RetrogeneDB ID: retro_falb_4

Retrocopy location

• Organism: Flycatcher (Ficedula albicollis)
• Coordinates: JH603564.1:58101..58845(+)
• Located in intron of: None

Retrocopy information

• Ensembl ID: ENSFALG00000014900
• Aliases: None
• Status: KNOWN_PROTEIN_CODING

Parental gene information

• Parental gene symbol: ZNF697
• Ensembl ID: ENSFALG00000008344
• Aliases: None
• Description: zinc finger protein 697 [Source:HGNC Symbol;Acc:32034]

Sequence

>retro_falb_4
GGGGGGGGGGGGGGGGGCTTCGTGTGGGCGTCGCACCTGGAGCGGCACCGGCGCGTGCACACCGGCGAGAAGCCCTTCGA
GTGCCCCGAGTGCGGCGAGGCGTTCAGCCAGGCCTCGCACCTGGCCAAGCACCGCCGCAGCCACTCGGGCGAGCGGCCGC
ACCGCTGCCCGGCCTGCGGGAAGACCTTCTGCCAGAGCTCCGACCTGGCGCGGCACCGGCGCGTGCACCTGGGCAGGAAG
CCCCTGCGCTGCGGGGACTGCGGAAAGCTGTTCCGGGCGGGGCCGGCGCTGGCGCGGCACCAGCGGTGCCACGGCCGGGA
GCACTCGCACCGCTGCGCCGACTGCGGGAAGGGCTTCGTGTGGGCGTCGCACCTGGAGCGGCACCGGCGCGTGCACACGG
GCGAGCGGCCCTTCCCCTGCAGCAGCTGCGGCGAGCGCTTCACCCAGAAGGTTCACCTGCTGCAGCACCGCAAGACGCAC
TCGCCGGAGAGGCCCTACAAGTGCGGCGACTGCGGAAAGCGCTTTGGGGAAGCGCCCCCGTTCCTGGCGCACCAGCGCGG
CCACGCCGTGAACAAGAGCCACACCTGCGGCGACTGCGGGAAGGGCTTTGCCTGGGCCTCCCACCTGGAGCGGCACCACC
GCGTGCACACCGGCGAGAAGCCCTTCGAGTGCCCCGAGTGCGGCGAGGCGTTCAGCCAGGCCTCGCACCTCGCCAAGCAC
CGCCGCAGCCACCTCCCCAAGGCC

Alignment

ORF - retro_falb_4 Open Reading Frame is conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 53.06 %
• Parental protein coverage: 52.13 %
• Number of stop codons detected: 0
• Number of frameshifts detected: 0

Retrocopy - Parental Gene Alignment:

Parental  GRAFAWSSHLERHMRTHTGEKPFECSECGRAFAWSSHLERHMRTHTGEKPFECSECGRAFTWSSHLERHM
          G..F.W.SHLERH.R.HTGEKPFEC.ECG.AF...SHL..H.R.H.GE.P..C..CG..F..SS.L.RH.
Retrocopy GGGFVWASHLERHRRVHTGEKPFECPECGEAFSQASHLAKHRRSHSGERPHRCPACGKTFCQSSDLARHR

Parental  RTHTGEKPFECSECGRAFAWSSHLERHMRTHGAAKPYPCGACGKSFGWLSHLERHCRVHTGEKPFRCGEC
          R.H.G.KP..C..CG..F.....L.RH.R.HG......C..CGK.F.W.SHLERH.RVHTGE.PF.C..C
Retrocopy RVHLGRKPLRCGDCGKLFRAGPALARHQRCHGREHSHRCADCGKGFVWASHLERHRRVHTGERPFPCSSC

Parental  GRGFAVSCHLERHRRVHTGERPFRCGDCGKSFAASSTLLAHRRTHGAEKPFLCGLCGKGFSWSSHYDRHR
          G..F....HL..HR..H..ERP..CGDCGK.F......LAH.R.H...K...CG.CGKGF.W.SH..RH.
Retrocopy GERFTQKVHLLQHRKTHSPERPYKCGDCGKRFGEAPPFLAHQRGHAVNKSHTCGDCGKGFAWASHLERHH

Parental  LTHTGEKPFPCAHCGKRFGRSSHRNRHQRAHAQRS
          ..HTGEKPF.C..CG..F...SH...H.R.H....
Retrocopy RVHTGEKPFECPECGEAFSQASHLAKHRRSHLPKA

Legend:

• *: Stop codon
• >: Forward frameshift by one nucleotide
• <: Reverse frameshift by one nucleotide

Expression

RNA-Seq

Ficedula albicollis was not studied using RNA-Seq expression data.

ChIP-Seq

Ficedula albicollis was not studied using ChIP-Seq data.

EST

Ficedula albicollis was not studied using EST data.

TSS

Ficedula albicollis was not studied using FANTOM5 data.

Lab

retro_falb_4 was not experimentally validated.

Homology

Retrocopy orthology:

Ficedula albicollis 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 2 parental genes, and 2 retrocopies.

Species	Parental gene accession	Retrocopies number
Ciona intestinalis	ENSCING00000003072	1 retrocopy	retro_cint_11,
Ficedula albicollis	ENSFALG00000008344	1 retrocopy	retro_falb_4 ,