RetrogeneDB ID: retro_fcat_67

Retrocopy location

• Organism: Cat (Felis catus)
• Coordinates: B3:22827290..22828532(+)
• Located in intron of: None

Retrocopy information

• Ensembl ID: ENSFCAG00000009688
• Aliases: None
• Status: KNOWN_PROTEIN_CODING

Parental gene information

• Parental gene symbol: MKRN1
• Ensembl ID: ENSFCAG00000024942
• Aliases: None
• Description: makorin ring finger protein 1 [Source:HGNC Symbol;Acc:7112]

Sequence

>retro_fcat_67
CTGCATGGGCTTTGCAAGGAGGGGGAGAACTGTCGCTACTCACATGACCTCTCAGGCCAGCAGTTGGCCAGGGAGGGCCA
TGGTTCACTGCCTCGGGCCTCTGCAGACCAAGGCCCTAGCACGGCTGCGCATACTGAGACCCTGCCTCAGGAAGTGGCGA
AAGCCCCCTCTGCTGCGCCTTCATGCTCCTTGCCTGTGATTGGCTTGGCTGCTGAAAGGGGTTTCTTTGAAGCTGAGAGA
GACAATGCAGGCCTTGCAGCTGCAGGAGGAGCCAGTGTAGAAGGCTGGGAGAATGCTATTGAATTTGTTCCCGGGCAACC
CTATAGGGGCCGCATGGTCCCTTTTGTTCCCAGGGCTCCTCTACAGAGCCCAGTGACTGAGAGGGAACAGATTGCAGTGG
GCAGGGGTCAGCAGCTTTGCCGTGATGCTGCCATGGGGCAGTGCTTTCGTGGGGAGAGTTGTATGTATATCCATGGAGAG
ATATGCGATATGTGTGGGCTTCAGGTCTTGCACCCTGTGGATGCTGTGCAGAGGGCAGACCATACAAAGGCTTGCATTGA
AGCACACGAAAAGGATATGGAACTCTCATTTGCAGTGCAGCGAAGTATGGACAAGGTGTGTGGCATCTGCATGGAGGTTG
TCTATGAGAAAGTCAACCCTAGTGACTGCCGCTTTGGCATCCTCTCCAACTGCAACCACACCTACTGTCTTAAGTGTATC
CGCAGGTGGAGGACTGACAAACAGTTTGGCAACAGGATCGTCAAGTCCTGTCCACAGTGCAGGGTTACCTCCAACTTTGT
CATTCCCAGTGAGTTCTGGGTGGAGGAGGAGGAAGAGAAACAGAAACTTATTCAGCAGTACAAGGAGGCAATGAGCAACA
AGACTTGCAGGTATTTTGCTGAAGGCAGGGGTTACTGCCCATTTGGAGAGAACTGTTTTTACAAGCATGCAACCCCTGAG
GGCCCAGGAGAGGATCCTCAGAGGCAGGGTGCTGAGGCATCCGGTGCTCACTGCAGTCAACTTTTGGAGCCTACTCAGGT
GGGAGAGGGCGAGATGCCCTTTAAAAGCAGTAAAAAAAAGCTTGTCATGCTTCGGCTGGCCAATCTGTTGTTTAAGTGTT
TTCTTTCACTGGGAAAGAGTGCACTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTCCTCAGAGGACCAGTGGGACTTA
CTTCCTTATGAGCTGGAAAAATATTCCAGTTTGAATCTGTAG

Alignment

ORF - retro_fcat_67 Open Reading Frame is conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 62.75 %
• Parental protein coverage: 67.19 %
• Number of stop codons detected: 0
• Number of frameshifts detected: 0

Retrocopy - Parental Gene Alignment:

Parental  TVADLTAKSSLAASSSLSSVVGPVVEMNTGEADSRNSNFASVGAGS-EDWVNAIEFVPGQPYCGRTAPSC
          T.....AK...AA.S....V.G...E....EA...N...A..G..S.E.W.NAIEFVPGQPY.GR..P..
Retrocopy TLPQEVAKAPSAAPSCSLPVIGLAAERGFFEAERDNAGLAAAGGASVEGWENAIEFVPGQPYRGRMVPFV

