RetrogeneDB ID: retro_meug_1383

Retrocopy location

• Organism: Wallaby (Macropus eugenii)
• Coordinates: Scaffold38562:1831..2776(-)
• Located in intron of: None

Retrocopy information

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

Parental gene information

• Parental gene symbol: DDX21
• Ensembl ID: ENSMEUG00000010586
• Aliases: None
• Description: DEAD (Asp-Glu-Ala-Asp) box helicase 21 [Source:HGNC Symbol;Acc:2744]

Sequence

>retro_meug_1383
CATTTGGCCATCCAGTGCCACTGGTCTCAGAGGGCAGCAGTGATTGGTGATGTCATTCAGGTCTACAGTGGAAATGACGG
GAGAGCCATCATCTTCTGTGAGACAAAGAAAAACGTGGCTGAGATGGCCTTGAATCCTCACATAAAACAGAATGCACAGT
GTTTGCATGGGGATATTGCACAGTCACAAAGAGAAATCACATTGAAAGGCTTCAGGGAAGGCAGCTTCAAAGTTTTGGTG
GCAACTAATGTAGCTGCACATGGTTTGGATATTCCTGAGGTTGATCTTGTGATTCAGAGTTCACCTCCACAGGATGTTGA
ATCCTATATCCATCATTCTGGACGCACAGGGAGAGCTGGACGAACAGGGATTTGTATATGTTTTTATCAGCCAAATGAAA
GAGGCCAGCTGAAATATGTGGAAAGGAAAAGCGGGAATAACTTTTAAACGTGTAGGTGTTCCCCACTACAATGGATTTAG
TTAAAATCTCGGAGTATGGATGCTATCAGGTCCCTGGCTTCAGTTTCTTTTGTTGCTGTTGAATTTTTCCGGCCATCAGC
TCAGAGACTGATAGAGGAGAAGGGGGCAGTGGATGCATTGGCAGCAGCATTAGCACACATCTCAGGTGCCTCCTCTTTCG
AACCTCAGTCCTTGATCAACTCTGATAAGGGATTTGTGACTATGATCCTGCAAAGTCCAGAAGAGTTACAAGACATCAGC
ACTGCTAGGAAGGAGCTGAGCAGGAAGCTGAGTAGTGACACCATGTCCCGAATTGTCCAGATGTGCCTCCTAAAAGGGAA
AATGGGTGTATGCTTTGATATTCCAACAAGTGAGTCAGAACTAATGCAGGCAGAGTGGAATGATTCAGATTGGATATTAT
CAGTGCCAGATGCGTTACCAGAATTAGAAGAATATTATGATGGGAGGAGATCGTCCAACACAAGA

Alignment

ORF - retro_meug_1383 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 62.07 %
• Parental protein coverage: 51.89 %
• Number of stop codons detected: 0
• Number of frameshifts detected: 3

Retrocopy - Parental Gene Alignment:

Parental  HLAINCHWSQRAAVIGDVIQVYSGSHGRTIIFCETKKEAQELSLNESIKQDAQSLHGDIPQKQREITLQG
          HLAI.CHWSQRAAVIGDVIQVYSG..GR.IIFCETKK...E..LN..IKQ.AQ.LHGDI.Q.QREITL.G
Retrocopy HLAIQCHWSQRAAVIGDVIQVYSGNDGRAIIFCETKKNVAEMALNPHIKQNAQCLHGDIAQSQREITLKG

Parental  FRNGKFGVLVATNVAARGLDIPEVDLVIQSSPPKDVESYIHRSGRTGRAGRTGVCICFYQKKEQHQLAQV
          FR.G.F.VLVATNVAA.GLDIPEVDLVIQSSPP.DVESYIH.SGRTGRAGRTG.CICFYQ..E..QL..V
Retrocopy FREGSFKVLVATNVAAHGLDIPEVDLVIQSSPPQDVESYIHHSGRTGRAGRTGICICFYQPNERGQLKYV

Parental  ER-QAGITFKCVGV-PSASEIIKAS-SKDAIRFLDSVPPAAINNFRQTAQKLIDEKGAVEALAAALAHIS
          ER..AGITFK.VGV.P......K.S.S.DAIR.L.SV...A...FR..AQ.LI.EKGAV.ALAAALAHIS
Retrocopy ER>KAGITFKRVGV>PTTMDLVKIS>SMDAIRSLASVSFVAVEFFRPSAQRLIEEKGAVDALAAALAHIS

Parental  GATTVEQRSLINSDVXXXXXXXXXXXXMHNIGYAR-GLKEQLGEEIDDKVTRMTFLKGKTGVCFDVPAAE
          GA...E..SLINSD................I..AR..L...L..........M..LKGK.GVCFD.P..E
Retrocopy GASSFEPQSLINSDKGFVTMILQSPEELQDISTARKELSRKLSSDTMSRIVQMCLLKGKMGVCFDIPTSE

Parental  VKTFQEQWQDSRRWQLSVATERPELEQQPDEGRGFSSFR
          ....Q..W.DS..W.LSV....PELE...D.GR..S..R
Retrocopy SELMQAEWNDS-DWILSVPDALPELEEYYD-GRRSSNTR

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_1383 retrocopy.

TSS

Macropus eugenii was not studied using FANTOM5 data.

Lab

retro_meug_1383 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 8 parental genes, and 11 retrocopies.

Species	Parental gene accession	Retrocopies number
Canis familiaris	ENSCAFG00000013791	2 retrocopies	retro_cfam_1024, retro_cfam_1925,
Callithrix jacchus	ENSCJAG00000012876	1 retrocopy	retro_cjac_1912,
Macropus eugenii	ENSMEUG00000010586	1 retrocopy	retro_meug_1383 ,
Microcebus murinus	ENSMICG00000015112	1 retrocopy	retro_mmur_95,
Mus musculus	ENSMUSG00000020075	2 retrocopies	retro_mmus_582, retro_mmus_662,
Procavia capensis	ENSPCAG00000016697	1 retrocopy	retro_pcap_346,
Pongo abelii	ENSPPYG00000002389	1 retrocopy	retro_pabe_3816,
Tupaia belangeri	ENSTBEG00000002310	2 retrocopies	retro_tbel_1590, retro_tbel_4454,