RetrogeneDB ID: retro_falb_14

Retrocopy location

• Organism: Flycatcher (Ficedula albicollis)
• Coordinates: JH603186.1:11592259..11593405(+)
• Located in intron of: None

Retrocopy information

• Ensembl ID: ENSFALG00000015219
• Aliases: None
• Status: KNOWN_PROTEIN_CODING

Parental gene information

• Parental gene symbol: SSTR4
• Ensembl ID: ENSFALG00000011656
• Aliases: None
• Description: somatostatin receptor 4 [Source:HGNC Symbol;Acc:11333]

Sequence

>retro_falb_14
GGGGGGGGGGGGGGGGGGAGCGACAGCGGTGGCGGAGGAGCCGGGGGCGCCTCGGAGGAGGCGGAGGCGGAGGGCATGGA
CTCGGGCGGCAGGAATTCCTCTGGCGCTCCGAACAGCACCCTGAGTGAGTCTCAGGGCAGCGCCATCCTCATCTCATTCA
TCTACTCCGTGGTGTGCCTGGTGGGGCTGTGCGGCAACTCCATGGTCATCTACGTGATCCTACGTTATGCCAAGATGAAG
ACAGCCACCAACATCTACATCCTCAACCTGGCCATCGCGGACGAGCTGCTGATGCTCAGCGTCCCCTTTCTGGTTACCTC
CACGCTGCTGCACCACTGGCCCTTTGGCTCCCTGCTCTGCCGCCTGGTGCTCAGTGTGGATGCCATCAACATGTTCACCA
GCATCTACTGCCTGACCGTGCTCAGTGTGGACCGCTACATCGCTGTGGTGCACCCCATCAAGGCGGCAAGGTACCGCCGG
CCCACCGTGGCTAAGATGGTCAATCTGGGTGTCTGGGTGCTTTCCATCCTCATCATCCTGCCCATCATCATCTTCTCCAA
CACAGCAGCCAACAGTGATGGAACAGTGGCTTGCAACATGCTCATGCCAGAGCCCACCCAGAGATGGCTGGTGGTCTTTG
TGGTCTACACCTTTCTGATGGGCTTCTTGCTGCCTGTTGTGGCCATCTGCCTCTGCTACATCCTCATCATTGCTAAGATG
CGCATGGTGGCCCTGAAGGCCGGCTGGCAGCAACGCAAACGCTCAGAGCGAAAGATCACCCTCATGGTCATGATGGTGGT
GATGGTCTTTGTCATCTGCTGGATGCCCTTCTACATCGTGCAGCTGGTCAATGTCTTTGTAGAGCAGGATGATGCCACCA
TCAGCCAGCTCTCTGTCATCTTGGGCTATGCCAACAGCTGTGCCAACCCTATCCTCTATGGTTTTCTCTCAGACAATTTC
AAGCGGTCCTTCCAGCGGCTGCTCTGCCTCAGCTGGATGGACAATGCTGCAGAGGAACCCATCGACTACTATGCCACTGC
CCTCAAGAGCAGGGCATACAGCGTGGAGGACTTTCCCCCAGACAACTTGGAGTCAGGGAGCATGTACAGGAATGGCACTT
GCACCTCCAGGATTACCACCCTCTGA

Alignment

ORF - retro_falb_14 Open Reading Frame is conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 59.43 %
• Parental protein coverage: 78.15 %
• Number of stop codons detected: 0
• Number of frameshifts detected: 0

Retrocopy - Parental Gene Alignment:

Parental  VVLQCIYGLVCLLGLAGNALVIFVILRYAKMKTATNIYLLNLAIADELFMLSLPFVATAAALRRWPFGRA
          .....IY..VCL.GL.GN..VI.VILRYAKMKTATNIY.LNLAIADEL.MLS.PF..T...L..WPFG..
Retrocopy ILISFIYSVVCLVGLCGNSMVIYVILRYAKMKTATNIYILNLAIADELLMLSVPFLVTSTLLHHWPFGSL

Parental  LCRTVLGVDGLNMFSSVFCLTVLSLDRYIAVVHPLRAASYRRPRVAKLVNGAVWLLALLVASPIPVFAGT
          LCR.VL.VD..NMF.S..CLTVLS.DRYIAVVHP..AA.YRRP.VAK.VN..VW.L..L...PI..F..T
Retrocopy LCRLVLSVDAINMFTSIYCLTVLSVDRYIAVVHPIKAARYRRPTVAKMVNLGVWVLSILIILPIIIFSNT

Parental  AATRDGRAVACDLLWPSPA--WAAAFVVYSSALGFVLPVVAMALCYLLLAGKMRAVAQGVGWRQRRRSEG
          AA..DG..VAC..L.P.P...W...FVVY....GF.LPVVA..LCY.L...KMR.VA...GW.QR.RSE.
Retrocopy AANSDG-TVACNMLMPEPTQRWLVVFVVYTFLMGFLLPVVAICLCYILIIAKMRMVALKAGWQQRKRSER

Parental  KLTRLVVTVVAMFVVCWLPFYVVQLLELLPPPLDASAHNASLLLSYSNSCANPILYGLLSENFRHSFQGV
          K.T..V..VV..FV.CW.PFY.VQL........DA.....S..L.Y.NSCANPILYG.LS.NF..SFQ..
Retrocopy KITLMVMMVVMVFVICWMPFYIVQLVNVFVEQDDATISQLSVILGYANSCANPILYGFLSDNFKRSFQRL

Parental  L
          L
Retrocopy L

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_14 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 1 parental gene, and 1 retrocopy.

Species	Parental gene accession	Retrocopies number
Ficedula albicollis	ENSFALG00000011656	1 retrocopy	retro_falb_14 ,