RetrogeneDB ID: retro_fcat_1471

Retrocopy location

• Organism: Cat (Felis catus)
• Coordinates: D2:14687714..14688580(+)
• Located in intron of: None

Retrocopy information

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

Parental gene information

• Parental gene symbol: NOSIP
• Ensembl ID: ENSFCAG00000010497
• Aliases: None
• Description: nitric oxide synthase interacting protein [Source:HGNC Symbol;Acc:17946]

Sequence

>retro_fcat_1471
TATGGCAAGAACTGCAGGGTGGGGACTGCCTGCCCCTACAGTGAGAAAAAAGCCACAGGCTGCAGGACCCAGAACATTCC
AGCAAGCCCTCAAGATGTGGAGGGCTGCCACCTGTGTGCGCGGGCCCCACCACGACCGCTCGTCACCCCCAGATGGCTAC
CTGCGTGAGCGCGAGGCAATCCTGGCGTACACTTCGCACCAGAAGGAGACCACGGCGAAGATGAGGATCCAGGAGCAGCC
GGGGGCTGGGCGTGAGGTGCAGAAACAGCCGCGGCGGCCATGGCGCAGGGGCAAGTGCACGGCTTCCCAGAAGAGGACGC
GGCCATCGTGCACACTGAGCTGGTGCTCAACCTTTCATGCCCAAGGCCGCCTGGGGAACAGGCCCAGAAGACGCCTGAGC
CGGGCCACTGCAGGTCCCGCAGGACAAAGACAAAGCACTGCCCAGCTTCCGGATCCCGTCGCTGACCCCCCAAGCCAAGA
CCGCCAAGCTCGGAAGCCGACGAGCACCGCCACTGTCCCTACGGCGGAGACGTCACGGCGCATGTCAGACCTCACGGCGC
ATGCGCCCCACGCCGTTCGTCGCCTTCATGGATCGCGTGAGGCTCCTCAAGCTCAGCCCGCGCCACGTGTGTGCCGTGAC
CCGCGACAGCTTGGGAGGTGCCGTGCCTCACGCCGTTGCTCTGGCCTTCTGCGGTCGTGGTCACCCTGGAGCGCAGGATG
AAGCTGATGGCGGAGGACGTGGTGGACCCGGTGAACCGGGAGAAGCTCCTGGATCAGGACACCGGCATGCTGCAGCGGGT
GGCACGGGCTTCACGGGCTCGGGAGTATCGGCGCAGGTAGAGAAACCCAGGCTGGTGATGCAGGCC

Alignment

ORF - retro_fcat_1471 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 52.77 %
• Parental protein coverage: 99. %
• Number of stop codons detected: 1
• Number of frameshifts detected: 7

Retrocopy - Parental Gene Alignment:

Parental  HGKNCTAGAVYTYHEKKKDTAASGYGTQNIRLSRDAVKDFDCCCLSLQ-PCHDPVVTPDGYLYEREAILE
          .GKNC..G....Y.EKK....A.G..TQNI..S.....D...C.L....P.HD....PDGYL.EREAIL.
Retrocopy YGKNCRVGTACPYSEKK----ATGCRTQNIPASP---QDVEGCHLCAR>PHHDRSSPPDGYLREREAILA

Parental  YILHQKKEIARQMKAYEKQRGARREEQKELQR-AAAQDQVRGFLEKEAAIVSRP--LNPFTPKAAPE-TG
          Y..HQK...A........Q.GA.RE.QK...R.A.AQ.QV.GF.E..AAIV.....LN...P....E.TG
Retrocopy YTSHQKETTAKM--RIQEQPGAGREVQKQPRR<AMAQGQVHGFPEEDAAIVHTELVLNLSCPRPPGE<TG

Parental  PDDARPGASAGPTGKDKDKALPSFWIPSLTPEAKATKL-EKPSRTVTCPMSGKPLRMSDLTP-VRFTPLD
          P.DA..G....P..KD..KALPSF.IPSLTP.AK..KL..KP..T.T.P......RMSDLT...R.TP..
Retrocopy PEDA*AGPLQVPQDKD--KALPSFRIPSLTPQAKTAKL<RKPTSTATVPTAETSRRMSDLTA>MRPTPFV

Parental  SSVDRVGLITRSERYVCAVTRDSLSNATPCAV-LRPSGAVVTLECVEKLIRKDMVDPVNGEKLTDQDIIV
          ...DRV.L...S.R.VCAVTRDSL..A.P.AV.L.PS..VVTLE...KL...D.VDPVN.EKL.DQD...
Retrocopy AFMDRVRLLKLSPRHVCAVTRDSLGGAVPHAV>LWPSAVVVTLERRMKLMAEDVVDPVNREKLLDQDTGM

Parental  LQR-GGTGFAGSGVKLQAEKSRPVMQA
          LQR.GGTGF.GSGV..Q.EK.R.VMQA
Retrocopy LQR<GGTGFTGSGVSAQVEKPRLVMQA

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	6.20 RPM
SRP017611_kidney	0.00 RPM	11.54 RPM
SRP017611_liver	0.00 RPM	4.45 RPM

ChIP-Seq

Felis catus was not studied using ChIP-Seq data.

EST

No EST(s) were mapped for retro_fcat_1471 retrocopy.

TSS

Felis catus was not studied using FANTOM5 data.

Lab

retro_fcat_1471 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 4 parental genes, and 5 retrocopies.

Species	Parental gene accession	Retrocopies number
Felis catus	ENSFCAG00000010497	2 retrocopies	retro_fcat_1424, retro_fcat_1471 ,
Macropus eugenii	ENSMEUG00000010446	1 retrocopy	retro_meug_837,
Myotis lucifugus	ENSMLUG00000017657	1 retrocopy	retro_mluc_2232,
Procavia capensis	ENSPCAG00000016030	1 retrocopy	retro_pcap_340,