RetrogeneDB ID:

retro_etel_1027

Retrocopy
location
Organism:Lesser hedgehog tenrec (Echinops telfairi)
Coordinates:scaffold_201842:8009..8526(-)
Located in intron of:None
Retrocopy
information
Ensembl ID:ENSETEG00000016375
Aliases:None
Status:KNOWN_PSEUDOGENE
Parental gene
information
Parental gene summary:
Parental gene symbol:YWHAQ
Ensembl ID:ENSETEG00000015359
Aliases:None
Description:tyrosine 3-monooxygenase/tryptophan 5-monooxygenase activation protein, theta polypeptide [Source:HGNC Symbol;Acc:12854]


Retrocopy-Parental alignment summary:






>retro_etel_1027
GGCCGCAGGGCCGCCTGGAGGGTCATCTTGTGCATCGAACAGAAAACCAACAACTCCGACAAGAAGTGGCAGCTGATTAA
GGACGATCGGGAGCAAGTGGAGTCGGAACAGCGGTTCATCTGCATCACGGTCCTGGAATTGCTGGACAAGTATTTCATAG
ACAATGCAACGAATCCAAAGAGTAAGGTCTTCTATCTGGAAATGAAAGGAGATTATTTCCGGTCCCTTGCTGAAATAGCG
TGTGGTGATGATCGAAAACAAACGGTAGATAATTCCCAAGGTGCTTACCAAGAAGCACGTGATATAAGCAAGAAGGAGAT
GCAACTACACATCCCATCCGCCTGAGGCTGGCTCTAAACTTTTCTGTATTTTACTGTGAGATCCTTAATAACCCAGAGCT
TGCCTGTACGCTGGCTGAAATGGCTTTTGATGAGGCCATTGCAGAACTGAAGACGCTGAATGAAGACTCACACAAAGATA
ACACCTTATCACGCAGTTGCGGAGAGACCGCCTAACA

ORF - retro_etel_1027 Open Reading Frame is not conserved.
Retrocopy - Parental Gene Alignment summary:
Percent Identity: 81.71 %
Parental protein coverage: 76.55 %
Number of stop codons detected: 0
Number of frameshifts detected 2


Retrocopy - Parental Gene Alignment:

ParentalGRRSAWRVISSIEQKTDTSDKKLQLIKDYREKVESELRSICTTVLELLDKYLIANATNPESKVFYLKMKG
GRR.AWRVI..IEQKT..SDKK.QLIKD.RE.VESE.R.IC.TVLELLDKY.I.NATNP.SKVFYL.MKG
RetrocopyGRRAAWRVILCIEQKTNNSDKKWQLIKDDREQVESEQRFICITVLELLDKYFIDNATNPKSKVFYLEMKG
ParentalDYFRYLAEVACGDDRKQTIDNSQGAYQEAFDISKKEMQ-PTHPIRLGLALNFSVFYYEILNNPELACTLA
DYFR.LAE.ACGDDRKQT.DNSQGAYQEA.DISKKEMQ..THPIRL.LALNFSVFY.EILNNPELACTLA
RetrocopyDYFRSLAEIACGDDRKQTVDNSQGAYQEARDISKKEMQ<TTHPIRLRLALNFSVFYCEILNNPELACTLA
ParentalKTAFDEAIAELDTLNEDSYKDST-LIMQLLRDNLT
..AFDEAIAEL.TLNEDS.KD.T.LI.QL.RD.LT
RetrocopyEMAFDEAIAELKTLNEDSHKDNT<LITQLRRDRLT

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_1027 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 26 parental genes, and 77 retrocopies.

Species Parental gene accession Retrocopies number
Ailuropoda melanoleuca ENSAMEG000000086184 retrocopies
Bos taurus ENSBTAG000000021082 retrocopies
Callithrix jacchus ENSCJAG000000063942 retrocopies
Cavia porcellus ENSCPOG000000113214 retrocopies
Equus caballus ENSECAG000000049251 retrocopy
Echinops telfairi ENSETEG000000099674 retrocopies
Echinops telfairi ENSETEG000000120562 retrocopies
Echinops telfairi ENSETEG00000015359 4 retrocopies
Felis catus ENSFCAG000000078542 retrocopies
Homo sapiens ENSG000001343082 retrocopies
Gorilla gorilla ENSGGOG000000015691 retrocopy
Macropus eugenii ENSMEUG000000144427 retrocopies
Myotis lucifugus ENSMLUG000000053831 retrocopy
Monodelphis domestica ENSMODG000000147401 retrocopy
Mustela putorius furoENSMPUG000000132522 retrocopies
Mus musculus ENSMUSG0000007643210 retrocopies
Nomascus leucogenys ENSNLEG000000135343 retrocopies
Oryctolagus cuniculus ENSOCUG000000104821 retrocopy
Otolemur garnettii ENSOGAG000000005473 retrocopies
Pongo abelii ENSPPYG000000126634 retrocopies
Pelodiscus sinensis ENSPSIG000000126921 retrocopy
Pan troglodytes ENSPTRG000000116412 retrocopies
Pteropus vampyrus ENSPVAG000000053341 retrocopy
Rattus norvegicus ENSRNOG000000081045 retrocopies
Sorex araneus ENSSARG000000124764 retrocopies
Tursiops truncatus ENSTTRG000000008714 retrocopies



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