RetrogeneDB ID: retro_meug_1734

Retrocopy location

• Organism: Wallaby (Macropus eugenii)
• Coordinates: Scaffold5563:1775..2325(+)
• Located in intron of: None

Retrocopy information

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

Parental gene information

• Parental gene symbol: SAP30BP
• Ensembl ID: ENSMEUG00000013106
• Aliases: None
• Description: SAP30 binding protein [Source:HGNC Symbol;Acc:30785]

Sequence

>retro_meug_1734
GCTGGGAGCATGACCTCAGTAGAGGAAAAAGGTGAATTAGTGTCTGAAGTCCATGGAGATGATGTTCCTGAACTTGAGGG
AGATGAAGATGGTTATGAGGAAGAGAATGAAGAAAACAGAAGACAATCAGAACATGATGATTCAGAGACTGAAAAGCCTG
AGGATCATGACCTAAAGGAATTTCCAGAACTGGAAAAACGAGATCCCAAAAAGCTGGCTGCCTCCTTCTCTGAGAGAATC
AGGAATATGGCTCCTGATGAGATTAAAATCCCCCCAAAGCCACCTGGCAGATGCTCAAATCACCTCCAGGACAAGATCCA
GAAACTGTATGAGTGGAAGATAAAAGAAAGGATAGATATGAGAACTACATTATTCAGAAGAAGAAGGAGTTTCAGAATCC
CAACATCTATGAGAACCTGATCCAGTACTGTTCAATTGATGAGCTTGGTACCAATTATCCCAAGGATATGTTTGACCCCC
ATGGATGGTCTGAGGACTCCTACTATGAGGTTTAGCCAAAGCACAAAACACTGAAATGGACAAATTGGAC

Alignment

ORF - retro_meug_1734 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 77.01 %
• Parental protein coverage: 59.55 %
• Number of stop codons detected: 0
• Number of frameshifts detected: 2

Retrocopy - Parental Gene Alignment:

Parental  AGSATAAEEKGGLVSEAYGDDDFSRLEGDEAGYEEEDEENSRQSEDDDSETEKPEADDLKEFSELEKRDP
          AGS.T..EEKG.LVSE..GDD....LEGDE.GYEEE.EEN.RQSE.DDSETEKPE..DLKEF.ELEKRDP
Retrocopy AGSMTSVEEKGELVSEVHGDD-VPELEGDEDGYEEENEENRRQSEHDDSETEKPEDHDLKEFPELEKRDP

Parental  QELVASFSERVRNMSPDEIKIPPEPPGRCSNHLQDKIQKLYERKIKEGMDM-NYIIQRKKEFR-NPSIYE
          ..L.ASFSER.RNM.PDEIKIPP.PPGRCSNHLQDKIQKLYE.KIKE..DM......R...FR.NP.IYE
Retrocopy KKLAASFSERIRNMAPDEIKIPPKPPGRCSNHLQDKIQKLYEWKIKERIDMRTTLFRRRRSFR<NPNIYE

Parental  KLIQYCSIDELGTNYPKDMFDPHGWSEDSYYE-ALAKAQKIEMDKLE
          .LIQYCSIDELGTNYPKDMFDPHGWSEDSYYE..LAKAQ..EMDKL.
Retrocopy NLIQYCSIDELGTNYPKDMFDPHGWSEDSYYE<GLAKAQNTEMDKLD

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_1734 retrocopy.

TSS

Macropus eugenii was not studied using FANTOM5 data.

Lab

retro_meug_1734 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 12 retrocopies.

Species	Parental gene accession	Retrocopies number
Ficedula albicollis	ENSFALG00000001071	1 retrocopy	retro_falb_23,
Macropus eugenii	ENSMEUG00000013106	2 retrocopies	retro_meug_1388, retro_meug_1734 ,
Monodelphis domestica	ENSMODG00000007562	4 retrocopies	retro_mdom_1207, retro_mdom_1211, retro_mdom_1212, retro_mdom_1602,
Sarcophilus harrisii	ENSSHAG00000017878	2 retrocopies	retro_shar_19, retro_shar_47,
Taeniopygia guttata	ENSTGUG00000008426	1 retrocopy	retro_tgut_1,
Tarsius syrichta	ENSTSYG00000009667	2 retrocopies	retro_tsyr_175, retro_tsyr_74,