RetrogeneDB ID: retro_fcat_641

Retrocopy location

• Organism: Cat (Felis catus)
• Coordinates: B1:107353961..107354392(-)
• Located in intron of: None

Retrocopy information

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

Parental gene information

• Parental gene symbol: ZFAND5
• Ensembl ID: ENSFCAG00000027317
• Aliases: None
• Description: zinc finger, AN1-type domain 5 [Source:HGNC Symbol;Acc:13008]

Sequence

>retro_fcat_641
TCCGTTTGCTACAAAGAAAATCATCAGAGACAGCAGAAATAGTGGCAGAATGAGCCCAGTAAGTCTAGTGGTTCCAACAG
TCCTACCTCGGGATTCTGCTACTGTACAGAAAACAGAGACTAGTTTAAACAACTGCGAAGGTGCTTCTGGCAGCATATCT
GAAAAATCAAGGAATGGGCGGTGGCTGCCTTGCCTGTAACTCACCAAATGACAGAAATGAGCATTTCGAGAGGACGAAAT
AAATACCTCCAAAACAGAGGTATCAGACCCAGTTGTCACTCAGCCCAGTCCATCAGTTTCTCAGTCCAGTACTTCTCAAA
GTGAAGGAAAAGCTCCTGGGTTGCTGAAACCAAAGAAGAGATGTTTTATGTGCAGAAAGAAAGTTTGGCCTTACAGGGTT
TGACTGCTGATGTGGAAATTTGTTTTGTGGA

Alignment

ORF - retro_fcat_641 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 74.83 %
• Parental protein coverage: 68.54 %
• Number of stop codons detected: 3
• Number of frameshifts detected: 5

Retrocopy - Parental Gene Alignment:

Parental  SVCYKEHLQRQQNSGRMSPMGTASGSNSPTS-DSASVQRADTSLNNCEGAAGSTSEKSRN-VPVAALPVT
          SVCYKE..QRQQ......P....SGSNSPTS.DSA.VQ...TSLNNCEGA.GS.SEKSRN...VAALPVT
Retrocopy SVCYKENHQRQQK*WQNEP-SKSSGSNSPTS>DSATVQKTETSLNNCEGASGSISEKSRN<WAVAALPVT

Parental  QQMTEMSISR-EDKITTPK-TEVSEPVVTQPSPSVSQPSTSQSEEKAPELPKPKKNRCFMCRKKV-GLTG
          .QMTEMSISR...K...PK.TEVS.PVVTQPSPSVSQ.STSQSE.KAP.L.KPKK.RCFMCRKKV.GLTG
Retrocopy HQMTEMSISR<RTK*IPPK<TEVSDPVVTQPSPSVSQSSTSQSEGKAPGLLKPKK-RCFMCRKKV>GLTG

Parental  FDCRCGNLFCG
          FDC.CGNLFCG
Retrocopy FDC*CGNLFCG

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	0.11 RPM	259.50 RPM
SRP017611_kidney	0.10 RPM	114.08 RPM
SRP017611_liver	0.00 RPM	117.77 RPM

ChIP-Seq

Felis catus was not studied using ChIP-Seq data.

EST

No EST(s) were mapped for retro_fcat_641 retrocopy.

TSS

Felis catus was not studied using FANTOM5 data.

Lab

retro_fcat_641 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 18 retrocopies.

Species	Parental gene accession	Retrocopies number
Choloepus hoffmanni	ENSCHOG00000002366	2 retrocopies	retro_chof_1050, retro_chof_1846,
Cavia porcellus	ENSCPOG00000005076	2 retrocopies	retro_cpor_1398, retro_cpor_774,
Felis catus	ENSFCAG00000012931	2 retrocopies	retro_fcat_1024, retro_fcat_1998,
Felis catus	ENSFCAG00000027317	1 retrocopy	retro_fcat_641 ,
Homo sapiens	ENSG00000107372	1 retrocopy	retro_hsap_2063,
Gorilla gorilla	ENSGGOG00000008957	1 retrocopy	retro_ggor_1485,
Myotis lucifugus	ENSMLUG00000007173	2 retrocopies	retro_mluc_1233, retro_mluc_1993,
Monodelphis domestica	ENSMODG00000004426	1 retrocopy	retro_mdom_1910,
Mustela putorius furo	ENSMPUG00000008951	1 retrocopy	retro_mputfur_143,
Mus musculus	ENSMUSG00000024750	1 retrocopy	retro_mmus_1176,
Oryctolagus cuniculus	ENSOCUG00000000795	1 retrocopy	retro_ocun_1546,
Procavia capensis	ENSPCAG00000007436	1 retrocopy	retro_pcap_112,
Pongo abelii	ENSPPYG00000019290	1 retrocopy	retro_pabe_1676,
Vicugna pacos	ENSVPAG00000000700	1 retrocopy	retro_vpac_23,