RetrogeneDB ID: retro_meug_356

Retrocopy location

• Organism: Wallaby (Macropus eugenii)
• Coordinates: Scaffold104548:4925..6037(-)
• Located in intron of: None

Retrocopy information

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

Parental gene information

• Parental gene symbol: None
• Ensembl ID: ENSMEUG00000011186
• Aliases: None
• Description: None

Sequence

>retro_meug_356
GTGCATCCAGAGATTGCACTGAAAAATTTTGCATCATCAAACAAAATATCCCATCTTTTCATTCAAGGTAACTCACACCC
TGGTCAAGGGCCCTAGTGCACCAAATGAACCAGCCCAAATACTCCTAGCCTCTCAATCACAGCCTTTGGGTGGAATGAAT
GTGAATTGTAGCTCCTCCTTCTGATGCAACAACCTCTACAAGGTGGCATTCCAATATAGAAGCAATGCCCACCTGCAGGA
CATGGCCCTGGTCCCTTGCCCTCCTAGAAGGCAGAATGTAGTCTAAAATTGGAATGCCAGGCAGTGGACCAGTGTCCCTA
GACTGGAGGCAAGTGCCAATGCTAGACCCCAGAGCCCTTATGTAACAAGGATCTATGCCTGCTGGCGGCCTACCTCCCCA
AGATCTTTTAGGAGATGCGCCAAATAACCCATGCAGGGGAACTGTGCTCTCAGTCATTGGAGAAGTAGAACCCAGAAGTT
ACCTGGGGCCACCCCATCAGGGTCCTGCCATGTACCACGTCCCTGACTATGACAGTCGTGGCCCTTCTCACAAGATGAGG
GGAGGGCCGCTGGGAGAGCCTCAGTTTCTAATGGGAAAGCCCAGAGGACCCATGCTGGATCAAAGGAGTCCACCCATGGA
TGGAAGAGGAGGAAGAGATCTGAAAGGGATGGAGATCTGAGCTATGGAGTCCATAGCCCTGGAGGCCCAAGGAATGGATG
TCAGAGCAATGGAAGCCAAGAGGATGGAGACCTGGAGTTCAGAATCAAAGGTCGTGGAGGCTAGGGACATGGATGCAAAA
GCAAAGGAAACAAGAGGCCCTGGCCCCAGCGGCCCAATGCCTGGAGGACTCCAGGGACCTCGGTCAATCCACATGGGAGA
AGGTCACCCGCAGGGTCCCAGGTAGGTCCCAGGCATGCAGGGATCTGATGTGCAAGGCAGAGGTCAGCCTGGGGGATTTA
GTCCTAGACAGAACCAGGTTACTTTGCAGGATCATGAAAAGGCTGCTTTGATTATGCAAGCGTTCCAACTGACTTCAAGC
CAAATTGCTATGCTGCCTCCTCAGCAACAGCCCAATTTAAAGGAACAGACACAAAAATCTACTGAAGCCCCT

Alignment

ORF - retro_meug_356 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 70.6 %
• Parental protein coverage: 67.15 %
• Number of stop codons detected: 5
• Number of frameshifts detected: 11

Retrocopy - Parental Gene Alignment:

Parental  VDPEIALK-ILHRQA-NIPSL-IQGNPQPGQGP-SAP-MNQ-PNAS-ASQPQPLGGMHVNG-APP-LMQP
          V.PEIALK.ILH.Q..NIPS..IQGN..PGQGP.SAP.MNQ.PN...ASQ.QPLGGM.VN..APP.LMQ.
Retrocopy VHPEIALK>ILHHQT>NIPSF>IQGNSHPGQGP>SAP>MNQ>PNTP>ASQSQPLGGMNVNC>APP>LMQQ

Parental  PMPGGVPTPGAMPTAGPGPG-PLAPG-GGMQSKVGMPGGGPVSLDRAQVPMPDPRAPMQRGPMPAGGPPP
          P..GG.P.....P.AG.GPG.P..P..G.M.SK.GMPG.GPVSLD..QVPM.DPRA.M..G.MPAGG.PP
Retrocopy PLQGGIPI*KQCPPAGHGPG>PCPPR>GRM*SKIGMPGSGPVSLDWRQVPMLDPRALM*QGSMPAGGLPP

Parental  RGLLGDAPNDPRGGTLLSVTGEVEPRGYLGPPHQGPPMHHVPGHDSRGPPHEMRGGPLGEPRPLMGEPRG
          ..LLGDAPN.P..GT.LSV.GEVEPR.YLGPPHQGP.M.HVP..DSRGP.H.MRGGPLGEP..LMG.PRG
Retrocopy QDLLGDAPNNPCRGTVLSVIGEVEPRSYLGPPHQGPAMYHVPDYDSRGPSHKMRGGPLGEPQFLMGKPRG

Parental  PMLDQRGPPMDGRGGRDPRGIEARAMEARAMEARGMDARAMEARGMEARSLESRAMEARAMDARAMETRG
          PMLDQR.PPMDGRGGRD..G.E..AME..A.EA.GMD.RAMEA..ME..S.ES...EAR.MDA.A.ETRG
Retrocopy PMLDQRSPPMDGRGGRDLKGMEI*AMESIALEAQGMDVRAMEAKRMETWSSESKVVEARDMDAKAKETRG

Parental  PGPRGPMPGGLQGPGPINMGAGGPQGPRQVPGMQGSGLQGGGQPGGFSPGQNQVTPQDHEKAALIMQVLQ
          PGP.GPMPGGLQGP..I.MG.G.PQGPR.VPGMQGS..QG.GQPGGFSP.QNQVT.QDHEKAALIMQ..Q
Retrocopy PGPSGPMPGGLQGPRSIHMGEGHPQGPR*VPGMQGSDVQGRGQPGGFSPRQNQVTLQDHEKAALIMQAFQ

Parental  LTADQIAMLPPEQRQSILILKEQIQKSTGAP
          LT..QIAMLPP.Q......LKEQ.QKST.AP
Retrocopy LTSSQIAMLPPQQQPN---LKEQTQKSTEAP

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_356 retrocopy.

TSS

Macropus eugenii was not studied using FANTOM5 data.

Lab

retro_meug_356 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 4 parental genes, and 4 retrocopies.

Species	Parental gene accession	Retrocopies number
Equus caballus	ENSECAG00000009325	1 retrocopy	retro_ecab_19,
Felis catus	ENSFCAG00000007000	1 retrocopy	retro_fcat_43,
Macropus eugenii	ENSMEUG00000011186	1 retrocopy	retro_meug_356 ,
Tursiops truncatus	ENSTTRG00000013556	1 retrocopy	retro_ttru_1363,