RetrogeneDB ID:

retro_etel_627

Retrocopy
location
Organism:Lesser hedgehog tenrec (Echinops telfairi)
Coordinates:scaffold_104518:8842..9280(-)
Located in intron of:None
Retrocopy
information
Ensembl ID:None
Aliases:None
Status:NOVEL
Parental gene
information
Parental gene summary:
Parental gene symbol:RNF4
Ensembl ID:ENSETEG00000001683
Aliases:None
Description:ring finger protein 4 [Source:HGNC Symbol;Acc:10067]


Retrocopy-Parental alignment summary:






>retro_etel_627
GGAGATGAAACTGCGGACCTCACCTTGAACCCTTGGAGCCTGTGGTGCGCGACCGTCTGATTCGTAGCTACTCTGTCCAG
ATTGTGGAAGAAAGGAGGCAGCCAGGAGGATGGCGCGGGGATTGGGCCTGGACCATGCCACAGCTGTCTTTAGCAGTGAC
CATGGTGACTTGCCCAGAGGCAGAGATGTGCATAAGACTCCGCCAACACCCAGAAACGCCAGAAAGGAGGGCACCACAGG
GCTCGGGTCCTCTGACATGGTCTGCTGTCCCATCTGCACGATGGATACTCCAAGGTTGTGCAGAATGGCCATCCCCTCAT
GTCTACAGAATGTGGCCACGTGTTCTGCAGCCAGTGCCCCCGAGATTCCCTGAAAACCTCCCGTAGCTGTCCGACCTGTA
GGCAAAAGGTCAACCACAAAGGGCACCACCCCGTTTAT

ORF - retro_etel_627 Open Reading Frame is not conserved.
Retrocopy - Parental Gene Alignment summary:
Percent Identity: 64.24 %
Parental protein coverage: 78.61 %
Number of stop codons detected: 0
Number of frameshifts detected 3


Retrocopy - Parental Gene Alignment:

ParentalGDEIVDLTC-ESLEPVVVD-LTHNDSVVVSGKRRRP-RRTARRLRQDHADSCVVSSDDDDLPRDRDVYVT
GDE..DLT..E.LEPVV.D.L....SV.....RR.P.RR.AR.L..DHA...V.SSD..DLPR.RDV..T
RetrocopyGDETADLTL<EPLEPVVRDRLIRSYSVQIVEERRQP<RRMARGLGLDHA-TAVFSSDHGDLPRGRDVHKT
ParentalPPTPRNTREEGTTGLRSSGTVSCPICM-DGYSEIVQNGRLIVSTECGHVFCSQCLRDSLKTSSTCPTCRK
PPTPRN.R.EGTTGL.SS..V.CPIC..DGYS..VQNG....STECGHVFCSQC.RDSLKTS..CPTCR.
RetrocopyPPTPRNARKEGTTGLGSSDMVCCPICT<DGYSKVVQNGHPLMSTECGHVFCSQCPRDSLKTSRSCPTCRQ
ParentalKISHKRYHPIY
K..HK..HP.Y
RetrocopyKVNHKGHHPVY

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






Echinops telfairi was not studied using RNA-Seq expression data.
Echinops telfairi was not studied using ChIP-Seq data.
Echinops telfairi was not studied using EST data.
Echinops telfairi was not studied using FANTOM5 data.
retro_etel_627 was not experimentally validated.

Retrocopy orthology:
Echinops telfairi 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 15 parental genes, and 24 retrocopies.

Species Parental gene accession Retrocopies number
Ailuropoda melanoleuca ENSAMEG000000143661 retrocopy
Canis familiaris ENSCAFG000000148561 retrocopy
Dipodomys ordii ENSDORG000000066752 retrocopies
Equus caballus ENSECAG000000248771 retrocopy
Echinops telfairi ENSETEG00000001683 3 retrocopies
retro_etel_469, retro_etel_626, retro_etel_627 ,
Felis catus ENSFCAG000000040511 retrocopy
Loxodonta africana ENSLAFG000000073821 retrocopy
Myotis lucifugus ENSMLUG000000059691 retrocopy
Nomascus leucogenys ENSNLEG000000001602 retrocopies
Oryctolagus cuniculus ENSOCUG000000049982 retrocopies
Ochotona princeps ENSOPRG000000043173 retrocopies
Procavia capensis ENSPCAG000000045281 retrocopy
Pongo abelii ENSPPYG000000258652 retrocopies
Sus scrofa ENSSSCG000000086901 retrocopy
Ictidomys tridecemlineatus ENSSTOG000000111012 retrocopies



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