RetrogeneDB ID: | retro_etel_1047 | ||
Retrocopy location | Organism: | Lesser hedgehog tenrec (Echinops telfairi) | |
| Coordinates: | scaffold_204051:3261..4405(+) | ||
| Located in intron of: | None | ||
Retrocopy information | Ensembl ID: | ENSETEG00000012610 | |
| Aliases: | None | ||
| Status: | KNOWN_PSEUDOGENE | ||
Parental gene information | Parental gene summary: | ||
| Parental gene symbol: | RCC1 | ||
| Ensembl ID: | ENSETEG00000011999 | ||
| Aliases: | None | ||
| Description: | regulator of chromosome condensation 1 [Source:HGNC Symbol;Acc:1913] |
Retrocopy-Parental alignment summary:
>retro_etel_1047
CACAGAACCAAGCATGGTACTGCCACTGGGCAGGGAGCTGTGGGCCAGCTGGGGCTGGGGAAGAATGTGATCAAGAGGAA
GAGCCAGCGCTGGTGCCCATTCTTGAGGATGTCATCCAAGATGAGGCAGGGGCATGCACACCAGGTGTCAAAGAAAGACT
GGCCATATCTACTCCTTTTGCAGCAACTATGAGGTCGCTCTGGGAAGGACTACAACACTGGAAGGCTCGGAGAAGGTCCC
TGGGAACGTGGAACTGTAGGAGAAGGTGGTACAGGTATCAGCAGGAGGCAGCCACACAGAAACCCTCACCTAAGAGGGCC
GTGCCTTCCTCTGGGGCTCCTTCCGGGGCAATTACAGGGTCATTGGGCTCCTGCAGCCCTGCAGAAGAGCATGGTGCCGT
GCAAGTCCAGTTGGAGATGTCTGCGTTGCAAGGGCCCGCAGGGAATGACCACCTGGTCATGCTGACGGCTGGTGGTGACC
TCTAAACCTTGGCATGAGAAGAGGGCCAGTTCAGCTGAGTGCCTGAATTATTCGCTAACCGTGGTGTCTGGCCGGGTATT
GAACAGCTCCTCATCCTCAAGTCTGTGTTGCTGGAATCCAGGAGAATCCCGGGCTCCATGCACTTCCAGAATGTCTTCTG
CAGCACATACTTCACCTTCACTGTCTCCCAGGAAGCTCACATCTATGGCTTTGGTCTCTTTGGCTACCACCAACTTGGAA
CAGCAGACAAAGGCTCTTGTTTTGAACCCCAGTAACTGACATCGTCCCAGAACTCCACCATGTTCTGGGTGGGCTTCTCG
GGGGGCCAGCATCATATGCTCTGCGTGGATTTAGAAGAAGTATATCACCTGGCCCTGGCTGACTATGTGCGGCTGAGCCT
CAGGAGGGTGCTGAGGAAAAGAGCATGCCCTCCCTCATCCCCAGGCTGCCTGCTGTCTCCTCAGTGGCTTGCCGGGCCTC
TGTGGGGTATGCTATGACCAAGGAGGGCAGCGCTTTTGCCCAGGGCATGGGCACCAGCTACCAGCTGGGCACGGGGCAGA
ACGAGGACATCAGCAGCCGGGTGGAGATGACAGGCAACCAGTTGGAGAACCGAGTGGCCTTGTCTGTGCCAAGCAGGGGC
CAGCACACAGTCTTAGCAGTCAGA
ORF - retro_etel_1047 Open Reading Frame is not conserved.
Retrocopy - Parental Gene Alignment summary:
| Percent Identity: | 64.36 % |
| Parental protein coverage: | 84.58 % |
| Number of stop codons detected: | 6 |
| Number of frameshifts detected: | 5 |
Retrocopy - Parental Gene Alignment:
| Parental | HNIELGKVLTLGGDVGLGLGENVMERK-KPALSSIPEDVIGAEAG-GMHTVCLSKTGQVYSFGCNDEGAL |
| H....G.....G....LGLG.NV..RK..PAL..I.EDVI..EAG.GMHT.C..KTG..YSF..N.E.AL | |
| Retrocopy | HRTKHGTATGQGAVGQLGLGKNVIKRK<EPALVPILEDVIQDEAG<GMHTRCQRKTGHIYSFCSNYEVAL |
| Parental | GRDTSLEGLEMVPGKVDLQEKVVQVSAGDSHSAALTEDGRVFLWGSFRDNNGVIGLLEP-MKKSMVP-VQ |
| GR.T.LEG.E.VPG.V.L.EKVVQVSAG.SH...LT..GR.FLWGSFR.N..VIGLL.P...KSMVP.VQ | |
| Retrocopy | GRTTTLEGSEKVPGNVEL*EKVVQVSAGGSHTETLT*EGRAFLWGSFRGNYRVIGLLQP<LQKSMVP<VQ |
| Parental | VQLDVSVVKVASGNDHLVMLTADGDLYTLGCGEQGQLGRVPELFANRGGRQGLERLLVPKRVLLKSRGSR |
| VQL..S......GNDHLVMLTA.GDL.TL...E.GQ...VPELFANRG...G.E.LL..K.VLL.SR... | |
| Retrocopy | VQLEMSALQGPAGNDHLVMLTAGGDL*TLA*-EEGQFS*VPELFANRGVWPGIEQLLILKSVLLESRRIP |
| Parental | GHVRFQDVFCGAYFTFAVSQEGHIYGFGLSNYHQLGTPGTESCFVPQNLTSFKNSTKSWVGFSGGQHHTV |
| G...FQ.VFC..YFTF.VSQE.HIYGFGL..YHQLGT....SCF.PQ.LTS..NST..WVGFSGGQHH.. | |
| Retrocopy | GSMHFQNVFCSTYFTFTVSQEAHIYGFGLFGYHQLGTADKGSCFEPQ*LTSSQNSTMFWVGFSGGQHHML |
| Parental | CMDSEGKAYSLGRAEYGRLGL-GAGAEEKSIPTLIPRLPAVSSVACGASVGYAVTKDGRAFA-GMSTNYQ |
| C.D.E...Y.L..A.Y.RL.L...GAEEKS.P.LIPRLPAVSSVAC.ASVGYA.TK.G.AFA.GM.T.YQ | |
| Retrocopy | CVDLE-EVYHLALADYVRLSL<QEGAEEKSMPSLIPRLPAVSSVACRASVGYAMTKEGSAFAQGMGTSYQ |
| Parental | LGTGQDEDVWSPVEMTGKQLENRVVLSVSSGGQHTVLLVK |
| LGTGQ.ED..S.VEMTG.QLENRV.LSV.S.GQHTVL.V. | |
| Retrocopy | LGTGQNEDISSRVEMTGNQLENRVALSVPSRGQHTVLAVR |
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_1047 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 1 parental gene, and 1 retrocopy.| Species | Parental gene accession | Retrocopies number | |
|---|---|---|---|
| Echinops telfairi | ENSETEG00000011999 | 1 retrocopy |
retro_etel_1047 ,
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