RetrogeneDB ID: retro_fcat_14

Retrocopy location

• Organism: Cat (Felis catus)
• Coordinates: X:22906560..22908345(+)
• Located in intron of: None

Retrocopy information

• Ensembl ID: ENSFCAG00000025158
• Aliases: None
• Status: KNOWN_PROTEIN_CODING

Parental gene information

• Parental gene symbol: None
• Ensembl ID: ENSFCAG00000003925
• Aliases: None
• Description: None

Sequence

>retro_fcat_14
ATGTCTGATAACGGGGGCTGCACAGATGGCCTGCAAGACTCAGAGAGAGGCCTGCTCAATAGCCCTGAGGAGCGGTCTGA
GGTAGACGCCAGTGGGGAGACATCTTCCGACCCTGCGCTGAGCTTGAATGTGACCGGAGATGGTGGCGTCACCAGCCCAG
AAAGTCAAGGCACTGGTGCAGAAAGCTCAAGTGAAGATATCAACCTGGAAAGCACGGTAGATTCCGACCGATTCTTCATC
TGTGAGGAAAACCTACTCCAGTCGGACCCAGAAGAGGGTTCGCTAGGAGAGGACGAACACGAGGACCAGGGAGAGGAAGA
AGCGGCGGGAGAACGGCCCCAGGTACTGTGCCCTGAAGCTCACCCTGATCGGTGTTTATCCGCTGAGGATCGGGCCCTGG
AGGACTGGGTGTCCTCCGAAACCTCTGCCTTGCCCCGCCCTCGCTGGCAAGTCCTTTCTGCTCTCCGCCAGCGGCAGCTG
GGTTCCAGTGCCCGCTTTGTATATGAGGCCTGTGGGGCAAGGGCCTTTGTGCAGCGTTTCCACCTGTTCTCTCAGCTTCA
AGGCCATAATGGTTGTGTCAATACGGTGCACTTTAACCAGCGTGGCACCTGGCTGGCCAGTAGCGGCGATGATCTGAGAG
TGATAGTGTGGGATTGGGTGCGTGAGCAGCCAGTGCTCGGGTTTGCGAGTGGCCACAAAAATAATGTCTTTCAAGCCAAG
TTCCTACCCAATTGTGGTGATTCCACCCTGGCCATGTGTGGCCGTGATGGGCAGATACGCATAGCGGAGCTATCTGCCAT
ACCACACTGCAAGAATACTAAGCGTGTGGCCCAGCACAGGGGAGCCTCCCACAAGTTGGCCCTGGTGCCAGACTCCCCTT
TTGAGTTCCTGAGTTCAGGCGAAGATGCAGTTGTTTTTGCCATTGACCTCAGACAAGACCGCCCGGCTTCCAGAGTGGTG
GTAACCAAGGAGAGGGAGAAGAGAGTGGGGCTGTATACAATACACGTGAATCCTGCCAATACTTACCAGTTTGCAGTGGG
TGGAAGAGATCAGTTTGTAAGAATTTATGACCAGAGGAAAATTGACAACAACGAGAACAATGGAGTACTCAAGAAATTCT
GTCCTCATCACCTAGTCAGCTGTGATTGCAAAGTAAGCATCACCTGCCTGGTGTACAGCCACGATGGCACAGAGCTCCTG
GCCAGTTATAATGATGAAGATATTTATCTCTTCAACTCCTCGGAAGGAGACGGAGCCCAGTATGTTAAGAGATACAAGGG
GCACAGAAATAATGCCACAATCAAAGGTGTCAATTTCTATGGCCCCAGAAGTGAGTTTGTGGTGAGCGGCAGTGATTGCG
GCCACATCTTCCTCTGGGAGAAATCATCCTGCCAGATTGTTCAGTTCATGGAAGGGGACAGGGGAGGCACCATAAACTGT
CTTCAGCCCCATCCTTACCTACCTGTGATGGCGACCAGTGGCCTAGATCATGATGCCAAGATCTGGGCACCCACAGCTAA
AGCTACCAATGACCTGGTCGGCCTAAAGTATACGATGAAGAGGAACAAGCAAGAGCGAGACGAAGATCGCCTGCACCACA
CTGACCTGTTTGATAGCCACATGCTTTGGTTCCTGATGCGTCACCTGACACAGAGAGGTCTTCACCAGCACTGGGGAGCT
CCTGGAGCTGAAGTCATGGATGCAGAGTCGGATACGTCTTCCAGTAGCTCCAATTCATCTGAGGAGGAAGAGAACCAAGA
CCATGTGCAGTGCCTGCCGTCCTGA

Alignment

ORF - retro_fcat_14 Open Reading Frame is conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 70.03 %
• Parental protein coverage: 95.64 %
• Number of stop codons detected: 0
• Number of frameshifts detected: 0

Retrocopy - Parental Gene Alignment:

Parental  SGAEEGRETSSGIEVEASDLSLSLTGDDG--GPNRASTGSRGTDTESSGEDK-DSDSMEDTGHYSINDEN
          S..E......SG.......LSL..TGD.G...P....TG..........E...DSD..............
Retrocopy SPEERSEVDASGETSSDPALSLNVTGDGGVTSPESQGTGAESSSEDINLESTVDSDRFFICEENLLQSDP

