RetrogeneDB ID: retro_meug_1788

Retrocopy location

• Organism: Wallaby (Macropus eugenii)
• Coordinates: Scaffold59061:6584..7673(+)
• Located in intron of: None

Retrocopy information

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

Parental gene information

• Parental gene symbol: SMCR7L
• Ensembl ID: ENSMEUG00000011202
• Aliases: None
• Description: Smith-Magenis syndrome chromosome region, candidate 7-like [Source:HGNC Symbol;Acc:25979]

Sequence

>retro_meug_1788
TCAGGGCAGAGAAGCTGGCAGGAGCCGAGTTGGATGGGCTCCTCATGGTTACTACATCAGAACAAGAAGACCAATTTAAG
CAGATCCCTGCAGAGTCTGCCTACTGAGTCACCAGCCTTTGATGTAGGTGGTTTCTGCCCTTCCCCAGACCCAAAGTAGC
CACTAAGAAGAGCCAGGTAGACTTGAAGAAATCATGGTTCTGCCTTTCCCTGCAGGAGAATTTTCTTCCTTATTAGCAGA
ACCCAGCAATCATCCCCACGGTGAGCAAGCCTAGGCCAAGCCAGCTGTTGTGGACATATGTGTTGAGCTCTGGAGCTGAC
TCCAAGCAAAACTGCCAGACATGCCCCTGTGAGACATGTACCTGAGTGACAACCTTTACGATGATTTGCAGATCATGACT
GCTGACCACATTCAACTCATTGTGTCTCTGATCTTAGAGAAGAACCTGTGGCCCTGCATCCCTGGGGAGGACATCATCAT
GAACATCCCTGGCTTCTTCCTGGTGCTTCTTGAGAACCCAGAGTACTTTCCCCAGGACAGCAGTTCCTGGGACCTCTGTG
CTTGGTGGCTACCTCTCATCCAAGGCTATGGGAGAGACATTTGAGAAGGTGGTGGCAGGCTCCATTAACTGGCCCACCTT
TGGGTCTCTTTTGGACTGCATTATCTGCCCAGCTTCACCCTTGAGGCCTTGACCCTGGAAATGCAGTATAAGCAAAATGG
TGCCTCGTCATTGACTTCTTTGGTGACCCTGGGGGACACAGTTTTTGTGGCCAGGCCTCACTGGCTGGCCCAGTATGATA
ACCTGTGGAGGCTGAGCCTGCAGCCTTCAGCAACTGCCTGTGTCTGGGCATTGGACAAAGGTGATGGGGGCTGTAGAGTG
CTGTGCTCAAGATCCTCAAGTTTACGTGCAAGACCAGCCTGGCTTTGGGCCCTCTCACAACCAGTGAGCTCATGAATGTC
ATTCTCCACTTGCTCCAAAAGGAGACTGCCTGGTCTCAGGACATGCTTGCTGACTGCTTTCTGAAGGTGCTCAGGGCGTT
GATTGGCTACATGGAGGATGGAGTCCTGCCTAGTACTCTGAACCCCAAG

Alignment

ORF - retro_meug_1788 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 71.51 %
• Parental protein coverage: 84.53 %
• Number of stop codons detected: 4
• Number of frameshifts detected: 5

Retrocopy - Parental Gene Alignment:

Parental  SGKRSWEEPSWMGSSRLLHQDMKTNLSRSLQTLPTEPSAFDADG-FCP-PRPKPATKKSQVDLKKSRLRL
          SG.RSW.EPSWMGSS.LLHQ..KTNLSRSLQ.LPTE..AFD..G.F.P.PRPK.ATKKSQVDLKKS...L
Retrocopy SGQRSWQEPSWMGSSWLLHQNKKTNLSRSLQSLPTESPAFDVGG<FLPFPRPKVATKKSQVDLKKSWFCL

Parental  SLQEKLFAYYRNRAAIPP-GEQARAKQAAVDICAELRSFLRAKLPDMPLRDMYLSGSLYDDLQVVTADHI
          SLQE....Y..N.A.IP..GEQA.AK.A.VDIC.EL.S.L.AKLPDMPL.DMYLS..LYDDLQ..TADHI
Retrocopy SLQENFLPY*QNPAIIPT<GEQA*AKPAVVDICVELWS*LQAKLPDMPL*DMYLSDNLYDDLQIMTADHI

Parental  QLIVPLVLEQNLWSCIPGEDTIMNVPGFFLVRRENPEY-FPRGSSYWDRCVVGGYLSPKAVAETFEKVVA
          QLIV.L.LE.NLW.CIPGED.IMN.PGFFLV..ENPEY.FPR........V.GGYLS.KA..ETFEKVVA
Retrocopy QLIVSLILEKNLWPCIPGEDIIMNIPGFFLVLLENPEY>FPR-TAVPGTSVLGGYLSSKAMGETFEKVVA

Parental  GSINWPAIGSLLDCVIRPAPPP-EALTLEVQYEQNRRLVIDFLPSVTLGDTVLVARPHRLAQYDNLWRLS
          GSINWP..GSLLDC.I.PA.P..EALTLE.QY.QN.......L..VTLGDTV.VARPH.LAQYDNLWRLS
Retrocopy GSINWPTFGSLLDCIICPASPL<EALTLEMQYKQNGASSLTSL--VTLGDTVFVARPHWLAQYDNLWRLS

Parental  LRPAETARLRALDQGDGGCRALC-LKILKAICKSSPALGHLTASQLTNVILHLAQEETDWSQDMLADRFL
          L.P..TA...ALD.GDGGCR.LC.LKILK..CK.S.ALG.LT.S.L.NVILHL.Q.ET.WSQDMLAD.FL
Retrocopy LQPSATACVWALDKGDGGCRVLC<LKILKFTCKTSLALGPLTTSELMNVILHLLQKETAWSQDMLADCFL

Parental  QALRALIGYLEAGVLPSALNPK
          ..LRALIGY.E.GVLPS.LNPK
Retrocopy KVLRALIGYMEDGVLPSTLNPK

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_1788 retrocopy.

TSS

Macropus eugenii was not studied using FANTOM5 data.

Lab

retro_meug_1788 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.

---

Parental genes homology:

Parental genes homology involve 1 parental gene, and 1 retrocopy.

Species	Parental gene accession	Retrocopies number
Macropus eugenii	ENSMEUG00000011202	1 retrocopy	retro_meug_1788 ,