RetrogeneDB ID: retro_meug_553

Retrocopy location

• Organism: Wallaby (Macropus eugenii)
• Coordinates: Scaffold135545:3634..4423(+)
• Located in intron of: None

Retrocopy information

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

Parental gene information

• Parental gene symbol: CDK3
• Ensembl ID: ENSMEUG00000000815
• Aliases: None
• Description: cyclin-dependent kinase 3 [Source:HGNC Symbol;Acc:1772]

Sequence

>retro_meug_553
ATGCAGAAGTATGAGAAGCTGGAGAAGATAGGCGAAGGCACCTATGGAACAGTGTTCAAGGCCAAGAACCGAGAGACCCA
CGAGATTGTGGCCCTGAAACGGGTTCGCTTGGAAGATGATGATGAGGGGGTACCAAGCTCTGCCCTGAGAGAGATCTGCC
TGCTTAAGGAGTTGAAGCATAAGAATATTGTCAGGCTTCATGATGTTTTGCACAGTGACAAGAAACTGACCCTGGTTTTT
GAGTTCTGTGACCAAGATCTGAAGAAATATTTTGACAGTTGCAATGGAGACCTGAACCCTGAAATTGTGAAGTCATTCCT
TTTCCAACTGCTAAAAGGCCTTGGATTCTGCCACAGCCGTAATGTTCTGCACCGGGACCTGAAGCCGCAGAACCTTCTAA
TTAACCGGAATGGGGAACTCAAGCTTCCTGATTTTGGCTTGGCTAGAGCTTTCGGGATCCCTGTTCGATGTTACTCTGCA
GAGGTAGTCACTTTGTGGTACCGCCCACCAGATGTCCTGTTTGGGGCCAAACTCTACTCCACATCCATTGACATGTGGTC
AGCTGGTTGCATCTTTGCAGAGCTGGCCAATGCTGGACGGCCCCTCTTTCCTGGCAATGATGTAGATGATCAACTGAAGA
GGATTTTTAGGCTGCTGGGGACACCAACTGAGGAACAGTGGCCTGCCATGACCAAACTTCCAGATTATAAGCCTTATCCT
ATGTATCCAGCAACAACATCACTTGTCAATGTTGTACCCAAGCTCAATGCCACAGGGAGGGACCTATTG

Alignment

ORF - retro_meug_553 Open Reading Frame is conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 61.74 %
• Parental protein coverage: 99.62 %
• Number of stop codons detected: 0
• Number of frameshifts detected: 0

Retrocopy - Parental Gene Alignment:

Parental  MDVFQKVEKIGEGTYGVVYKARNRQTGQLVALKKIRLDSETEGVPSTAIREISLLKELKHPNIVRLLDVV
          M....K.EKIGEGTYG.V.KA.NR.T...VALK..RL....EGVPS.A.REI.LLKELKH.NIVRL.DV.
Retrocopy MQKYEKLEKIGEGTYGTVFKAKNRETHEIVALKRVRLEDDDEGVPSSALREICLLKELKHKNIVRLHDVL

Parental  HSEKKLYLVFEFLSQDLKKYMDSAAATELPLHLVKSYLFQLLQGVNFCHSHRVIHRDLKPQNLLINELGA
          HS.KKL.LVFEF..QDLKKY.DS.....L....VKS.LFQLL.G..FCHS..V.HRDLKPQNLLIN..G.
Retrocopy HSDKKLTLVFEFCDQDLKKYFDSCNG-DLNPEIVKSFLFQLLKGLGFCHSRNVLHRDLKPQNLLINRNGE

Parental  IKLADFGLARAFGVPLRTYTHEVVTLWYRAPEILLGCKFYSTAVDVWSIGCIFAEMVTR-RALFPGDSEI
          .KL.DFGLARAFG.P.R.Y..EVVTLWYR.P..L.G.K.YST..D.WS.GCIFAE.....R.LFPG....
Retrocopy LKLPDFGLARAFGIPVRCYSAEVVTLWYRPPDVLFGAKLYSTSIDMWSAGCIFAELANAGRPLFPGNDVD

Parental  DQLFRIFRTLGTPSEAMWPGVTQLPDYKGSFPKWTKKSIEEIVPSLDPEGKDLL
          DQL.RIFR.LGTP.E..WP..T.LPDYK.........S....VP.L...G.DLL
Retrocopy DQLKRIFRLLGTPTEEQWPAMTKLPDYKPYPMYPATTSLVNVVPKLNATGRDLL

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_553 retrocopy.

TSS

Macropus eugenii was not studied using FANTOM5 data.

Lab

retro_meug_553 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 3 parental genes, and 6 retrocopies.

Species	Parental gene accession	Retrocopies number
Macropus eugenii	ENSMEUG00000000815	4 retrocopies	retro_meug_1371, retro_meug_2186, retro_meug_553 , retro_meug_789,
Macropus eugenii	ENSMEUG00000014609	1 retrocopy	retro_meug_23,
Monodelphis domestica	ENSMODG00000007835	1 retrocopy	retro_mdom_32,