RetrogeneDB ID: retro_fcat_760

Retrocopy location

• Organism: Cat (Felis catus)
• Coordinates: B2:67239289..67240183(-)
• Located in intron of: None

Retrocopy information

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

Parental gene information

• Parental gene symbol: AMZ2
• Ensembl ID: ENSFCAG00000019195
• Aliases: None
• Description: archaelysin family metallopeptidase 2 [Source:HGNC Symbol;Acc:28041]

Sequence

>retro_fcat_760
ATACAAACAGTAAGGCACTCTGAACAGACACAAAAAACAACTCTCATCTCAAAAAACCCAACACTTGTGTCACAGTATTA
GAAATTAGATCCTGGCAAATGGCGTTTGCTGAATGAAACCTTCAAGCCAGACAATGATCTCTTTGGACCTATTACCTTGC
ATTTGCAATCAGACTGGATCATCTCTCATTTGAGGCTCCCCAAGACTTCAAGCAATTTTTCAGTGCTCCTTTCAGAAAGG
CACTCTCTCTAGAGAAATGCAGTATTTATATACAGTGCATTGGATCTCTAGGAAACACCAGAATTATCAGTGAAGAATAT
ATTAAATGGCTCAAGGGCTACTGTGAAGCATCCTTCCATGGCTTGACAGTAAAACTCCTAGAACCAGTTCCTGTCTCTGT
AAGGAGGAGCTCTTTTAGAGTCAATGATAACACACAGAACCTACAAATTCATGCAGGGCACATCCCAAAGTTCTTAAAAA
AGAAAAAACCTGGAGACGTCTTCTGTAATGTGGGAATAACAATGATTGATCTTTACCCAAGAGATTCCTGGAATTTTGCC
TTTGGGCAGGCCTCTTTGACAGATGGTATGGGGATATTCAGCTTTGCCAGGTATGGCAGTGATTTTTATAACTCATGCTA
TGAAGACAAAGTGAACAAGCCACAGAAAATATCTTCAAGTGACTATTTAGTTTTTGATAACAGTTGTACTCCAGAAGTGA
CTAGTGTTTGGCTGCATCAGTCCCGGAAGACTTTCACCCGTGATATTGGACACACATTTGGATTTTGACACTGCCAGTGG
CTCGCATGCTTATTGCAAGGCTGCAACCATTTGGAAGGAGCTGACTGGCACTCCCTCAATCTTTGCCTTTATCTCATTAT
GCAAGTTGCAGTGT

Alignment

ORF - retro_fcat_760 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 76.33 %
• Parental protein coverage: 83.01 %
• Number of stop codons detected: 2
• Number of frameshifts detected: 2

Retrocopy - Parental Gene Alignment:

Parental  METVRHSEHTLKTALISENPRLVSQYEKLDAGERRLLSEAFKPDHDLFGPITLHSQSDWIISHP-EAPQD
          ..TVRHSE.T.KT.LIS.NP.LVSQY.KLD.G..RLL.E.FKPD.DLFGPITLH.QSDWIISH..EAPQD
Retrocopy IQTVRHSEQTQKTTLISKNPTLVSQY*KLDPGKWRLLNETFKPDNDLFGPITLHLQSDWIISHL<EAPQD

Parental  FEQFFSDPYRKAPSPDKRSIYIQCIGSLGNTRIISEEYIKWLKGYCEAFFYGLTVKLLEPVPVSATRCSF
          F.QFFS.P.RKA.S..K.SIYIQCIGSLGNTRIISEEYIKWLKGYCEA.F.GLTVKLLEPVPVS..R.SF
Retrocopy FKQFFSAPFRKALSLEKCSIYIQCIGSLGNTRIISEEYIKWLKGYCEASFHGLTVKLLEPVPVSVRRSSF

Parental  RVNDNTQNLQIHAGHILKFLKKKKPEDAFCIVGITMIDLYPRDSWNFVFGQASLTDGVGIFSFARYGSDF
          RVNDNTQNLQIHAGHI.KF.....P.D.FC.VGITMIDLYPRDSWNF.FGQASLTDG.GIFSFARYGSDF
Retrocopy RVNDNTQNLQIHAGHIPKFXXXXXPGDVFCNVGITMIDLYPRDSWNFAFGQASLTDGMGIFSFARYGSDF

Parental  YSSRYEGRVSKLQKGSSSDYAVFDNYYTPQVTSVLLLRSCKTLTHEIGHIFGLRHCQWLACLMQGSNHLE
          Y.S.YE..V.K.QK.SSSDY.VFDN..TP.VTSV.L..S.KT.T..IGH.FG..HCQWLACL.QG.NHLE
Retrocopy YNSCYEDKVNKPQKISSSDYLVFDNSCTPEVTSVWLHQSRKTFTRDIGHTFGF*HCQWLACLLQGCNHLE

Parental  EADRRPLNLCP-ICLRKLQC
          .AD...LNLC..I.L.KLQC
Retrocopy GADWHSLNLCL>ISLCKLQC

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	35.92 RPM
SRP017611_kidney	1.86 RPM	32.15 RPM
SRP017611_liver	0.00 RPM	10.61 RPM

ChIP-Seq

Felis catus was not studied using ChIP-Seq data.

EST

No EST(s) were mapped for retro_fcat_760 retrocopy.

TSS

Felis catus was not studied using FANTOM5 data.

Lab

retro_fcat_760 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 8 parental genes, and 10 retrocopies.

Species	Parental gene accession	Retrocopies number
Bos taurus	ENSBTAG00000009345	1 retrocopy	retro_btau_429,
Choloepus hoffmanni	ENSCHOG00000000493	1 retrocopy	retro_chof_2462,
Callithrix jacchus	ENSCJAG00000000254	1 retrocopy	retro_cjac_2798,
Cavia porcellus	ENSCPOG00000013061	1 retrocopy	retro_cpor_1226,
Equus caballus	ENSECAG00000011450	2 retrocopies	retro_ecab_440, retro_ecab_864,
Felis catus	ENSFCAG00000019195	1 retrocopy	retro_fcat_760 ,
Myotis lucifugus	ENSMLUG00000006771	2 retrocopies	retro_mluc_1540, retro_mluc_2056,
Mustela putorius furo	ENSMPUG00000014570	1 retrocopy	retro_mputfur_1224,