Parental  TEAPPQGSVTKEECEKEQTVAETKKQLCPYAAVGECRYGENCVYLHGDSCDMCGLQVLHPTDAAQRSQHI
          ..AP.Q..VT....E.EQ.......QLC..AA.G.C..GE.C.Y.HG..CDMCGLQVLHP.DA.QR..H.
Retrocopy PRAPLQSPVT----EREQIAVGRGQQLCRDAAMGQCFRGESCMYIHGEICDMCGLQVLHPVDAVQRADHT

Parental  KSCIEAHEKDMELSFAVQRSKDMVCGVCMEVVYEKASPSERRFGILSNCSHTYCLKCIRKWRSAKQFESK
          K.CIEAHEKDMELSFAVQRS.D.VCG.CMEVVYEK..PS..RFGILSNC.HTYCLKCIR.WR..KQF...
Retrocopy KACIEAHEKDMELSFAVQRSMDKVCGICMEVVYEKVNPSDCRFGILSNCNHTYCLKCIRRWRTDKQFGNR

Parental  IIKSCPECRITSNFVIPSEYWVEEKEEKQKLIQKYKEAMSNKACRYFDEGRGSCPFGGNCFYKHAYPDGR
          I.KSCP.CR.TSNFVIPSE.WVEE.EEKQKLIQ.YKEAMSNK.CRYF.EGRG.CPFG.NCFYKHA.P.G.
Retrocopy IVKSCPQCRVTSNFVIPSEFWVEEEEEKQKLIQQYKEAMSNKTCRYFAEGRGYCPFGENCFYKHATPEGP

Parental  REEPQRQKVGTSSRYRAQ
          .E.PQRQ....S.....Q
Retrocopy GEDPQRQGAEASGAHCSQ

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	0.69 RPM	75.18 RPM
SRP017611_kidney	0.00 RPM	69.67 RPM
SRP017611_liver	0.00 RPM	31.64 RPM

ChIP-Seq

Felis catus was not studied using ChIP-Seq data.

EST

No EST(s) were mapped for retro_fcat_67 retrocopy.

TSS

Felis catus was not studied using FANTOM5 data.

Lab

retro_fcat_67 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 17 parental genes, and 43 retrocopies.

Species	Parental gene accession	Retrocopies number
Bos taurus	ENSBTAG00000008306	2 retrocopies	retro_btau_401, retro_btau_943,
Canis familiaris	ENSCAFG00000003953	2 retrocopies	retro_cfam_2157, retro_cfam_253,
Choloepus hoffmanni	ENSCHOG00000011015	3 retrocopies	retro_chof_173, retro_chof_2357, retro_chof_89,
Callithrix jacchus	ENSCJAG00000013474	2 retrocopies	retro_cjac_210, retro_cjac_2991,
Cavia porcellus	ENSCPOG00000000948	1 retrocopy	retro_cpor_109,
Dasypus novemcinctus	ENSDNOG00000019564	2 retrocopies	retro_dnov_1011, retro_dnov_388,
Felis catus	ENSFCAG00000024942	1 retrocopy	retro_fcat_67 ,
Homo sapiens	ENSG00000133606	4 retrocopies	retro_hsap_1140, retro_hsap_4197, retro_hsap_4676, retro_hsap_4859,
Gorilla gorilla	ENSGGOG00000023977	4 retrocopies	retro_ggor_119, retro_ggor_2813, retro_ggor_3031, retro_ggor_381,
Microcebus murinus	ENSMICG00000002114	1 retrocopy	retro_mmur_1184,
Macaca mulatta	ENSMMUG00000010420	3 retrocopies	retro_mmul_191, retro_mmul_2597, retro_mmul_76,
Mus musculus	ENSMUSG00000029922	1 retrocopy	retro_mmus_2663,
Nomascus leucogenys	ENSNLEG00000001921	4 retrocopies	retro_nleu_1027, retro_nleu_2167, retro_nleu_33, retro_nleu_939,
Otolemur garnettii	ENSOGAG00000009877	2 retrocopies	retro_ogar_3468, retro_ogar_424,
Pongo abelii	ENSPPYG00000018057	3 retrocopies	retro_pabe_3435, retro_pabe_3776, retro_pabe_947,
Pan troglodytes	ENSPTRG00000019766	5 retrocopies	retro_ptro_2849, retro_ptro_3106, retro_ptro_3234, retro_ptro_75, retro_ptro_776,
Tarsius syrichta	ENSTSYG00000009996	3 retrocopies	retro_tsyr_1256, retro_tsyr_1525, retro_tsyr_508,