RetrogeneDB ID: retro_fcat_1969

Retrocopy location

• Organism: Cat (Felis catus)
• Coordinates: X:25947275..25947691(-)
• Located in intron of: None

Retrocopy information

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

Parental gene information

• Parental gene symbol: BCL7C
• Ensembl ID: ENSFCAG00000029090
• Aliases: None
• Description: B-cell CLL/lymphoma 7C [Source:HGNC Symbol;Acc:1006]

Sequence

>retro_fcat_1969
GAGGAGTGCTGGGTCAACTGTAGGCCACACTTCCCTTTGTATCTTCAAGTTGGGTGCCAGTGGTGGATCTCCAGGAGGGG
GAGCGACAGAGGGCAGGTGGTGGGGACAGAGAGATTCCGAGCCCTGGAGTGGTGGGGTAGGGGCGCCAGTCCCTTAGGGT
GGCCCCCTCATCCTGCTGTGTCTCAGTGATGAAAACAGTAACCACAGTTTCCATTCGGAGACCTCCCTGCAAAAGGGCAC
TGAGTCCGGCCCATGGGACACCCCCCAGCCCAGCCTCCCCGTGGCTCCTGCCCCCACCACTTGAAGTGGCCCCAGAGCAT
GCTCAGCCCCCATGGCTGTGCCAAGAGACAGATCCTGGGGGCCTAACTGCAGGCGACACCCATGCACTCCCATTGCTGAC
CAAGGAGGATCCTGTT

Alignment

ORF - retro_fcat_1969 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 64.79 %
• Parental protein coverage: 74.19 %
• Number of stop codons detected: 1
• Number of frameshifts detected: 4

Retrocopy - Parental Gene Alignment:

Parental  EKRWV-TVGDTSLRIFK-WVPVVDPQEEERRRAGGG-AERSRGRERRGRGASPRGGGPLILLDLNDENSN
          E..WV.TVG.TSL.IFK.WVPVVD.QE.ER.RAGGG...R.......G.GA....GGPLILL.L.DENSN
Retrocopy EECWV>TVGHTSLCIFK>WVPVVDLQEGERQRAGGG<GQRDSEPWSGGVGAPVP*GGPLILLCLSDENSN

Parental  QSFHSEGSLQKGTEPSPGGTPQPSRPVSPA-GPPEGVPEDAQPPRLGQERDPGGITAGSTDEPPMLTKEE
          .SFHSE.SLQKGTE..P..TPQPS.PV.PA..P.E..PE.AQPP.L.QE.DPGG.TAG.T...P.LTKE.
Retrocopy HSFHSETSLQKGTESGPWDTPQPSLPVAPA>PPLEVAPEHAQPPWLCQETDPGGLTAGDTHALPLLTKED

Parental  PV
          PV
Retrocopy PV

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	2.30 RPM
SRP017611_kidney	0.00 RPM	5.77 RPM
SRP017611_liver	0.00 RPM	3.23 RPM

ChIP-Seq

Felis catus was not studied using ChIP-Seq data.

EST

No EST(s) were mapped for retro_fcat_1969 retrocopy.

TSS

Felis catus was not studied using FANTOM5 data.

Lab

retro_fcat_1969 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 8 parental genes, and 21 retrocopies.

Species	Parental gene accession	Retrocopies number
Ailuropoda melanoleuca	ENSAMEG00000007604	2 retrocopies	retro_amel_1090, retro_amel_1613,
Bos taurus	ENSBTAG00000008412	1 retrocopy	retro_btau_618,
Canis familiaris	ENSCAFG00000016715	1 retrocopy	retro_cfam_898,
Dipodomys ordii	ENSDORG00000001676	1 retrocopy	retro_dord_517,
Equus caballus	ENSECAG00000000482	1 retrocopy	retro_ecab_704,
Felis catus	ENSFCAG00000029090	1 retrocopy	retro_fcat_1969 ,
Macaca mulatta	ENSMMUG00000003225	13 retrocopies	retro_mmul_1247, retro_mmul_1613, retro_mmul_1818, retro_mmul_2108, retro_mmul_2153, retro_mmul_2644, retro_mmul_390, retro_mmul_724, retro_mmul_740, retro_mmul_750, retro_mmul_755, retro_mmul_791, retro_mmul_975,
Mustela putorius furo	ENSMPUG00000011988	1 retrocopy	retro_mputfur_954,