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






RNA-Seq - click to see more details

Echinops telfairi was not studied using RNA-Seq expression data.

ChIP-Seq - click to see more details

Echinops telfairi was not studied using ChIP-Seq data.

EST - click to see more details

Echinops telfairi was not studied using EST data.

TSS - click to see more details

Echinops telfairi was not studied using FANTOM5 data.

Lab - click to see more details

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
retro_amel_1214, retro_amel_1382, retro_amel_1837, retro_amel_917,
Bos taurus ENSBTAG000000021082 retrocopies
retro_btau_1180, retro_btau_86,
Callithrix jacchus ENSCJAG000000063942 retrocopies
retro_cjac_2197, retro_cjac_3127,
Cavia porcellus ENSCPOG000000113214 retrocopies
retro_cpor_135, retro_cpor_1463, retro_cpor_616, retro_cpor_668,
Equus caballus ENSECAG000000049251 retrocopy
retro_ecab_134,
Echinops telfairi ENSETEG000000099674 retrocopies
retro_etel_1221, retro_etel_1380, retro_etel_1536, retro_etel_1705,
Echinops telfairi ENSETEG000000120562 retrocopies
retro_etel_1762, retro_etel_738,
Echinops telfairi ENSETEG00000015359 4 retrocopies
retro_etel_1027 , retro_etel_1048, retro_etel_235, retro_etel_65,
Felis catus ENSFCAG000000078542 retrocopies
retro_fcat_1702, retro_fcat_771,
Homo sapiens ENSG000001343082 retrocopies
retro_hsap_3004, retro_hsap_8,
Gorilla gorilla ENSGGOG000000015691 retrocopy
retro_ggor_2081,
Macropus eugenii ENSMEUG000000144427 retrocopies
retro_meug_1122, retro_meug_1208, retro_meug_1259, retro_meug_1549, retro_meug_1918, retro_meug_2106, retro_meug_538,
Myotis lucifugus ENSMLUG000000053831 retrocopy
retro_mluc_1817,
Monodelphis domestica ENSMODG000000147401 retrocopy
retro_mdom_1339,
Mustela putorius furoENSMPUG000000132522 retrocopies
retro_mputfur_1132, retro_mputfur_730,
Mus musculus ENSMUSG0000007643210 retrocopies
retro_mmus_1076, retro_mmus_1378, retro_mmus_1926, retro_mmus_2250, retro_mmus_2299, retro_mmus_2471, retro_mmus_2689, retro_mmus_3250, retro_mmus_3308, retro_mmus_406,
Nomascus leucogenys ENSNLEG000000135343 retrocopies
retro_nleu_2543, retro_nleu_750, retro_nleu_869,
Oryctolagus cuniculus ENSOCUG000000104821 retrocopy
retro_ocun_1463,
Otolemur garnettii ENSOGAG000000005473 retrocopies
retro_ogar_1047, retro_ogar_1732, retro_ogar_39,
Pongo abelii ENSPPYG000000126634 retrocopies
retro_pabe_1165, retro_pabe_2490, retro_pabe_3391, retro_pabe_3511,
Pelodiscus sinensis ENSPSIG000000126921 retrocopy
retro_psin_2,
Pan troglodytes ENSPTRG000000116412 retrocopies
retro_ptro_2032, retro_ptro_3,
Pteropus vampyrus ENSPVAG000000053341 retrocopy
retro_pvam_983,
Rattus norvegicus ENSRNOG000000081045 retrocopies
retro_rnor_1569, retro_rnor_2065, retro_rnor_2123, retro_rnor_2180, retro_rnor_2746,
Sorex araneus ENSSARG000000124764 retrocopies
retro_sara_1, retro_sara_162, retro_sara_179, retro_sara_23,
Tursiops truncatus ENSTTRG000000008714 retrocopies
retro_ttru_1006, retro_ttru_1109, retro_ttru_1530, retro_ttru_1536,


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