RetrogeneDB ID:

retro_etel_98

Retrocopy
location
Organism:Lesser hedgehog tenrec (Echinops telfairi)
Coordinates:GeneScaffold_1769:146696..147096(+)
Located in intron of:None
Retrocopy
information
Ensembl ID:None
Aliases:None
Status:NOVEL
Parental gene
information
Parental gene summary:
Parental gene symbol:SAP18
Ensembl ID:ENSETEG00000005565
Aliases:None
Description:Sin3A-associated protein, 18kDa [Source:HGNC Symbol;Acc:10530]


Retrocopy-Parental alignment summary:






>retro_etel_98
ATGGCAGTGGAGTCGCGCGTCACCCAAGAGGAAATTAAGAAGGAACCGGAGAAGCTGGTCGACCAGGAGAAGACGCTGCT
GCTGCTGCTGCTGCGGGTCTTCGCCACCAGTAACGGCCACCACCACCTAATGGACGAGTTCTCCCCTGGAAACGTGCCGT
CCAGCGAGCTGCAGATCTACACTGGGGATGGGATGCAATTTTGAAGGACCTGACAAGCTTAGTAAAGGGAGGTTTACCCA
GGAGGCTAGAAAGGAGGGGCACGCACTTCATTTTTGCGATTGTTTTCACAGGATCTGGGAAAGACCTGGCTATCGAGTCA
AGGAAATTGGGCAGCAGCAGGAAAGGGGCCCGAGATTCCAGGAACCCTTCAATCCACAGAAGTTCCCAAATGGGGGGCAT

ORF - retro_etel_98 Open Reading Frame is not conserved.
Retrocopy - Parental Gene Alignment summary:
Percent Identity: 64.29 %
Parental protein coverage: 86.27 %
Number of stop codons detected: 0
Number of frameshifts detected 6


Retrocopy - Parental Gene Alignment:

ParentalMAVESRVTQEEIKKEPEKPIDREKKCPLLLR-VLTTNNGRHHRMDEFSRGNVPSSELQIYT-W-MDATLK
MAVESRVTQEEIKKEPEK..D.EK........V..T.NG.HH.MDEFS.GNVPSSELQIYT.W..DA.LK
RetrocopyMAVESRVTQEEIKKEPEKLVDQEKXXXXXXXXVFATSNGHHHLMDEFSPGNVPSSELQIYT<WGWDAILK
ParentalELTSLVK-EVYP-EARK-KGTHFNFAIVFT-DL-KRPGYRVKEIGSTMSGRKGTDDSMTLQSQKFQIGDY
.LTSLVK.EVYP.EARK..GTHF.FAIVFT.DL..RPGYRVKEIG.......G.........QKF..G..
RetrocopyDLTSLVK>EVYP>EARK>RGTHFIFAIVFT>DL>ERPGYRVKEIGQQQ--ERGPRFQEPFNPQKFPNGGH

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_98 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 25 parental genes, and 58 retrocopies.

Species Parental gene accession Retrocopies number
Bos taurus ENSBTAG000000186311 retrocopy
Canis familiaris ENSCAFG000000320703 retrocopies
Callithrix jacchus ENSCJAG000000186453 retrocopies
Cavia porcellus ENSCPOG000000085981 retrocopy
Dasypus novemcinctus ENSDNOG000000152043 retrocopies
Equus caballus ENSECAG000000135081 retrocopy
Erinaceus europaeus ENSEEUG000000063091 retrocopy
Echinops telfairi ENSETEG00000005565 11 retrocopies
Felis catus ENSFCAG000000070261 retrocopy
Homo sapiens ENSG000001504592 retrocopies
Loxodonta africana ENSLAFG000000309632 retrocopies
Microcebus murinus ENSMICG000000043092 retrocopies
Myotis lucifugus ENSMLUG000000028524 retrocopies
Macaca mulatta ENSMMUG000000104162 retrocopies
Mustela putorius furoENSMPUG000000006071 retrocopy
Mus musculus ENSMUSG000000219631 retrocopy
Nomascus leucogenys ENSNLEG000000019952 retrocopies
Oryctolagus cuniculus ENSOCUG000000127161 retrocopy
Otolemur garnettii ENSOGAG000000100622 retrocopies
Pongo abelii ENSPPYG000000051982 retrocopies
Pan troglodytes ENSPTRG000000056922 retrocopies
Rattus norvegicus ENSRNOG000000107321 retrocopy
Sorex araneus ENSSARG000000049233 retrocopies
Ictidomys tridecemlineatus ENSSTOG000000057353 retrocopies
Tursiops truncatus ENSTTRG000000169123 retrocopies



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