RetrogeneDB ID: retro_meug_1713

Retrocopy location

• Organism: Wallaby (Macropus eugenii)
• Coordinates: Scaffold54487:5408..5899(+)
• Located in intron of: None

Retrocopy information

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

Parental gene information

• Parental gene symbol: GLTSCR2
• Ensembl ID: ENSMEUG00000002525
• Aliases: None
• Description: glioma tumor suppressor candidate region gene 2 [Source:HGNC Symbol;Acc:4333]

Sequence

>retro_meug_1713
TCCAAATTACCTTCCCCAAAGAACATCCTTGCTCACCAGATCCCCAGCAGGAAGAATCTGAAATGAAAGCAGCGCTTGTT
GCAGCACTTGGCCCAGCAGGGAAAGCTGCCCCAACTGTGCTAAAGGCCCAGGCCTGGCTGCTTCAGCCCCCAGAGTCAAA
GATCAAGCCCTCTGACCCAGAGGAAACAACTGACCCGACCTTTCTATAACCTCTGGGCTGAGGACAATCCTCTGGACCTC
CCCTTGTTTGGACAGGACACCTTCTTGGAACAGATGAAGAAGGTAGTGAAGCAACCTCAGGGCCTACAGACCAAGCCCTC
TCTGGCCCCAGTGGTGGAAGGATCTCTTCTGGAGGCTCTTACAGTCCTTCATTCCAGGCCTACCAGGCCTTGCTCCTGGA
AGCCCATGAAGTGGAACTGAAGAGGCAGAAAGTAGAAGAGAAACTCAGCCATCAGCTGGCCTTCCCCACTGTGAATGAGG
GCCCCACCAAG

Alignment

ORF - retro_meug_1713 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 79.29 %
• Parental protein coverage: 54.97 %
• Number of stop codons detected: 1
• Number of frameshifts detected: 3

Retrocopy - Parental Gene Alignment:

Parental  SKVPSPKNILAHQIPNGKKLKRKQRLWEHLAQQGKLPR-DVRKAQARLLQPPEPKTKPSDPEETTD-RPF
          SK.PSPKNILAHQIP..K.LK.KQRL..HLAQQGKLP...V.KAQA.LLQPPE.K.KPSDPEETTD.RPF
Retrocopy SKLPSPKNILAHQIPSRKNLK*KQRLLQHLAQQGKLPQ<TVLKAQAWLLQPPESKIKPSDPEETTD>RPF

Parental  YDLWAEDNPLDRPLVGQDTFFLEQTKKKGVKRPQRLQTKPSRAPAVE-VISSGGSYNPSFQAHQALLLEA
          Y.LWAEDNPLD.PL.GQDT.FLEQ.KK..VK.PQ.LQTKPS.AP.VE..ISSGGSY.PSFQA.QALLLEA
Retrocopy YNLWAEDNPLDLPLFGQDT-FLEQMKKV-VKQPQGLQTKPSLAPVVE<RISSGGSYSPSFQAYQALLLEA

Parental  HKVELQRQKVEEKLSRQLAFPTVDEAPTK
          H.VEL.RQKVEEKLS.QLAFPTV.E.PTK
Retrocopy HEVELKRQKVEEKLSHQLAFPTVNEGPTK

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_1713 retrocopy.

TSS

Macropus eugenii was not studied using FANTOM5 data.

Lab

retro_meug_1713 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 6 parental genes, and 9 retrocopies.

Species	Parental gene accession	Retrocopies number
Homo sapiens	ENSG00000105373	1 retrocopy	retro_hsap_1528,
Macropus eugenii	ENSMEUG00000002525	2 retrocopies	retro_meug_1136, retro_meug_1713 ,
Nomascus leucogenys	ENSNLEG00000003143	1 retrocopy	retro_nleu_1937,
Pongo abelii	ENSPPYG00000010181	3 retrocopies	retro_pabe_1270, retro_pabe_653, retro_pabe_662,
Pan troglodytes	ENSPTRG00000011215	1 retrocopy	retro_ptro_1035,
Rattus norvegicus	ENSRNOG00000013023	1 retrocopy	retro_rnor_1107,