RetrogeneDB ID: retro_fcat_102

Retrocopy location

• Organism: Cat (Felis catus)
• Coordinates: B2:143653028..143654174(-)
• Located in intron of: None

Retrocopy information

• Ensembl ID: ENSFCAG00000028611
• Aliases: None
• Status: KNOWN_PROTEIN_CODING

Parental gene information

• Parental gene symbol: None
• Ensembl ID: ENSFCAG00000015735
• Aliases: None
• Description: None

Sequence

>retro_fcat_102
ATGAACTGGTCTGTGGGAGTCCTGCGGGCCGGCCGGAGAGTGGAGGCTGCGAGAGTGAATTTCCTGTGCCCGAGGGGGGC
GCTGTGTCCCCGCCAGCCGGCAGGCATCTCCCTTCCGGTCGCCTGGCCCGTCACCCTCGTGTCCAGGATGGCGACCATCA
AGTGTGAGCTTATCAAGAATTTCACCTCCGAGGAGGCCGTTCATCACAACAAAGTCTCCATTATAGGAACCGGATCGGTT
GGCATGGCCTGTGCTATCAGCATCCTGTTAAAGGGCTTGACCGATGAACTTGCCCTTGTGGATGTTGATGAAGACAAACT
GAAGGGTGAGACCATGGATCTGCAACATGGCAGTCCGTTCGTGAAAATGCCGACTATTGCCTCCAGCAAAGATTACCTTG
TCACTGCAAACTCCAACCTTGTGGTCATCACAGCAGGTGCACGCCAGGAAAAAGGAGAAACGCGGCTTAATTTAGTCCAG
CGCAACGTGGCCATCTTTAAGTTAATGATTTCCAGTATTATCCAGTATAGCCCTCGCTGCAAACTGATTGTTGTTTCCAA
TCCAGTAGATATATTAACTTACGTGGCCTGGAAATTGAGTGGATTTCCCCAAAACCGTGTTATTGGAAGTGGTTGTAATC
TGGACACTGCCCGTTTCCGTTTCTTGATTGGGCAAAAGCTTGGTATTCACTCTGAAAGCTGTCATGGGTGGGTCCTTGGA
GAGCATGGAGATTCCAGTGTCCCTGTGTGGAGTGGAGTGAACATCGCTGGTGTCCCTCTGAAGGATTTGAGTTCAGATAT
AGGAACTGATAAAGATCCCGAGAAGTGGGAAAATGTCCACAAAGATGTAATTGCCAGTGCCTATGAGATTATTAAAATGA
AAGGTTATACTAATTGGGCCATTGGCTTATCTGTGGCTGATTTAACGGAAAGCATTTTGAGGAATCTTAGAAGAGTGCAT
CCAGTTTCCACCATAATTAAGGGTCTGTATGGGATAAACAAAGAAGTATTCCTCAGTGTTCCATGTGTCTTGGGAGAGAA
TGGTATTGCAGACCTTGTAAAGGTGACGCTGACCCCTGAAGAACAGGCCCGTCTGAAGAAGAGTGCAGAAACACTGTGGG
AAATTCAGAAGGAGCTTGAGCTTTAA

Alignment

ORF - retro_fcat_102 Open Reading Frame is conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 72.49 %
• Parental protein coverage: 93.63 %
• Number of stop codons detected: 0
• Number of frameshifts detected: 0

Retrocopy - Parental Gene Alignment:

Parental  PFASKSNMATLKDQLIQNLLKEDHTPQNKITVVGVGAVGMACAISILMKDLADELALVDVMEDKLKGEMM
          P....S.MAT.K..LI.N...E.....NK....G.G.VGMACAISIL.K.L.DELALVDV.EDKLKGE.M
Retrocopy PVTLVSRMATIKCELIKNFTSEEAVHHNKVSIIGTGSVGMACAISILLKGLTDELALVDVDEDKLKGETM

Parental  DLQHGSLFLRTPKIVSGKDYNVTANSKLVIITAGARQQEGESRLNLVQRNVNIFKFIIPNVVKYSPNCKL
          DLQHGS.F...P.I.S.KDY.VTANS.LV.ITAGARQ..GE.RLNLVQRNV.IFK..I.....YSP.CKL
Retrocopy DLQHGSPFVKMPTIASSKDYLVTANSNLVVITAGARQEKGETRLNLVQRNVAIFKLMISSIIQYSPRCKL

Parental  LVVSNPVDILTYVAWKISGFPKNRVIGSGCNLDSARFRYLMGERLGVHALSCHGWVLGEHGDSSVPVWSG
          .VVSNPVDILTYVAWK.SGFP.NRVIGSGCNLD.ARFR.L.G..LG.H..SCHGWVLGEHGDSSVPVWSG
Retrocopy IVVSNPVDILTYVAWKLSGFPQNRVIGSGCNLDTARFRFLIGQKLGIHSESCHGWVLGEHGDSSVPVWSG

Parental  VNVAGVSLKNLHPDLGTDADKEKWKEVHKQVVDSAYEVIKLKGYTSWAIGLSVADLAESIMKNLRRVHPI
          VN.AGV.LK.L..D.GTD.D.EKW..VHK.V..SAYE.IK.KGYT.WAIGLSVADL.ESI..NLRRVHP.
Retrocopy VNIAGVPLKDLSSDIGTDKDPEKWENVHKDVIASAYEIIKMKGYTNWAIGLSVADLTESILRNLRRVHPV

Parental  STMIKGLYGIKDDVFLSVPCILGQNGISDVVKVTLTPEEEARLKKSADTLWGIQKELQ
          ST.IKGLYGI...VFLSVPC.LG.NGI.D.VKVTLTPEE.ARLKKSA.TLW.IQKEL.
Retrocopy STIIKGLYGINKEVFLSVPCVLGENGIADLVKVTLTPEEQARLKKSAETLWEIQKELE

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	0.34 RPM	109.03 RPM
SRP017611_kidney	0.41 RPM	163.24 RPM
SRP017611_liver	0.61 RPM	655.67 RPM

ChIP-Seq

Felis catus was not studied using ChIP-Seq data.

EST

No EST(s) were mapped for retro_fcat_102 retrocopy.

TSS

Felis catus was not studied using FANTOM5 data.

Lab

retro_fcat_102 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 7 parental genes, and 26 retrocopies.

Species	Parental gene accession	Retrocopies number
Canis familiaris	ENSCAFG00000009211	8 retrocopies	retro_cfam_1061, retro_cfam_1149, retro_cfam_1182, retro_cfam_1317, retro_cfam_1617, retro_cfam_1946, retro_cfam_2006, retro_cfam_309,
Dipodomys ordii	ENSDORG00000003524	2 retrocopies	retro_dord_439, retro_dord_449,
Felis catus	ENSFCAG00000012639	1 retrocopy	retro_fcat_462,
Felis catus	ENSFCAG00000015735	4 retrocopies	retro_fcat_102 , retro_fcat_1839, retro_fcat_1919, retro_fcat_295,
Myotis lucifugus	ENSMLUG00000016343	4 retrocopies	retro_mluc_1716, retro_mluc_2031, retro_mluc_2440, retro_mluc_365,
Ictidomys tridecemlineatus	ENSSTOG00000000014	3 retrocopies	retro_itri_1396, retro_itri_1526, retro_itri_535,
Tarsius syrichta	ENSTSYG00000008062	4 retrocopies	retro_tsyr_1811, retro_tsyr_2064, retro_tsyr_2071, retro_tsyr_731,