RetrogeneDB ID: retro_fcat_1377

Retrocopy location

• Organism: Cat (Felis catus)
• Coordinates: C2:141745497..141746545(-)
• Located in intron of: None

Retrocopy information

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

Parental gene information

• Parental gene symbol: IMPDH2
• Ensembl ID: ENSFCAG00000009844
• Aliases: None
• Description: IMP (inosine 5'-monophosphate) dehydrogenase 2 [Source:HGNC Symbol;Acc:6053]

Sequence

>retro_fcat_1377
GATCTTCTCAAGGAGGAAGAACATGACTGGCTTTGGGAAGAGATCATGATGAAGAAGGAATACTTGGTGGTAGCTCCTGC
AGGCATCACACTGAAGGAAGCAAATAAAATTCTGCAGCACAGCAAGAAGAGAAAGTTACCTATTGTAAATGAAGATGGTG
AACTAGTAGCTATCATTGCCCAGACAGACCTGAAGAAGAACTGGGATCACCTACTGGCCTCCAAAGATGCCAAAAAGTAG
CCGCTATGTGGAGCAGCCACTGGCATTCACGAAGATGACAAGTATAAGCTGAGCTTGCTAAACCAGGATGCTGTGGACTT
AGTGGATTTGGACTCTTCTCAGGAAAACTCCATCTTCCAGATCAACATGATCAAGTACATGAAAGGAAATACGCCAGTCT
CCAAGTTATTGGAGGCAATGTGGTCATGGCTATGCAGGCCAAGAACCTCATTGATGCTGGCATAGATGCCCTGTGGATGG
GCATGGGCAGTGGCTCCATATGCATCACACAGGAAGTTCTGGGCTGTGGGTGGTCCCAAGCAAAGACGATGTACAAGGTG
TCAGAATATGCATGGTGTGTTGGTGTTCCTGTCATTGCTGATAGAAGAATCTAAAGTGTGGGCCATATTGCCAAAGCCTT
GGCCCTTGGGGCTTCCACAGTCATGATGGGCTCTCTCCTGGCTGCCACCACTGAGGCCCCTGCTGAGTACTTCTTCTCCG
ATGGATTCCGGCTAAAGAAATATTGTGGTATGGGTTCTCTTGATGCCATGGATGAGCATCTCAGCAGCCATAAATGATAT
TTCAATGAAGCTGACAAAATCAAGGTGCCCAAGGGGTGTCTGAGGCTGTTCAGGACAAAGGGTCCACCACAAAATTTCTC
CCCTACCTTATCATTGGCATCCAGCACTCCTGAGAGGACACTGGTGCCAAGAGTTTGACCCGAGTCTGAGCCATGATGTA
TCCTGGGCAACTCAAGTTTGAGAACAGAATGTCCTCAGCTTAGGGAGAAGGTGGTGTCCATAGCCTCCACTTGTATAAGA
GACTCTTC

Alignment

ORF - retro_fcat_1377 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 78.47 %
• Parental protein coverage: 68.29 %
• Number of stop codons detected: 6
• Number of frameshifts detected: 2

Retrocopy - Parental Gene Alignment:

Parental  DFLKEEEHDRFLEEIMTKREDLVVAPAGITLKEANEILQRSKKGKLPIVNEDDELVAIIARTDLKKNRDY
          D.LKEEEHD...EEIM.K.E.LVVAPAGITLKEAN.ILQ.SKK.KLPIVNED.ELVAIIA.TDLKKN.D.
Retrocopy DLLKEEEHDWLWEEIMMKKEYLVVAPAGITLKEANKILQHSKKRKLPIVNEDGELVAIIAQTDLKKNWDH

