RetrogeneDB ID: retro_fcat_732

Retrocopy location

• Organism: Cat (Felis catus)
• Coordinates: B2:120744988..120745632(+)
• Located in intron of: None

Retrocopy information

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

Parental gene information

• Parental gene symbol: None
• Ensembl ID: ENSFCAG00000002370
• Aliases: None
• Description: None

Sequence

>retro_fcat_732
GGGCCAACTGCTGCCAGGATTCTGCTGGAGGCAAACAAGTGCATCATTGAGGAGATGCTGGCACTCAATTTTGAGAATGC
AGCCCCTCACAGCAAACCAGAAGCAGCAGTCACATGTGCAGATTTCGATGGAGTCCGCTATCGTATTTCAAATCCTAATG
GAGACAAAACAAAAGTGATGGTCAGTATTTCTTTGAAATTCAGCAAGGAATCGAGGCACATAGTGCTGATGAGTTATTAA
AGAGAGTGTATGGGAGCTTCTTGGTAAATCCTGAGTCAGGATACAATATCTTTTTTGCTATTGTGACTTTGGAAATCTGC
CGGCATCCAAGATTCCACTGTGCATCAGGTTGGCATGTTGAAATGAAATTGTTTTGCCTCTGTCTTTGAGAAATACTTGC
AGTTCCAAGAAGAGGATAAAGAAGGAGAGAACAGGGCAGTTATCCATGTAGGGATGATGAGACCATGTATGCCGAGTCTT
AAAAAGACAGAGTCACAGTCGTCTTCAGCATAGTGCTTAAGGATGTTGATGATGTGGCCATTGGAAAAGTGTTCATGCAG
AACTTCGAAGAAGGAGGCAGAGCCAGCCATACAGCCCTACAGGTCCTCTTTAGCCACAGGGAACCTCCTCTCGAGCTGAA
AGAC

Alignment

ORF - retro_fcat_732 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 73.52 %
• Parental protein coverage: 57.29 %
• Number of stop codons detected: 3
• Number of frameshifts detected: 3

Retrocopy - Parental Gene Alignment:

Parental  GAAAAMILLEVNNRIIEETLALKFENAAAGNKPEAVEVTFADFDGVLYHISNPNGDKTKVMVSISLKFYK
          G..AA.ILLE.N..IIEE.LAL.FENAA...KPEA..VT.ADFDGV.Y.ISNPNGDKTKVMVSISLKF.K
Retrocopy GPTAARILLEANKCIIEEMLALNFENAAPHSKPEAA-VTCADFDGVRYRISNPNGDKTKVMVSISLKFSK

Parental  E-LQAHGADELLKRVYNLWIFPPLPGYNV-SLLYDLENLPASKDSIVHQAGMLKRNCFASVFEKYFQFQE
          E...AH.ADELLKRVY......P..GYN...LL..L.......DS.VHQ.GMLK.NCFASVFEKY.QFQE
Retrocopy E<IEAHSADELLKRVYGSFLVNPESGYNI>FLLL*LWKSAGIQDSTVHQVGMLK*NCFASVFEKYLQFQE

Parental  EGKEGENRAVIHY-RDDETMYVESKKDRVTVVFSTVFKDDDDVVIGKVFMQEFKEGRRASHTAPQVLFSH
          E.KEGENRAVIH..RDDETMY.ES.KDRVTVVFS.V.KD.DDV.IGKVFMQ.F.EG.RASHTA.QVLFSH
Retrocopy EDKEGENRAVIHV<RDDETMYAES*KDRVTVVFSIVLKDVDDVAIGKVFMQNFEEGGRASHTALQVLFSH

Parental  REPPLELKD
          REPPLELKD
Retrocopy REPPLELKD

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	86.77 RPM
SRP017611_kidney	0.82 RPM	92.75 RPM
SRP017611_liver	0.40 RPM	60.25 RPM

ChIP-Seq

Felis catus was not studied using ChIP-Seq data.

EST

No EST(s) were mapped for retro_fcat_732 retrocopy.

TSS

Felis catus was not studied using FANTOM5 data.

Lab

retro_fcat_732 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 19 retrocopies.

Species	Parental gene accession	Retrocopies number
Ailuropoda melanoleuca	ENSAMEG00000003197	2 retrocopies	retro_amel_1771, retro_amel_1846,
Canis familiaris	ENSCAFG00000014618	1 retrocopy	retro_cfam_513,
Choloepus hoffmanni	ENSCHOG00000010564	5 retrocopies	retro_chof_1845, retro_chof_2103, retro_chof_2226, retro_chof_2227, retro_chof_473,
Dasypus novemcinctus	ENSDNOG00000006037	1 retrocopy	retro_dnov_5,
Dipodomys ordii	ENSDORG00000016107	1 retrocopy	retro_dord_624,
Felis catus	ENSFCAG00000002370	1 retrocopy	retro_fcat_732 ,
Loxodonta africana	ENSLAFG00000007414	1 retrocopy	retro_lafr_593,
Myotis lucifugus	ENSMLUG00000004161	1 retrocopy	retro_mluc_390,
Mustela putorius furo	ENSMPUG00000016512	1 retrocopy	retro_mputfur_1294,
Mus musculus	ENSMUSG00000006304	1 retrocopy	retro_mmus_1556,
Oryctolagus cuniculus	ENSOCUG00000005516	1 retrocopy	retro_ocun_483,
Pteropus vampyrus	ENSPVAG00000017133	1 retrocopy	retro_pvam_1216,
Sorex araneus	ENSSARG00000003326	1 retrocopy	retro_sara_283,
Tarsius syrichta	ENSTSYG00000001037	1 retrocopy	retro_tsyr_557,