RetrogeneDB ID: retro_fcat_1062

Retrocopy location

• Organism: Cat (Felis catus)
• Coordinates: B4:101364717..101365316(-)
• Located in intron of: None

Retrocopy information

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

Parental gene information

• Parental gene symbol: CCNG2
• Ensembl ID: ENSFCAG00000026008
• Aliases: None
• Description: cyclin G2 [Source:HGNC Symbol;Acc:1593]

Sequence

>retro_fcat_1062
TTGGAGACAGGAAAATGTAGAGACCTAAGGGATTTAACCAACATTTTGGGGGAATCTTGCACATAAACTTTCATCCTGGC
TACCAATATTTTGGACAGATCCTTGGCTTTTACGACAGGGAGACCTAAGATTTGCCTCACATTGGAGTCTGTTGTGTTTG
CTGGTTGCCGGCATAGTTGAACAAGAATGCATTTCTTCCACTCCTGAAGTAATCCAAATTAGTCAGTGTAAATACACTGG
TTCTGACAGAAAATGAAGGGAAAATATAATTCTGGAAAAAATTCAGAACTATGAAATGGAACAGGCTGCTGTCTTGAACT
CTGTTCTACTTGTATAAGAACATTATACTTCATATTTCAGAAAGGAAGGAAATATCGAGCCTTGGTAACCTGGGAGCTCA
GCTGAAAGCTTACAATTTTCAACTAGTCTTTTCAAAAGCAAAGCCATCTGTGTGAGCTTTGTACCTCCTCAATCTGGAAG
GACAAACGTAAGTCAACAAATAATCACGAATATTCCTGCTTGTTATAAAGCATTTGAAGATTAATGACACTGAGTTCTTT
TATTGGAGGGAAGTAGTTTCTAAGTGTCTAGCTGAATAT

Alignment

ORF - retro_fcat_1062 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 59.22 %
• Parental protein coverage: 58.6 %
• Number of stop codons detected: 5
• Number of frameshifts detected: 3

Retrocopy - Parental Gene Alignment:

Parental  LRNAKVEDLRSLTNFFG-SCTETFVLAVNILDRFLALMKVKPK-HLSCIGVCCF-LLAARIVEEECNIPS
          L...K..DLR.LTN..G.SCT.TF.LA.NILDR.LA.....PK..L..IGVCC..LL.A.IVE.EC.I.S
Retrocopy LETGKCRDLRDLTNILGESCT*TFILATNILDRSLAFTTGRPK<DLPHIGVCCV<LLVAGIVEQEC-ISS

Parental  THDVIRISQCKCTASDIKRMEKIISEKL-HYELEATTALN-FLHLYHTIVLCHTSERKEILSLDKLEAQL
          T..VI.ISQCK.T.SD.K..E.II.EK...YE.E....LN....LY..I.L.H.SERKEI.SL..L.AQL
Retrocopy TPEVIQISQCKYTGSDRK*RENIILEKIQNYEMEQAAVLN>LFYLYKNIIL-HISERKEISSLGNLGAQL

Parental  KACNCRLTFSKAKPSVLALCLLNLEVETLKSIELLEILLLVKKHSKVNDTEFIYWRELVSKCLAEY
          KA.N..L.FSKAKPSV.AL.LLNLE..T.........LL...KH.K.NDTEF.YWRE.VSKCLAEY
Retrocopy KAYNFQLVFSKAKPSV*ALYLLNLEGQT*VNK*SRIFLLVI-KHLKINDTEFFYWREVVSKCLAEY

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	28.23 RPM
SRP017611_kidney	0.00 RPM	71.11 RPM
SRP017611_liver	0.00 RPM	12.43 RPM

ChIP-Seq

Felis catus was not studied using ChIP-Seq data.

EST

No EST(s) were mapped for retro_fcat_1062 retrocopy.

TSS

Felis catus was not studied using FANTOM5 data.

Lab

retro_fcat_1062 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 14 parental genes, and 15 retrocopies.

Species	Parental gene accession	Retrocopies number
Ailuropoda melanoleuca	ENSAMEG00000013793	1 retrocopy	retro_amel_960,
Dasypus novemcinctus	ENSDNOG00000005210	1 retrocopy	retro_dnov_2498,
Felis catus	ENSFCAG00000026008	1 retrocopy	retro_fcat_1062 ,
Felis catus	ENSFCAG00000027366	1 retrocopy	retro_fcat_763,
Macropus eugenii	ENSMEUG00000008707	1 retrocopy	retro_meug_1962,
Macaca mulatta	ENSMMUG00000000914	1 retrocopy	retro_mmul_879,
Monodelphis domestica	ENSMODG00000011779	1 retrocopy	retro_mdom_358,
Nomascus leucogenys	ENSNLEG00000008169	1 retrocopy	retro_nleu_933,
Pongo abelii	ENSPPYG00000014867	1 retrocopy	retro_pabe_942,
Pan troglodytes	ENSPTRG00000016196	1 retrocopy	retro_ptro_773,
Sus scrofa	ENSSSCG00000008988	1 retrocopy	retro_sscr_813,
Ictidomys tridecemlineatus	ENSSTOG00000027922	1 retrocopy	retro_itri_1112,
Tupaia belangeri	ENSTBEG00000007671	2 retrocopies	retro_tbel_2258, retro_tbel_38,
Tursiops truncatus	ENSTTRG00000014837	1 retrocopy	retro_ttru_491,