RetrogeneDB ID: retro_fcat_99

Retrocopy location

• Organism: Cat (Felis catus)
• Coordinates: A1:225046410..225047472(-)
• Located in intron of: None

Retrocopy information

• Ensembl ID: ENSFCAG00000027514
• Aliases: None
• Status: KNOWN_PROTEIN_CODING

Parental gene information

• Parental gene symbol: None
• Ensembl ID: ENSFCAG00000011173
• Aliases: None
• Description: None

Sequence

>retro_fcat_99
ATGCACCCCGCAGCTTTCCTGCTTCCCGTGCTTGGAGCCACCGTGCTGTGGGGAGCGGCCCCCATCCGGGGGCTCATTCG
AGCCACTTCAGACCGCAATAACAGCATGGACTTTGCAGACCTGCCAGCTCTCTTTGGGGCTGCCTTGAGCCACGAGGGAC
TTCACGGGTTACTTGTGGAGGCCCAGCCCGCCAATGCCTGCGGCCCCATTGCCCCGCCACCCCCGGTCGCGGCCAACGGA
TCGGTCTTCGTTGCACTTCTCCGAAGATACGACTGCAACTTCGACCTCAAGGTCCTGAACGTTCAGAAGGCTGGGTATGG
GGCCGCTGTGGTACACAATGTAAATTCCAATGAACTTCTGACTATGGTGTGGAGCAGCGAGGAGGTCCAGCAGCAGATCT
GGATCCCGTCTGTGTTTGTTGGGGAAAGGAGCTCCAGGTACCTGCGTGCTCTGTACGTCTATGAGAAGGGAGCGCAAGTG
CTCCTGGTCCCGGACAATAACTTCCTCCTGGGCTATTACCTCATCCCTTTCACAGGGGTGGTGGGACTGCTGATTTTGGC
CGTGGCAGCAGGGCTGATAGTTCGTTTCATCCAGCACCAGAAACATCTCCAGCGGAATCGACTGACCAAAGAGCAACTGG
AGCGGATTCCTACACACGACTATCAGAGGGGAGACCGGTATGAGGTCTGTGCCATCTGCCTGGACGAGTACGAGGACGGA
GACAAGCTGAGGGTCCTTCCCTGTGCCCATGCTTATCACAGCCGCTGTGTGGACCCCTGGCTCACCCAGACCCGGAAGAC
CTGCCCTGTCTGCAAGCAGCCTGTTCATAGCGGCCCTGGAGACGAGGAACAGGAGGGAGAAACTTTGGGGCAAGAAGGTG
ATGAGGAAGGGGAGCCAAGGGACCAGCCCGCCACAGAACGGACCCCGCTTTTGGGCTCCAGCCTCACTCTTCCCACATCC
TTTGGCTCCTTAGCCCCAGCCCCCTTTGTTTTTCTTGGGTCTTCAATAGATCCATTGCCTTCCCCATCCTCCTCTCCCTC
TTCTGCGGCCATCCTGGTCTGA

Alignment

ORF - retro_fcat_99 Open Reading Frame is conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 80.11 %
• Parental protein coverage: 99.71 %
• Number of stop codons detected: 0
• Number of frameshifts detected: 0

Retrocopy - Parental Gene Alignment:

Parental  HTARGRLPVVVAAVLWGATPTRGLIRATSDHNASMDFADLPALFGAALSQEGLQGFLVEAHPANACSPIA
          H.A...LPV..A.VLWGA.P.RGLIRATSD.N.SMDFADLPALFGAALS.EGL.G.LVEA.PANAC.PIA
Retrocopy HPAAFLLPVLGATVLWGAAPIRGLIRATSDRNNSMDFADLPALFGAALSHEGLHGLLVEAQPANACGPIA

Parental  PPPPAPVNGSVFIALLRRFDCNFDLKVLNAQKAGYGAAVVHNVNSNELLNMVWNSEEIQQQIWIPSVFIG
          PPPP...NGSVF.ALLRR.DCNFDLKVLN.QKAGYGAAVVHNVNSNELL.MVW.SEE.QQQIWIPSVF.G
Retrocopy PPPPVAANGSVFVALLRRYDCNFDLKVLNVQKAGYGAAVVHNVNSNELLTMVWSSEEVQQQIWIPSVFVG

Parental  ERSSEYLRTLFVYEKGARVLLVPDNSFPLGYYLIPFTGIVGLLVLAMGAVMIVRCVQHRKRLQRNRLTKE
          ERSS.YLR.L.VYEKGA.VLLVPDN.F.LGYYLIPFTG.VGLL.LA..A..IVR..QH.K.LQRNRLTKE
Retrocopy ERSSRYLRALYVYEKGAQVLLVPDNNFLLGYYLIPFTGVVGLLILAVAAGLIVRFIQHQKHLQRNRLTKE

Parental  QLKQIPTHDYQKGDQYDVCAICLDEYEDGDRLRVLPCAHAYHSRCVDPWLTQTRKTCPICKQPVHRGPGD
          QL..IPTHDYQ.GD.Y.VCAICLDEYEDGD.LRVLPCAHAYHSRCVDPWLTQTRKTCP.CKQPVH.GPGD
Retrocopy QLERIPTHDYQRGDRYEVCAICLDEYEDGDKLRVLPCAHAYHSRCVDPWLTQTRKTCPVCKQPVHSGPGD

Parental  EEQEDETQGPEGDEEGEPGDQPVSERTPLLGSSPTPPTSFGSLAPTPLAFPGSPADPPPAPSSS---AAV
          EEQE.ET.G.EGDEEGEP.DQP..ERTPLLGSS.T.PTSFGSLAP.P..F.GS..DP.P.PSSS...AA.
Retrocopy EEQEGETLGQEGDEEGEPRDQPATERTPLLGSSLTLPTSFGSLAPAPFVFLGSSIDPLPSPSSSPSSAAI

Parental  LV
          LV
Retrocopy LV

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	25.02 RPM
SRP017611_kidney	0.00 RPM	35.76 RPM
SRP017611_liver	0.00 RPM	18.50 RPM

ChIP-Seq

Felis catus was not studied using ChIP-Seq data.

EST

No EST(s) were mapped for retro_fcat_99 retrocopy.

TSS

Felis catus was not studied using FANTOM5 data.

Lab

retro_fcat_99 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 11 parental genes, and 13 retrocopies.

Species	Parental gene accession	Retrocopies number
Ailuropoda melanoleuca	ENSAMEG00000006392	1 retrocopy	retro_amel_43,
Bos taurus	ENSBTAG00000004913	1 retrocopy	retro_btau_217,
Canis familiaris	ENSCAFG00000015830	2 retrocopies	retro_cfam_1053, retro_cfam_84,
Dipodomys ordii	ENSDORG00000011757	2 retrocopies	retro_dord_277, retro_dord_432,
Equus caballus	ENSECAG00000021567	1 retrocopy	retro_ecab_583,
Felis catus	ENSFCAG00000011173	1 retrocopy	retro_fcat_99 ,
Mustela putorius furo	ENSMPUG00000010940	1 retrocopy	retro_mputfur_95,
Pteropus vampyrus	ENSPVAG00000003781	1 retrocopy	retro_pvam_1206,
Sorex araneus	ENSSARG00000011216	1 retrocopy	retro_sara_517,
Sus scrofa	ENSSSCG00000017906	1 retrocopy	retro_sscr_518,
Tursiops truncatus	ENSTTRG00000001298	1 retrocopy	retro_ttru_1062,