu_1485,
Pongo abelii	ENSPPYG00000020545	1 retrocopy	retro_pabe_397,
Pan troglodytes	ENSPTRG00000023413	1 retrocopy	retro_ptro_228,