RetrogeneDB ID: retro_fcat_329

Retrocopy location

• Organism: Cat (Felis catus)
• Coordinates: A2:76551175..76552063(+)
• Located in intron of: None

Retrocopy information

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

Parental gene information

• Parental gene symbol: CDK1
• Ensembl ID: ENSFCAG00000014972
• Aliases: None
• Description: cyclin-dependent kinase 1 [Source:HGNC Symbol;Acc:1722]

Sequence

>retro_fcat_329
ATGGAAGACTATACCAAAATAGAAAAAATTGGAGAAGGTACCTGTGGAGTTGTGTGTAAGGGTAGGCACAAAACTACAGG
TCAAGTGGTGGCCATGAAGAAAATCAGACTAGAAAGTGAAGAGGAAGGGTTTCTAGTACTGCAATTCAGGAAATTTCTCT
ATTAAAAGAACTTTGTCATCCAAATATAGTCCGTCTTCAAGATGTGCTTATGCAAGGTTCCAGCTTATATCTCATCTTTG
AAGTCTCTTCCATGGATGTCAAGAAATACTTAGATTCCATCCCTCCTGGTCGGTTCATGGAATCTTCACTTGTTAAGAGT
TACTTGTACCAAATCCTACAAGGGACTGTGTTTTGCTACTCCAGAAGAGTTCTGCACAGAGACTTAAAATCTCAAAATCT
ATTGATTGATGACAAAGGAACAATTAAACTGGCTGATTTTGGCCTTGCCAGAGCTTTTGGAATACCTGTTAGAATATACC
ACATGAGGTAGTGATGCTCTGGTATAGATCTCCAGAAGTAATGCTGGGTCAGCTCGCTACTCAACTCCAGTTGACATTTG
GAGTTTAGGCACCATGTTTACAGAATTAACAACTAAGAAACCACTTTTCCATGGGGATTCAGAAATTGATTAACTCTTCA
GAATTTTCAGAGCTTTGGCCACCCCCAATAATGAAGTGTGGCCAGAAGTGGAATCTTTATAGGACTATAAGAATACATTT
CCCAAGGGGAAACCAGGAAGTCTCGCATCCCGTGTCAAAAACTTGGATGGAAATGGCTTGGATCTGTTCTCAAAAATGTT
GGTCTATGATCCTGCCAAATGAGTTTCTGGCACAATGGCACTGATACATCCATATTTTAATGATTTGGACAATAAGATTA
AGAAGATG

Alignment

ORF - retro_fcat_329 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 87.0 %
• Parental protein coverage: 100.0 %
• Number of stop codons detected: 3
• Number of frameshifts detected: 3

Retrocopy - Parental Gene Alignment:

Parental  MEDYTKIEKIGEGTYGVVYKGRHKTTGQVVAMKKIRLESEEEG-VPSTAIREISLLKELRHPNIVSLQDV
          MEDYTKIEKIGEGT.GVV.KGRHKTTGQVVAMKKIRLESEEEG.V.STAI.EISLLKEL.HPNIV.LQDV
Retrocopy MEDYTKIEKIGEGTCGVVCKGRHKTTGQVVAMKKIRLESEEEG<VSSTAIQEISLLKELCHPNIVRLQDV

Parental  LMQDSRLYLIFEFLSMDLKKYLDSIPPGQFMESSLVKSYLYQILQGIVFCHSRRVLHRDLKPQNLLIDDK
          LMQ.S.LYLIFE..SMD.KKYLDSIPPG.FMESSLVKSYLYQILQG.VFC.SRRVLHRDLK.QNLLIDDK
Retrocopy LMQGSSLYLIFEVSSMDVKKYLDSIPPGRFMESSLVKSYLYQILQGTVFCYSRRVLHRDLKSQNLLIDDK

Parental  GTIKLADFGLARAFGIPIRVY-THEVVTLWYRSPEVLL-GSARYSTPVDIWSIGTIFAELATKKPLFHGD
          GTIKLADFGLARAFGIP.R.Y..HEVV.LWYRSPEV.L.GSARYSTPVDIWS.GT.F.EL.TKKPLFHGD
Retrocopy GTIKLADFGLARAFGIPVRIY<PHEVVMLWYRSPEVML<GSARYSTPVDIWSLGTMFTELTTKKPLFHGD

Parental  SEIDQLFRIFRALGTPNNEVWPEVESLQDYKNTFPKWKPGSLASHVKNLDENGLDLLSKMLVYDPAKRIS
          SEID.LFRIFRAL.TPNNEVWPEVESL.DYKNTFPK.KPGSLAS.VKNLD.NGLDL.SKMLVYDPAK..S
Retrocopy SEID*LFRIFRALATPNNEVWPEVESL*DYKNTFPKGKPGSLASRVKNLDGNGLDLFSKMLVYDPAK*VS

Parental  GKMALNHPYFNDLDNQIKKM
          G.MAL.HPYFNDLDN.IKKM
Retrocopy GTMALIHPYFNDLDNKIKKM

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	0.57 RPM
SRP017611_kidney	0.00 RPM	0.62 RPM
SRP017611_liver	0.00 RPM	2.63 RPM

ChIP-Seq

Felis catus was not studied using ChIP-Seq data.

EST

No EST(s) were mapped for retro_fcat_329 retrocopy.

TSS

Felis catus was not studied using FANTOM5 data.

Lab

retro_fcat_329 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.

---

Parental genes homology:

Parental genes homology involve 11 parental genes, and 17 retrocopies.

Species	Parental gene accession	Retrocopies number
Callithrix jacchus	ENSCJAG00000007001	2 retrocopies	retro_cjac_1846, retro_cjac_671,
Cavia porcellus	ENSCPOG00000005402	3 retrocopies	retro_cpor_1414, retro_cpor_1422, retro_cpor_200,
Dasypus novemcinctus	ENSDNOG00000018590	1 retrocopy	retro_dnov_265,
Equus caballus	ENSECAG00000009716	1 retrocopy	retro_ecab_637,
Felis catus	ENSFCAG00000014972	1 retrocopy	retro_fcat_329 ,
Felis catus	ENSFCAG00000029663	1 retrocopy	retro_fcat_516,
Microcebus murinus	ENSMICG00000005793	1 retrocopy	retro_mmur_43,
Monodelphis domestica	ENSMODG00000017091	1 retrocopy	retro_mdom_702,
Rattus norvegicus	ENSRNOG00000000632	1 retrocopy	retro_rnor_1638,
Tupaia belangeri	ENSTBEG00000017549	3 retrocopies	retro_tbel_3309, retro_tbel_807, retro_tbel_812,
Tursiops truncatus	ENSTTRG00000001085	2 retrocopies	retro_ttru_1619, retro_ttru_1634,