RetrogeneDB ID: retro_fcat_25

Retrocopy location

• Organism: Cat (Felis catus)
• Coordinates: D4:20064163..20064484(-)
• Located in intron of: None

Retrocopy information

• Ensembl ID: ENSFCAG00000031069
• Aliases: None
• Status: KNOWN_PROTEIN_CODING

Parental gene information

• Parental gene symbol: None
• Ensembl ID: ENSFCAG00000015397
• Aliases: None
• Description: None

Sequence

>retro_fcat_25
ATGGTGACCGTTCCTAAAACCCGCCAGACTTTCTGCAAGAAGTGTGGCAAACACCAACCCCACAAAGCGACACAGTACAA
GAAAGGCAAAGATTCTCTTTATGTCCAGGGAAAGCGGCATTATGACAGGAAGCAGAGTGGCTCTGGTAGGCAAACTAAGC
CAATTTTCTGGAAAAAGGCTAAAACCACAAAGAAGATTGTGCTGAGGCCTGAAAGTGTTGAGCCCAACTGCAGATCTAAG
AGAATGCTGGCTATTAAGAGACGCAAGCATTCTGAACTGGGAGGAGATAAGAAGAGAAACAGCCAAGTGATCCAGTTCTA
A

Alignment

ORF - retro_fcat_25 Open Reading Frame is conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 86.79 %
• Parental protein coverage: 86.89 %
• Number of stop codons detected: 0
• Number of frameshifts detected: 0

Retrocopy - Parental Gene Alignment:

Parental  MVNVPKTRRTFCKKCGKHQPHKVTQYKKGKDSLYAQGKRRYDRKQSGYGGQTKPIFRKKAKTTKKIVLRL
          MV.VPKTR.TFCKKCGKHQPHK.TQYKKGKDSLY.QGKR.YDRKQSG.G.QTKPIF.KKAKTTKKIVLR.
Retrocopy MVTVPKTRQTFCKKCGKHQPHKATQYKKGKDSLYVQGKRHYDRKQSGSGRQTKPIFWKKAKTTKKIVLRP

Parental  ECVEPNCRSKRMLAIKRCKHFELGGDKKRKGQVIQF
          E.VEPNCRSKRMLAIKR.KH.ELGGDKKR..QVIQF
Retrocopy ESVEPNCRSKRMLAIKRRKHSELGGDKKRNSQVIQF

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	64.73 RPM
SRP017611_kidney	0.00 RPM	367.61 RPM
SRP017611_liver	0.00 RPM	146.68 RPM

ChIP-Seq

Felis catus was not studied using ChIP-Seq data.

EST

No EST(s) were mapped for retro_fcat_25 retrocopy.

TSS

Felis catus was not studied using FANTOM5 data.

Lab

retro_fcat_25 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 11 parental genes, and 52 retrocopies.

Species	Parental gene accession	Retrocopies number
Anolis carolinensis	ENSACAG00000008503	1 retrocopy	retro_acar_98,
Dasypus novemcinctus	ENSDNOG00000015954	23 retrocopies	retro_dnov_1206, retro_dnov_1266, retro_dnov_1320, retro_dnov_1328, retro_dnov_1330, retro_dnov_1392, retro_dnov_1427, retro_dnov_1525, retro_dnov_1799, retro_dnov_1898, retro_dnov_227, retro_dnov_2302, retro_dnov_233, retro_dnov_2371, retro_dnov_243, retro_dnov_2488, retro_dnov_2503, retro_dnov_2587, retro_dnov_310, retro_dnov_596, retro_dnov_699, retro_dnov_871, retro_dnov_936,
Equus caballus	ENSECAG00000015464	9 retrocopies	retro_ecab_129, retro_ecab_131, retro_ecab_204, retro_ecab_219, retro_ecab_265, retro_ecab_268, retro_ecab_294, retro_ecab_543, retro_ecab_646,
Felis catus	ENSFCAG00000015397	3 retrocopies	retro_fcat_106, retro_fcat_25 , retro_fcat_80,
Gorilla gorilla	ENSGGOG00000009460	6 retrocopies	retro_ggor_13, retro_ggor_152, retro_ggor_207, retro_ggor_208, retro_ggor_42, retro_ggor_5,
Monodelphis domestica	ENSMODG00000025578	2 retrocopies	retro_mdom_1878, retro_mdom_971,
Pteropus vampyrus	ENSPVAG00000001569	1 retrocopy	retro_pvam_17,
Rattus norvegicus	ENSRNOG00000011494	1 retrocopy	retro_rnor_259,
Sorex araneus	ENSSARG00000014178	4 retrocopies	retro_sara_146, retro_sara_488, retro_sara_617, retro_sara_76,
Sarcophilus harrisii	ENSSHAG00000013479	1 retrocopy	retro_shar_467,
Tursiops truncatus	ENSTTRG00000012779	1 retrocopy	retro_ttru_5,