RetrogeneDB ID: retro_fcat_1823

Retrocopy location

• Organism: Cat (Felis catus)
• Coordinates: F2:54566776..54567352(+)
• Located in intron of: None

Retrocopy information

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

Parental gene information

• Parental gene symbol: BID
• Ensembl ID: ENSFCAG00000011109
• Aliases: None
• Description: BH3 interacting domain death agonist [Source:HGNC Symbol;Acc:1050]

Sequence

>retro_fcat_1823
GTAAGCAATGGGTCAAGCCTCCAGGATGAGTGCATCAAAAAATTTGCTGGTCTTTGGCTTTCTTCAAAACTGCTCCAACT
ATAATTTCCACAAAGAGTTGGAGGCATTGGGCCATGAACTGCCCATGCCAGCTTACCTACAGGAGGACCATGATGATGAG
CTATAGACAAATGGCAACTGGTGCAGCCACTTAGTCAATAGTGAGGAGGCATATTCTGAGAGTCAAGAATAAATCATCTG
GGATATTGCCAGGCAACTCATACAAATAGGGGACAGAATGGATCTCAGCATTCACCCAAGACTAGTGAATAACCTGGTAA
TACAATTTAAGAATATGAACCTGTGGGAGGAAGAGAGAAGGAAGTGCCTCACTGGTGCACTGGAGCAGGTCACACAGACT
TATCCTAAAGACATGGAGAAAGAGAAGAGCAAGCTGATTTTGACCCATGCTGTTGGCCAAAAAAGGTGGTCGATCACACA
CCATCCTTGCTCCGTGATGTCTCGTGCACAACAGTGAATTTTATTAACGAGAGCCTACTCACCTATATGAGGAACTGAGT
CAGAAATGGAATGGAC

Alignment

ORF - retro_fcat_1823 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 75.38 %
• Parental protein coverage: 100. %
• Number of stop codons detected: 3
• Number of frameshifts detected: 3

Retrocopy - Parental Gene Alignment:

Parental  VSNGSSLQDERIT-NLLVFGFLQNCSNYNFHKELEVLGRELPVPPAYLQEDHDDGLQTDGNRCSRFLDSE
          VSNGSSLQDE.I..NLLVFGFLQNCSNYNFHKELE.LG.ELP..PAYLQEDHDD.L.T.GN.CS....SE
Retrocopy VSNGSSLQDECIK>NLLVFGFLQNCSNYNFHKELEALGHELPM-PAYLQEDHDDEL*TNGNWCSHLVNSE

Parental  ETDSESQEEIIQDIARQLAQIGDRMDHSIHPRVVNNLAMQFMNVNLSEEDRRKHLAAALEQVLQTYPKDM
          E..SESQE.II.DIARQL.QIGDRMD.SIHPR.VNNL..QF.N.NL.EE.RRK.L..ALEQV.QTYPKDM
Retrocopy EAYSESQE*IIWDIARQLIQIGDRMDLSIHPRLVNNLVIQFKNMNLWEEERRKCLTGALEQVTQTYPKDM

Parental  EREKTVLMLA-MVLA-KKVADHTPSLLRDVFRTTVNFINQNLLTYVRNLVRNEMD
          E.EK..L.L..M.LA.KKV.DHTPSLLRDV..TTVNFIN..LLTY.RN.VRN.MD
Retrocopy EKEKSKLILT>MLLA>KKVVDHTPSLLRDVSCTTVNFINESLLTYMRN*VRNGMD

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	1.95 RPM
SRP017611_kidney	0.00 RPM	6.18 RPM
SRP017611_liver	0.00 RPM	3.64 RPM

ChIP-Seq

Felis catus was not studied using ChIP-Seq data.

EST

No EST(s) were mapped for retro_fcat_1823 retrocopy.

TSS

Felis catus was not studied using FANTOM5 data.

Lab

retro_fcat_1823 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 3 retrocopies.

Species	Parental gene accession	Retrocopies number
Canis familiaris	ENSCAFG00000016168	1 retrocopy	retro_cfam_1219,
Felis catus	ENSFCAG00000011109	1 retrocopy	retro_fcat_1823 ,
Ictidomys tridecemlineatus	ENSSTOG00000020169	1 retrocopy	retro_itri_1393,