RetrogeneDB ID: | retro_etel_1911 | ||
Retrocopy location | Organism: | Lesser hedgehog tenrec (Echinops telfairi) | |
| Coordinates: | scaffold_313595:14124..15374(+) | ||
| Located in intron of: | None | ||
Retrocopy information | Ensembl ID: | None | |
| Aliases: | None | ||
| Status: | NOVEL | ||
Parental gene information | Parental gene summary: | ||
| Parental gene symbol: | DKC1 | ||
| Ensembl ID: | ENSETEG00000016095 | ||
| Aliases: | None | ||
| Description: | dyskeratosis congenita 1, dyskerin [Source:HGNC Symbol;Acc:2890] |
Retrocopy-Parental alignment summary:
>retro_etel_1911
ATGGCGGAAGCCAGAGGGGTTCCGCTGAAGAAGCACAAGAAGAAAAGGGCCCGACAGCCGCCCGCTGAAGAAGATATCGC
GGATATACAACATGCCGGGGAGTTCCGTATCGCACCCGAATCCAAAGTGGCTCCGTTGGACACCTCGCAGTGGCCCCTCT
TGTTAAAGAATTTCGATAAGCTGAACGTCAGGACGACACACTACACTCCGCTTCCTTCTGGTTCCAGCCCCCTGACGAGG
GCGATGGCCGACTACGTCAGGACAGGTTTCATCAACCTGGACAAGCCCTCCAACCCGTCTTCACACGAGGTGGTGGCCTG
GATCCGGCGGATACTTCGTGTCGACAAGACCGGACACAGTGGCACCCTGGACCCCAAGGTGACCGGCTGTCTGATCGTGT
GCATCGAGCGCGCCACGCGCCTGGTGAAATCGCAGCAGAGCGCAGGCAAAGAGTATGTGGGGATTGTCCGGCTGCACAAT
GCTATTGAAGGGGGTCCCCAGCTTGCGAGGGCCCTGGAAACCCTGACCGGCGCCCTGTTCCAGAGACCCCCGTTCATAGC
TGCAGTGAAGCGGCAGCTCCGCGTCCGCACTGTCTACGAGAGCAAGCTGATTGAGTACGATCCCCAGAGGAGATTAGGAC
TCTTCTGGGTGAGCTGTGAGGCCGGCACCTACATCCGCACGCTGTGTGTCCACCTGGGTCTGTTACTGGGAGTTGGAGGG
CAGATGCAGGAGCTTCGCAGGGTTCGTTCCGGAGTGATGAGTGAACAGGATCACATGGTGACGATGCACGACGTCCTGGA
TGCCCAGTGGCTGTATGATCATCACAAGGATGAGAGCTACCTGCGGCGAGTCATTTACCCTCTGGAAAAGCTGTTGACGT
CTCACCAGCGCTGGTTATGAAGGACAGTGCGGTGAATGCGATCTGCTACGGAGCCAAGATCCTGCTGCCTGGTGTCTTGC
GGTACGAGGATGGCATAGAAGTCAACCAGGAGATCGTTGTCATCACCACCAAGGGGGAAGCCATCTGTATGGCCGTTGCC
TTGATGACCACTGCCGTCATCTCCACCTGTGACCATGGCATAGTGGCCAAGATCAAAAGGGTTATCATGGAGAGAGATAC
CTACCCTCGGAAGTGGGGGCTCGGACCCAAGGCGAGCAAGAAGAAGTTGCTCATCCACCTAGGCCACCTAGACAAGTCCA
GCAAGGCCATGGACAGCATACCCTCCGCTTGCGTGCAGGAGTATGTGGAC
ORF - retro_etel_1911 Open Reading Frame is not conserved.
Retrocopy - Parental Gene Alignment summary:
| Percent Identity: | 88.28 % |
| Parental protein coverage: | 84.76 % |
| Number of stop codons detected: | 0 |
| Number of frameshifts detected: | 1 |
Retrocopy - Parental Gene Alignment:
| Parental | MADANVVQLKKHKKKKDRKSLPEEDVAEIQHAEEFLIKPESKVALLDTSQWPLLLKNFDKLNVRTTHYTP |
| MA.A..V.LKKHKKK..R....EED.A.IQHA.EF.I.PESKVA.LDTSQWPLLLKNFDKLNVRTTHYTP | |
| Retrocopy | MAEARGVPLKKHKKKRARQPPAEEDIADIQHAGEFRIAPESKVAPLDTSQWPLLLKNFDKLNVRTTHYTP |
| Parental | LPSGSNPLKREIADYIRTGFINLDKPSNPSSHEVVAWIRRILRVEKTGHSGTLDPKVTGCLIVCIERATR |
| LPSGS.PL.R..ADY.RTGFINLDKPSNPSSHEVVAWIRRILRV.KTGHSGTLDPKVTGCLIVCIERATR | |
| Retrocopy | LPSGSSPLTRAMADYVRTGFINLDKPSNPSSHEVVAWIRRILRVDKTGHSGTLDPKVTGCLIVCIERATR |
| Parental | LVKSQQSAGKEYVGIVRLHNAIEGGAQLSRALETLTGALFQRPPLIAAVKRQLRVRTVYESKLIEYDPQR |
| LVKSQQSAGKEYVGIVRLHNAIEGG.QL.RALETLTGALFQRPP.IAAVKRQLRVRTVYESKLIEYDPQR | |
| Retrocopy | LVKSQQSAGKEYVGIVRLHNAIEGGPQLARALETLTGALFQRPPFIAAVKRQLRVRTVYESKLIEYDPQR |
| Parental | RLGIFWVSCEAGTYIRTLCVHLGLLLGVGGQMQELRRVRSGVMSEKDHMVTMHDVLDAQWLYDNHKDESY |
| RLG.FWVSCEAGTYIRTLCVHLGLLLGVGGQMQELRRVRSGVMSE.DHMVTMHDVLDAQWLYD.HKDESY | |
| Retrocopy | RLGLFWVSCEAGTYIRTLCVHLGLLLGVGGQMQELRRVRSGVMSEQDHMVTMHDVLDAQWLYDHHKDESY |
| Parental | LRRVVYPLEKLLTSHKR-MVMKDSAVNAICYGAKILLPGVLRYEDGIELNQEIVVITTKGEAICMAIALM |
| LRRV.YPLEKLLTSH.R..VMKDSAVNAICYGAKILLPGVLRYEDGIE.NQEIVVITTKGEAICMA.ALM | |
| Retrocopy | LRRVIYPLEKLLTSHQR<LVMKDSAVNAICYGAKILLPGVLRYEDGIEVNQEIVVITTKGEAICMAVALM |
| Parental | TTAVISTCDHGIVAKIKRVIMERDTYPRKWGLGPKATEKKMMIKQGLLDKHGKATASTPSAWVRDYVD |
| TTAVISTCDHGIVAKIKRVIMERDTYPRKWGLGPKA..KK..I..G.LDK..KA..S.PSA.V..YVD | |
| Retrocopy | TTAVISTCDHGIVAKIKRVIMERDTYPRKWGLGPKASKKKLLIHLGHLDKSSKAMDSIPSACVQEYVD |
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_1911 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 3 parental genes, and 3 retrocopies.| Species | Parental gene accession | Retrocopies number | |
|---|---|---|---|
| Echinops telfairi | ENSETEG00000016095 | 1 retrocopy |
retro_etel_1911 ,
|
| Loxodonta africana | ENSLAFG00000000221 | 1 retrocopy | |
| Rattus norvegicus | ENSRNOG00000048151 | 1 retrocopy |