Parental  PLASKDAKKQLLCGAAIGTHEDDKYRLDLLAQAGVDVVVLDSSQGNSIFQINMIKYIK-EKYPSLQVIGG
          .LASKDAKK..LCGAA.G.HEDDKY.L.LL.Q..VD.V.LDSSQ.NSIFQINMIKY.K..KY.SLQVIGG
Retrocopy LLASKDAKK*PLCGAATGIHEDDKYKLSLLNQDAVDLVDLDSSQENSIFQINMIKYMK<RKYASLQVIGG

Parental  NVVTAAQAKNLIDAGVDALRVGMGSGSICITQEVLACGRPQATAVYKVSEYARRFGVPVIADGGIQNVGH
          NVV.A.QAKNLIDAG.DAL..GMGSGSICITQEVL.CG..QA...YKVSEYA...GVPVIAD..I..VGH
Retrocopy NVVMAMQAKNLIDAGIDALWMGMGSGSICITQEVLGCGWSQAKTMYKVSEYAWCVGVPVIADRRI*SVGH

Parental  IAKALALGASTVMMGSLLAATTEAPGEYFFSDGIRLKKYRGMGSLDAMDKHLSSQNRYFSEADKIKV-AQ
          IAKALALGASTVMMGSLLAATTEAP.EYFFSDG.RLKKY.GMGSLDAMD.HLSS...YF.EADKIKV.AQ
Retrocopy IAKALALGASTVMMGSLLAATTEAPAEYFFSDGFRLKKYCGMGSLDAMDEHLSSHK*YFNEADKIKV<AQ

Parental  GVSGAVQDKGSIHKFVPYLIAGIQHSCQDIGAKSLTQVRAMMYSGELKFEKRTSSAQVEGGVHSLHSYEK
          GVS.AVQDKGS..KF.PYLI.GIQHS..D.GAKSLT.V.AMMY.G.LKFE.R.SSA..EGGVHSLH.Y.K
Retrocopy GVSEAVQDKGSTTKFLPYLIIGIQHS*EDTGAKSLTRV*AMMYPGQLKFENRMSSA*GEGGVHSLHLY-K

Parental  RLF
          RLF
Retrocopy RLF

Legend:

• *: Stop codon
• >: Forward frameshift by one nucleotide
• <: Reverse frameshift by one nucleotide

Expression

RNA-Seq

Expression validation based on RNA-Seq data:

Library	Retrocopy expression	Parental gene expression
SRP017611_brain	0.00 RPM	42.70 RPM
SRP017611_kidney	0.00 RPM	89.66 RPM
SRP017611_liver	0.00 RPM	76.63 RPM

ChIP-Seq

Felis catus was not studied using ChIP-Seq data.

EST

No EST(s) were mapped for retro_fcat_1377 retrocopy.

TSS

Felis catus was not studied using FANTOM5 data.

Lab

retro_fcat_1377 was not experimentally validated.

Homology

Retrocopy orthology:

Felis catus 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 9 parental genes, and 16 retrocopies.

Species	Parental gene accession	Retrocopies number
Felis catus	ENSFCAG00000009844	1 retrocopy	retro_fcat_1377 ,
Homo sapiens	ENSG00000178035	1 retrocopy	retro_hsap_697,
Gorilla gorilla	ENSGGOG00000013245	1 retrocopy	retro_ggor_594,
Mus musculus	ENSMUSG00000062867	1 retrocopy	retro_mmus_3158,
Nomascus leucogenys	ENSNLEG00000006743	7 retrocopies	retro_nleu_1126, retro_nleu_1371, retro_nleu_1378, retro_nleu_1591, retro_nleu_2183, retro_nleu_2188, retro_nleu_359,
Pongo abelii	ENSPPYG00000013884	1 retrocopy	retro_pabe_528,
Pan troglodytes	ENSPTRG00000014908	1 retrocopy	retro_ptro_501,
Rattus norvegicus	ENSRNOG00000031965	1 retrocopy	retro_rnor_1523,
Tursiops truncatus	ENSTTRG00000017349	2 retrocopies	retro_ttru_1148, retro_ttru_1665,