RetrogeneDB ID: retro_meug_1470

Retrocopy location

• Organism: Wallaby (Macropus eugenii)
• Coordinates: Scaffold416549:1326..1902(-)
• Located in intron of: None

Retrocopy information

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

Parental gene information

• Parental gene symbol: CSNK2A2
• Ensembl ID: ENSMEUG00000013416
• Aliases: None
• Description: casein kinase 2, alpha prime polypeptide [Source:HGNC Symbol;Acc:2459]

Sequence

>retro_meug_1470
ATGGATTATTGTCATAGCATGGGGATTATGCATTATGTTAAAGCTCATAATGTCATGACCAATCACAAACACAGAAAGTA
AATGTAACTAATAGACTGGGACTTGGCTGAGTTCTATCATCTTGACCAAGAAAATAATGTCTGAATGGCTTCATGGTATT
TTAAAAGTCTTGTGCTTCTTGTAGACTACCAGATATACAATAAAAGTTTGGATAAAGTGTGGAGGTTGGTCCACATGATC
TTTTGGAAGGAACCATTTTTCCATGGAGGGGACAATTATGATCAGTTGGTAAGGATAGCAAAGGTTCTGGAGACACAAGA
CTTACATGACTATATTGACAAGTACAACATTGAACTAGATCCATGTTTCAGTGATACCCTGGGCAGACACCCCTGTAAGC
AGTGGAAGCATTTTGTTCCCAGTGAAAACTAGCACCTGGTCAGTCCAGAAGCCTTTGATTTCTTGGACAAACTGCTACAA
TATGGTCACCAGTCATGACTCACCCCAAGAGAGGCTGTGGAACCCCTTTATTTCTACCCAGTTGTGAAGGATCAAACTTG
GATGGGCTCATCCAAC

Alignment

ORF - retro_meug_1470 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 59.39 %
• Parental protein coverage: 56.56 %
• Number of stop codons detected: 5
• Number of frameshifts detected: 0

Retrocopy - Parental Gene Alignment:

Parental  LDYCHSMGIMHRDVKPHNVMIDHQQKK-LRLIDWGLAEFYHPAQEYNVRVASRYFKGPELLVDYQMYDYS
          .DYCHSMGIMH..VK.HNVM..H...K...LIDW.LAEFYH..QE.NV..AS.YFK...LLVDYQ.Y..S
Retrocopy MDYCHSMGIMHY-VKAHNVMTNHKHRK*M*LIDWDLAEFYHLDQENNV*MASWYFKSLVLLVDYQIYNKS

Parental  LD-MWSLGCMLASMIFRKEPFFHGQDNYDQLVRIAKVLGTDELYGYLKKYHIDLDPQFNNILGQHSQKHW
          LD..W.L......MIF.KEPFFHG.DNYDQLVRIAKVL.T..L..Y..KY.I.LDP.F...LG.H..K.W
Retrocopy LDKVWRL----VHMIFWKEPFFHGGDNYDQLVRIAKVLETQDLHDYIDKYNIELDPCFSDTLGRHPCKQW

Parental  ENFIHCENRHLVSSEALDLLDKLL-CDHQQRLTAKEAVENPYFYLVGKEQSQPSSES
          ..F...EN.HLVS.EA.D.LDKLL...HQ..LT..EAVE..YFY.V.K.Q....S..
Retrocopy KHFVPSEN*HLVSPEAFDFLDKLLQYGHQS*LTPREAVEPLYFYPVVKDQTWMGSSN

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_1470 retrocopy.

TSS

Macropus eugenii was not studied using FANTOM5 data.

Lab

retro_meug_1470 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 8 retrocopies.

Species	Parental gene accession	Retrocopies number
Erinaceus europaeus	ENSEEUG00000000930	1 retrocopy	retro_eeur_442,
Macropus eugenii	ENSMEUG00000013416	1 retrocopy	retro_meug_1470 ,
Myotis lucifugus	ENSMLUG00000000283	2 retrocopies	retro_mluc_1999, retro_mluc_2562,
Mustela putorius furo	ENSMPUG00000004713	1 retrocopy	retro_mputfur_1121,
Ochotona princeps	ENSOPRG00000011847	2 retrocopies	retro_opri_149, retro_opri_723,
Ictidomys tridecemlineatus	ENSSTOG00000003538	1 retrocopy	retro_itri_1769,