RetrogeneDB ID: retro_meug_182

Retrocopy location

• Organism: Wallaby (Macropus eugenii)
• Coordinates: GeneScaffold_525:45690..46462(-)
• Located in intron of: None

Retrocopy information

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

Parental gene information

• Parental gene symbol: GPS2
• Ensembl ID: ENSMEUG00000010645
• Aliases: None
• Description: G protein pathway suppressor 2 [Source:HGNC Symbol;Acc:4550]

Sequence

>retro_meug_182
ATCCTTAAACTGCAAGAGAAGCTCCTGGCCCTATAAGAGGAGACATACCAGCTCTTCTATAAGTTCAAGAAAGTTTTAAA
TGAGGAGGAGAAAAAGCACTGTAAGGAGCAAAGTGACCTGACAACACTTACATCTGCAGCATACCAACAAAGTCTGGCTG
TGCACACAGGGACACATCTTCTCAGCATGCAGGGTAGCCCTGGAGGACACAGAAGACCAGGAACTCTTATGTCTGCTGAC
AGGGCCAAGCTGATATTTGGACCCCAAATGCTCAAGACCTGTCATTTTGTGAGGTCAACAGCTTTTCCAGGAATCTCAGA
ACATAGGCAATTCCAGGGTAGCCCAGGAGGGGCCTATGGGGCAGCCCAGCTCCCACCTCACTATGGACCTACTCAACCAG
GTTATGGTCCCAGCCAACAGCTCAGAGCTCCTTTAGCTTTTCCTGCTATTCAGTACCTGTCCCAACCTCAGCCACAGTTC
TATGCAGTACACAGCCACTACCAGCCCACACAAACAGGGTTCCTGCAACCTGGTAATGCCTTGTCTCTTCAAAAACAGCT
GGAATATGCTAACCAGAAATCTGATTTCTCTAGTTTGTCTTCTATGCGCCCCATGCACCCCCAGGCTCTGTACCCAACCC
CTGGGTTAGGCCACACCCCAGCTTCCTGTACAGATGCAACCATCAGGACAGTCAAGCTTTGCAGCCACCAGCCAACCAGG
TCCCCATCTCCCTTTTATTCAGCACAGCCAGAACTAATGCTTTTATCACAAG

Alignment

ORF - retro_meug_182 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 81.54 %
• Parental protein coverage: 79.14 %
• Number of stop codons detected: 2
• Number of frameshifts detected: 2

Retrocopy - Parental Gene Alignment:

Parental  ILKLQEKLLALQEEKHQLFLQLKKVLHEEEKRRRKEQSDLTTLTSAAYQQSLAVHTGTHLLSMQGSPGGH
          ILKLQEKLLAL.EE..QLF...KKVL.EEEK...KEQSDLTTLTSAAYQQSLAVHTGTHLLSMQGSPGGH
Retrocopy ILKLQEKLLAL*EETYQLFYKFKKVLNEEEKKHCKEQSDLTTLTSAAYQQSLAVHTGTHLLSMQGSPGGH

Parental  SRPGTLMSADRAKXXXXXXXXXTRHFVGSTAFPGTSEHGQFQGSPGGAYGAAQPPPHYGPTQPGYSPSQQ
          .RPGTLMSADRAK.........T.HFV.STAFPG.SEH.QFQGSPGGAYGAAQ.PPHYGPTQPGY.PSQQ
Retrocopy RRPGTLMSADRAKLIFGPQMLKTCHFVRSTAFPGISEHRQFQGSPGGAYGAAQLPPHYGPTQPGYGPSQQ

Parental  LRAPSAFPAVQYLSQPQPQSYAVHGHYQPTQTGFLQPGNALSLQKQLEHANQQSGFSDSSSLRPMHPQAL
          LRAP.AFPA.QYLSQPQPQ.YAVH.HYQPTQTGFLQPGNALSLQKQLE.ANQ.S.FS..SS.RPMHPQAL
Retrocopy LRAPLAFPAIQYLSQPQPQFYAVHSHYQPTQTGFLQPGNALSLQKQLEYANQKSDFSSLSSMRPMHPQAL

Parental  H-PTPGLL-ATPQIPVQMQPSGKSSFAATSQPGPRLPFIQHSQNQRFYHK
          ..P.P....ATPQ.PVQMQPSG.SSFAATSQPGP.LPFIQHSQN..FYHK
Retrocopy Y<PNPWVR<ATPQLPVQMQPSGQSSFAATSQPGPHLPFIQHSQN*CFYHK

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_182 retrocopy.

TSS

Macropus eugenii was not studied using FANTOM5 data.

Lab

retro_meug_182 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 11 parental genes, and 16 retrocopies.

Species	Parental gene accession	Retrocopies number
Ailuropoda melanoleuca	ENSAMEG00000016576	2 retrocopies	retro_amel_1236, retro_amel_362,
Equus caballus	ENSECAG00000010635	2 retrocopies	retro_ecab_124, retro_ecab_480,
Homo sapiens	ENSG00000132522	2 retrocopies	retro_hsap_2738, retro_hsap_4222,
Gorilla gorilla	ENSGGOG00000001672	1 retrocopy	retro_ggor_1907,
Macropus eugenii	ENSMEUG00000010645	2 retrocopies	retro_meug_1327, retro_meug_182 ,
Myotis lucifugus	ENSMLUG00000026169	1 retrocopy	retro_mluc_1045,
Mus musculus	ENSMUSG00000023170	1 retrocopy	retro_mmus_1476,
Nomascus leucogenys	ENSNLEG00000009364	2 retrocopies	retro_nleu_2477, retro_nleu_600,
Pan troglodytes	ENSPTRG00000023046	1 retrocopy	retro_ptro_1852,
Pteropus vampyrus	ENSPVAG00000005052	1 retrocopy	retro_pvam_35,
Sus scrofa	ENSSSCG00000017940	1 retrocopy	retro_sscr_742,