RetrogeneDB ID: retro_fcat_1350

Retrocopy location

• Organism: Cat (Felis catus)
• Coordinates: C2:72385245..72385595(-)
• Located in intron of: ENSFCAG00000026503

Retrocopy information

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

Parental gene information

• Parental gene symbol: ANAPC15
• Ensembl ID: ENSFCAG00000005321
• Aliases: None
• Description: anaphase promoting complex subunit 15 [Source:HGNC Symbol;Acc:24531]

Sequence

>retro_fcat_1350
TCCCTCACTCCCTCACTCTTCCCCTGTGTGACTGAGACACTGTGGTTTAATCTGGATTGACCCTGCGTGGAGGAGACAGA
GCTGCAGCAGCAAGAACAACAGCATCAGGCCTGGCTCCAGAGCATTGCAGAGAAAGACAATCTGGTACCTATCAGCAAGC
CGGCCTCAGAGCACTATGACGACGAGGAAGAGGAGGATGAAGATAAGGAGGGTAGTGAAGAGGACTCAGAGGTTGATGAG
GACATGCAGGACATGGATGAGATGAATAACTACAATGAGTCACCTGATGATGGAGAGGTCAGTGAGGTGGAATAGAAGAC
AATGAACAGGATCAGGACCAGTGGATGATC

Alignment

ORF - retro_fcat_1350 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 86.67 %
• Parental protein coverage: 90.15 %
• Number of stop codons detected: 1
• Number of frameshifts detected: 1

Retrocopy - Parental Gene Alignment:

Parental  TLFPSLFPRVTETLWFNLDRPCVEETELQQQEQQHQAWLQSIAEKDNNLVPIGKPASEHYDDEEEEDEDD
          .L.PSLFP.VTETLWFNLD.PCVEETELQQQEQQHQAWLQSIAEKDN.LVPI.KPASEHYDDEEEEDE.D
Retrocopy SLTPSLFPCVTETLWFNLD*PCVEETELQQQEQQHQAWLQSIAEKDN-LVPISKPASEHYDDEEEEDE-D

Parental  DEDSEEDSEDDEDMQDMDEMNDYNESPDDGEVNEVD-MEGNEQDQDQWMI
          .E.SEEDSE.DEDMQDMDEMN.YNESPDDGEV.EV...E.NEQDQDQWMI
Retrocopy KEGSEEDSEVDEDMQDMDEMNNYNESPDDGEVSEVE<IEDNEQDQDQWMI

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	12.51 RPM
SRP017611_kidney	0.00 RPM	27.62 RPM
SRP017611_liver	0.00 RPM	7.38 RPM

ChIP-Seq

Felis catus was not studied using ChIP-Seq data.

EST

No EST(s) were mapped for retro_fcat_1350 retrocopy.

TSS

Felis catus was not studied using FANTOM5 data.

Lab

retro_fcat_1350 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 16 parental genes, and 20 retrocopies.

Species	Parental gene accession	Retrocopies number
Ailuropoda melanoleuca	ENSAMEG00000010843	1 retrocopy	retro_amel_298,
Bos taurus	ENSBTAG00000002999	2 retrocopies	retro_btau_252, retro_btau_269,
Canis familiaris	ENSCAFG00000005781	1 retrocopy	retro_cfam_1752,
Equus caballus	ENSECAG00000021041	1 retrocopy	retro_ecab_470,
Felis catus	ENSFCAG00000005321	1 retrocopy	retro_fcat_1350 ,
Homo sapiens	ENSG00000110200	1 retrocopy	retro_hsap_4780,
Gorilla gorilla	ENSGGOG00000012501	2 retrocopies	retro_ggor_1999, retro_ggor_2977,
Myotis lucifugus	ENSMLUG00000014120	1 retrocopy	retro_mluc_238,
Macaca mulatta	ENSMMUG00000016270	1 retrocopy	retro_mmul_2551,
Mustela putorius furo	ENSMPUG00000010260	1 retrocopy	retro_mputfur_596,
Nomascus leucogenys	ENSNLEG00000017234	1 retrocopy	retro_nleu_1100,
Pongo abelii	ENSPPYG00000003646	2 retrocopies	retro_pabe_2388, retro_pabe_3720,
Pteropus vampyrus	ENSPVAG00000015797	1 retrocopy	retro_pvam_404,
Sorex araneus	ENSSARG00000004171	2 retrocopies	retro_sara_444, retro_sara_686,
Tarsius syrichta	ENSTSYG00000014179	1 retrocopy	retro_tsyr_35,
Tursiops truncatus	ENSTTRG00000010773	1 retrocopy	retro_ttru_277,