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


Retrocopy-Parental alignment summary:






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

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:

ParentalVVLQCIYGLVCLLGLAGNALVIFVILRYAKMKTATNIYLLNLAIADELFMLSLPFVATAAALRRWPFGRA
.....IY..VCL.GL.GN..VI.VILRYAKMKTATNIY.LNLAIADEL.MLS.PF..T...L..WPFG..
RetrocopyILISFIYSVVCLVGLCGNSMVIYVILRYAKMKTATNIYILNLAIADELLMLSVPFLVTSTLLHHWPFGSL
ParentalLCRTVLGVDGLNMFSSVFCLTVLSLDRYIAVVHPLRAASYRRPRVAKLVNGAVWLLALLVASPIPVFAGT
LCR.VL.VD..NMF.S..CLTVLS.DRYIAVVHP..AA.YRRP.VAK.VN..VW.L..L...PI..F..T
RetrocopyLCRLVLSVDAINMFTSIYCLTVLSVDRYIAVVHPIKAARYRRPTVAKMVNLGVWVLSILIILPIIIFSNT
ParentalAATRDGRAVACDLLWPSPA--WAAAFVVYSSALGFVLPVVAMALCYLLLAGKMRAVAQGVGWRQRRRSEG
AA..DG..VAC..L.P.P...W...FVVY....GF.LPVVA..LCY.L...KMR.VA...GW.QR.RSE.
RetrocopyAANSDG-TVACNMLMPEPTQRWLVVFVVYTFLMGFLLPVVAICLCYILIIAKMRMVALKAGWQQRKRSER
ParentalKLTRLVVTVVAMFVVCWLPFYVVQLLELLPPPLDASAHNASLLLSYSNSCANPILYGLLSENFRHSFQGV
K.T..V..VV..FV.CW.PFY.VQL........DA.....S..L.Y.NSCANPILYG.LS.NF..SFQ..
RetrocopyKITLMVMMVVMVFVICWMPFYIVQLVNVFVEQDDATISQLSVILGYANSCANPILYGFLSDNFKRSFQRL
ParentalL
L
RetrocopyL

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






RNA-Seq - click to see more details

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

ChIP-Seq - click to see more details

Ficedula albicollis was not studied using ChIP-Seq data.

EST - click to see more details

Ficedula albicollis was not studied using EST data.

TSS - click to see more details

Ficedula albicollis was not studied using FANTOM5 data.

Lab - click to see more details

retro_falb_14 was not experimentally validated.

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 ,


Copyright © RetrogeneDB 2014-2017