RetrogeneDB ID: retro_fcat_1768

Retrocopy location

• Organism: Cat (Felis catus)
• Coordinates: F1:11840625..11841095(-)
• Located in intron of: None

Retrocopy information

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

Parental gene information

• Parental gene symbol: ERI3
• Ensembl ID: ENSFCAG00000005285
• Aliases: None
• Description: ERI1 exoribonuclease family member 3 [Source:HGNC Symbol;Acc:17276]

Sequence

>retro_fcat_1768
CAGACCACAGAGATTGGGTCTGCCTTTCCCACATATGTCCAGCCTGTGGTCCATCCACAGCTTTCTCCCTTCTGTACCCA
GCTCACCAGGATTATTCAAGCCATGGCGGATGGTCAGCCAAGCCTGCAGCAAGTGGTGTAGACGGTGGATGAGCAGATAG
CAAAAGAAAGCCTCTTCGATCCAAATGTCAATTTTTGTCACGTGTGGAGACTGGGACTCGAAAGTCCCAGGCCAGGGCCA
TACTTGGGTTTGCCAGTGGCAAATTACTTCAAGCAGTGGATTAATTTGAAAAAGGCTTACAGCTTCACCATGGGCTGCTG
GCCCAGGAATGGATTTCTAGACAGGAACCAGGACCCCAGCCTGCAACACATAGGCGGGTCCCACCGCAGCACGATGACTA
CAACATTGCCAACATCATAAAGACACTTGCATATCAAGGCCTCATCTTCAAGCAGACATCGAAGCCATTC

Alignment

ORF - retro_fcat_1768 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 68.1 %
• Parental protein coverage: 62.55 %
• Number of stop codons detected: 1
• Number of frameshifts detected: 1

Retrocopy - Parental Gene Alignment:

Parental  RTMEIESTFHMYVQPVVHPQLTPFCTELTGIIQAMVDGQPSLQQVLERVDEWMAKEGLLDPNVKSIFVTC
          .T.EI.S.F..YVQPVVHPQL.PFCT.LT.IIQAM.DGQPSLQQV...VDE..AKE.L.DPNV....V..
Retrocopy QTTEIGSAFPTYVQPVVHPQLSPFCTQLTRIIQAMADGQPSLQQVV*TVDEQIAKESLFDPNVNFCHV--

Parental  GDWDLKVMLPGQCQYLGLPVADYFKQWINLKKAYSFAMGCWPKNGLLDMNKGLSLQHIGRPHSGI-DDCK
          ..W.L....P....YLGLPVA.YFKQWINLKKAYSF.MGCWP.NG.LD.N...SLQHIG..H....DD..
Retrocopy --WRLGLESPRPGPYLGLPVANYFKQWINLKKAYSFTMGCWPRNGFLDRNQDPSLQHIGGSHRST<DD-Y

Parental  NIANIMKTLAYQGFIFKQTSKPF
          NIANI.KTLAYQG.IFKQTSKPF
Retrocopy NIANIIKTLAYQGLIFKQTSKPF

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	39.83 RPM
SRP017611_kidney	0.10 RPM	20.61 RPM
SRP017611_liver	0.20 RPM	10.82 RPM

ChIP-Seq

Felis catus was not studied using ChIP-Seq data.

EST

No EST(s) were mapped for retro_fcat_1768 retrocopy.

TSS

Felis catus was not studied using FANTOM5 data.

Lab

retro_fcat_1768 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 4 parental genes, and 4 retrocopies.

Species	Parental gene accession	Retrocopies number
Bos taurus	ENSBTAG00000015559	1 retrocopy	retro_btau_1015,
Callithrix jacchus	ENSCJAG00000003995	1 retrocopy	retro_cjac_3212,
Felis catus	ENSFCAG00000005285	1 retrocopy	retro_fcat_1768 ,
Pan troglodytes	ENSPTRG00000000655	1 retrocopy	retro_ptro_899,