Parental  QVHDRSEEEEEEEEEEEEAHPRRRVQRKRANRDQDSSDDERALEDWVSSETSALPRPRWQALPALREREL
          ......E.E.E...EEE.A..R..V....A..D...S...RALEDWVSSETSALPRPRWQ.L.ALR.R.L
Retrocopy EEGSLGEDEHEDQGEEEAAGERPQVLCPEAHPDRCLSAEDRALEDWVSSETSALPRPRWQVLSALRQRQL

Parental  GSSARFVYEACGARVFVQRFRLQHGLEGHTGCVNTLHFNQRGTWLASGSDDLKVVVWDWVRRQPVLDFES
          GSSARFVYEACGAR.FVQRF.L...L.GH.GCVNT.HFNQRGTWLAS..DDL.V.VWDWVR.QPVL.F.S
Retrocopy GSSARFVYEACGARAFVQRFHLFSQLQGHNGCVNTVHFNQRGTWLASSGDDLRVIVWDWVREQPVLGFAS

Parental  GHKSNVFQAKFLPNSGDSTLAMCARDGQVRVAELSATQCCKNTKRVAQHKGASHKLALEPDSPCTFLSAG
          GHK.NVFQAKFLPN.GDSTLAMC.RDGQ.R.AELSA...CKNTKRVAQH.GASHKLAL.PDSP..FLS.G
Retrocopy GHKNNVFQAKFLPNCGDSTLAMCGRDGQIRIAELSAIPHCKNTKRVAQHRGASHKLALVPDSPFEFLSSG

Parental  EDAVVFTIDLRQDRPASKLVVTKEKEKKVGLYTIYVNPANTHQFAVGGRDQFVRIYDQRKIDENENNGVL
          EDAVVF.IDLRQDRPAS..VVTKE.EK.VGLYTI.VNPANT.QFAVGGRDQFVRIYDQRKID.NENNGVL
Retrocopy EDAVVFAIDLRQDRPASRVVVTKEREKRVGLYTIHVNPANTYQFAVGGRDQFVRIYDQRKIDNNENNGVL

Parental  KKFCPHHLVNSESKANITCLVFSHDGTELLASYNDEDIYLFNSSHSDGAQYVKRYKGHRNNATVKGVNFY
          KKFCPHHLV....K..ITCLV.SHDGTELLASYNDEDIYLFNSS..DGAQYVKRYKGHRNNAT.KGVNFY
Retrocopy KKFCPHHLVSCDCKVSITCLVYSHDGTELLASYNDEDIYLFNSSEGDGAQYVKRYKGHRNNATIKGVNFY

Parental  GPKSEFVVSGSDCGHIFLWEKSSCQIVQFMEGDKGGVVNCLEPHPHLPVLATSGLDHDVKIWAPTAETST
          GP.SEFVVSGSDCGHIFLWEKSSCQIVQFMEGD.GG..NCL.PHP.LPV.ATSGLDHD.KIWAPTA....
Retrocopy GPRSEFVVSGSDCGHIFLWEKSSCQIVQFMEGDRGGTINCLQPHPYLPVMATSGLDHDAKIWAPTAKATN

Parental  ELTGLKDVIKKNKRERDEDSLHHTDLFDSHMLWFLMHHLRQRRHHRRWREPGVGATDADSDESPSSSDTS
          .L.GLK...K.NK.ERDED.LHHTDLFDSHMLWFLM.HL.QR..H..W..PG....DA.SD.S.SSS..S
Retrocopy DLVGLKYTMKRNKQERDEDRLHHTDLFDSHMLWFLMRHLTQRGLHQHWGAPGAEVMDAESDTSSSSSNSS

Parental  DEEEGPDRVQCMPS
          .EEE..D.VQC.PS
Retrocopy EEEENQDHVQCLPS

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	79.65 RPM
SRP017611_kidney	0.00 RPM	66.78 RPM
SRP017611_liver	0.00 RPM	40.84 RPM

ChIP-Seq

Felis catus was not studied using ChIP-Seq data.

EST

No EST(s) were mapped for retro_fcat_14 retrocopy.

TSS

Felis catus was not studied using FANTOM5 data.

Lab

retro_fcat_14 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 12 parental genes, and 12 retrocopies.

Species	Parental gene accession	Retrocopies number
Ailuropoda melanoleuca	ENSAMEG00000014293	1 retrocopy	retro_amel_47,
Bos taurus	ENSBTAG00000005796	1 retrocopy	retro_btau_1853,
Canis familiaris	ENSCAFG00000031010	1 retrocopy	retro_cfam_223,
Callithrix jacchus	ENSCJAG00000005913	1 retrocopy	retro_cjac_1322,
Echinops telfairi	ENSETEG00000012876	1 retrocopy	retro_etel_654,
Felis catus	ENSFCAG00000003925	1 retrocopy	retro_fcat_14 ,
Mustela putorius furo	ENSMPUG00000013949	1 retrocopy	retro_mputfur_173,
Mus musculus	ENSMUSG00000026554	1 retrocopy	retro_mmus_111,
Otolemur garnettii	ENSOGAG00000011349	1 retrocopy	retro_ogar_2113,
Pteropus vampyrus	ENSPVAG00000007982	1 retrocopy	retro_pvam_1356,
Sus scrofa	ENSSSCG00000006388	1 retrocopy	retro_sscr_88,
Tupaia belangeri	ENSTBEG00000001566	1 retrocopy	retro_tbel_3644,