RetrogeneDB ID: retro_fcat_1573

Retrocopy location

• Organism: Cat (Felis catus)
• Coordinates: D4:7459043..7459715(+)
• Located in intron of: None

Retrocopy information

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

Parental gene information

• Parental gene symbol: DHPS
• Ensembl ID: ENSFCAG00000000465
• Aliases: None
• Description: deoxyhypusine synthase [Source:HGNC Symbol;Acc:2869]

Sequence

>retro_fcat_1573
AAGTGCCTGGTACCACGTACCTGGGTGATTTCAGTCTCAGGGGGAAGGAGCTGCGTGAGGACGGGATCAACAGGATTGGA
AACCTCCTGGTGCCCAGTGACAGTTGCTGCAAGTTTGAGGGCTGGTTGATGCCCATAATGGACTGGATGGTGCTGGAGCG
GAACACGGAGGGCGTGAAGTGGACACCTCCCAAGATGATCGCCGGGCTGGGCGAGGAGATCAACAACACAGAATCAGTAT
ATTACTGGGCTCAGAAGAACCACATGCCCGTGCGGAGCCCAGTGCTCACAGATGGCTCCCTGGGCAACGTGATCTTTTTT
GATTCCCACAAGAACCCAAGCTGGTCCTGGACATTATTGAGGACGTGAGGCTCAGGAATACACAGGCCATTTTGCCAGGC
ACACTCAGATGATCATCCTGGGTGGGGGTGTGGTCAAGCACCACACCGCCAACGCCAGCCTCATGGGGAATGGGGCCGAC
TAAGCTGTCGACATCCACATGGCCCAGGAATTTGATGAATCTGACTCTGGTGCCGGGCTGGACGAAGCTGTCTCCTGGGG
CAAGATCCGCGTGGAGGCACAGCCTGTCAAGGTCTGTGTGCCTATGCCTCCCCTGGTCTTCCCCCTGCTTGTAGCTGGAA
CCTTTGTCCAAAAGAGACAGATGCCTTCACCC

Alignment

ORF - retro_fcat_1573 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 75.88 %
• Parental protein coverage: 60.7 %
• Number of stop codons detected: 1
• Number of frameshifts detected: 3

Retrocopy - Parental Gene Alignment:

Parental  KCLAP-TYLGDFSLRGKELRENGINRIGNLLVPNDNYCKFEDWLMPILDQMVLEQNTEGVKWTPSKMIAR
          KCL.P.TYLGDFSLRGKELRE.GINRIGNLLVP.D..CKFE.WLMPI.D.MVLE.NTEGVKWTP.KMIA.
Retrocopy KCLVP<TYLGDFSLRGKELREDGINRIGNLLVPSDSCCKFEGWLMPIMDWMVLERNTEGVKWTPPKMIAG

Parental  LGKEINNPESVYYWAQKNHIPVLSPALTDGSLGDMIFFHSYKKPG-LVLDIVEDLRLINTQAI-FAKRTG
          LG.EINN.ESVYYWAQKNH.PV.SP.LTDGSLG..IFF.S.K.P..LVLDI.ED.RL.NTQAI.FA..T.
Retrocopy LGEEINNTESVYYWAQKNHMPVRSPVLTDGSLGNVIFFDSHKNPS<LVLDIIEDVRLRNTQAI<FARHTQ

Parental  MIILGGGVVKHHIANANLMRNGADYAVYINTAQEFDGSDSGARPDEAVSWGKIRVDAQPVKVYAD-ASLV
          MIILGGGVVKHH.ANA.LM.NGAD.AV.I..AQEFD.SDSGA..DEAVSWGKIRV.AQPVKV......LV
Retrocopy MIILGGGVVKHHTANASLMGNGAD*AVDIHMAQEFDESDSGAGLDEAVSWGKIRVEAQPVKVCVPMPPLV

Parental  FPLLVAETFAQKSDAFTP
          FPLLVA.TF.QK.....P
Retrocopy FPLLVAGTFVQKRQMPSP

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	10.10 RPM
SRP017611_kidney	0.00 RPM	6.60 RPM
SRP017611_liver	0.00 RPM	2.93 RPM

ChIP-Seq

Felis catus was not studied using ChIP-Seq data.

EST

No EST(s) were mapped for retro_fcat_1573 retrocopy.

TSS

Felis catus was not studied using FANTOM5 data.

Lab

retro_fcat_1573 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 3 parental genes, and 4 retrocopies.

Species	Parental gene accession	Retrocopies number
Felis catus	ENSFCAG00000000465	1 retrocopy	retro_fcat_1573 ,
Monodelphis domestica	ENSMODG00000006807	2 retrocopies	retro_mdom_731, retro_mdom_753,
Sarcophilus harrisii	ENSSHAG00000015920	1 retrocopy	retro_shar_774,