RetrogeneDB ID: retro_meug_2186

Retrocopy location

• Organism: Wallaby (Macropus eugenii)
• Coordinates: Scaffold99077:11632..12416(-)
• 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_2186
GTGATGCAGAAGTATGAGAGAACAGATGAAGGTTCTTATGGACTAGTGTTCAAGGCCAAGAGCCAAGAGACCCACAAGAC
TGTGGCCCTGAATCGGGTTTGTTTCAATGATGATGATGAGGGGGTACCAAGCTCTGCCCTGACAGAGATCTGCCTGCTTA
AGGAGCTCACACATAAGAATATTGTCAGGCTTCATGATGTTTTGCACAGTGACAAGAAACTGACCCTGGTTTTTGAGCTC
TGTGATCAAGATCTGAAGAAATATTTTGACAGAAGCAATGGAGACCTGCACCCTGAAATTGTGAAGTCATTGCTTTCCCA
ACTGCTAAAAGGCATTGGATTCTGCCACAGCTTTAATGTTCTGCATCAGGACCTGAAGCCCCAGAACCTTCTAATTAACC
AGAATGGGGAGCTCAAGCTTGCTGATTTTGGGTTGGTTAGAGCCTTCAAAATCCCTGTTCGATGTTACTCTGCAGAGGTG
GTCACTTTGTGGTACTGCCCACCTGATGTCCTGTTCAGGGTCAAACTCTACTGCGCATCTATTGACATGTGGTCAGCTGG
TTGCATCTTAGCAGAGCTGGCCAATGCTGGATGACTCCTCTTCCCTGGTAATGATGTAAATAATCAACTGAAGAGGATTT
TTATTGCTGCTGGGGACTCCAACTGAGGAACAGTGGCCTGCCATAACCAAGCTTCCAGATTATAAGCTTTATCCTCTGTA
TCCAGCAACAATGTCACTTGTCAATATTGTATCCAAGCTCAATGCCACAGGGGGGCACCTATTG

Alignment

ORF - retro_meug_2186 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 53.03 %
• Parental protein coverage: 98.86 %
• Number of stop codons detected: 1
• Number of frameshifts detected: 1

Retrocopy - Parental Gene Alignment:

Parental  VFQKVEKIGEGTYGVVYKARNRQTGQLVALKKIRLDSETEGVPSTAIREISLLKELKHPNIVRLLDVVHS
          V.QK.E...EG.YG.V.KA....T...VAL.........EGVPS.A..EI.LLKEL.H.NIVRL.DV.HS
Retrocopy VMQKYERTDEGSYGLVFKAKSQETHKTVALNRVCFNDDDEGVPSSALTEICLLKELTHKNIVRLHDVLHS

Parental  EKKLYLVFEFLSQDLKKYMDSAAATELPLHLVKSYLFQLLQGVNFCHSHRVIHRDLKPQNLLINELGAIK
          .KKL.LVFE...QDLKKY.D......L....VKS.L.QLL.G..FCHS..V.H.DLKPQNLLIN..G..K
Retrocopy DKKLTLVFELCDQDLKKYFDRSNG-DLHPEIVKSLLSQLLKGIGFCHSFNVLHQDLKPQNLLINQNGELK

Parental  LADFGLARAFGVPLRTYTHEVVTLWYRAPEILLGCKFYSTAVDVWSIGCIFAEMVTRR-ALFPGDSEIDQ
          LADFGL.RAF..P.R.Y..EVVTLWY..P..L...K.Y....D.WS.GCI.AE.......LFPG.....Q
Retrocopy LADFGLVRAFKIPVRCYSAEVVTLWYCPPDVLFRVKLYCASIDMWSAGCILAELANAG*LLFPGNDVNNQ

Parental  LFRIF-RTLGTPSEAMWPGVTQLPDYKGSFPKW-TKKSIEEIVPSLDPEGKDLL
          L.RIF...LGTP.E..WP..T.LPDYK...P......S...IV..L...G..LL
Retrocopy LKRIF>LLLGTPTEEQWPAITKLPDYK-LYPLYPATMSLVNIVSKLNATGGHLL

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_2186 retrocopy.

TSS

Macropus eugenii was not studied using FANTOM5 data.

Lab

retro_meug_2186 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,