RetrogeneDB ID: | retro_etel_1523 | ||
Retrocopy location | Organism: | Lesser hedgehog tenrec (Echinops telfairi) | |
| Coordinates: | scaffold_276854:45272..46694(-) | ||
| Located in intron of: | None | ||
Retrocopy information | Ensembl ID: | None | |
| Aliases: | None | ||
| Status: | NOVEL | ||
Parental gene information | Parental gene summary: | ||
| Parental gene symbol: | GAREM | ||
| Ensembl ID: | ENSETEG00000015863 | ||
| Aliases: | None | ||
| Description: | GRB2 associated, regulator of MAPK1 [Source:HGNC Symbol;Acc:26136] |
Retrocopy-Parental alignment summary:
>retro_etel_1523
GAATGCATAGTAGGCCTGCAGGAGAACGACTACCTTCTGATTCATTCATGCCGTCAGTGGACGACCATCACTGCCCATAG
TTTGGAGGAGGGGCACTATGTCATTGGGCCTAAGATAGAGATTCTGGTACATTATACAGGACAATTTAAACTGCTGGAGC
AGGGCCGAGATATAAAGGAGCCAGTGCAATATTTTAACAGTGTAGAGGAGGTGGCTAAAGCATTTCCTGAACGCGTGTAC
ATCATGGAGGAAATAACATTCAATGTTAAGGTTGCTGCAGGAGAATGTAATGAAGACACGGAAGTTTACAACATCACCCT
CTGTACTGGGGACGAACTCAGGCTCATGGGCCAGGCGGAAATCCTCTATGTTTAGACTTTCAAGGAAAAATCTCCACTCA
ACAAGATCTTCAAAAAGATCGGGAACTCAATTCCATCAGCAACCTGGGTAAAGGCAAAATGCAGTGCCTCATTTGCATGA
ACCACCTGACCAAGGAGAGCAACAGCCTCCCATTCCAGTTCAAGGACCCATATAGCACTCGGAGTCCCCTGGAGCTTCAG
ATGCAAGAGAATGAGCACACTATCCGCAACATTGTGGAGAAAACCAGGCTCCATGTGAACATGATCATGCCGAGACCCCC
ACCGAGAAACGTGTATGACCTCCACTTCATCCGCAAGGGTCACTGCTACAAGACCAAGACCGTGGTGGTTTGCTGTGTGC
TGCGGAGCACCAAGATCTTCCCCATACACTTCCCTTTGCACTTTACTGTTCTGAGGTTTAGCCTCTCATAACACCTGGTG
AAGGGCAAGATATGGCCCGAAACCTTGACCCATCATTGTCTGGGCATCTGCGAAGAACAGTTCGACATTGATTAGTATTC
ACGGGCTGTCCATGATGTGAAGACGGACTGGAACGAGGACTGCAAGAGCCCCACGAAGGGCCAGTGCTCTGACCACAATC
ATGTGCCCAATTCCCTCAGCTATGCCCAGGAGGAGCTCACCCAGTCGTTCCACTGGCTCTCAGTCTGTGTGTATGACAAC
AATCTCCGTGGCAACAGTGAAGTGAACCTCCACGGCTGCAGAGACTTGGGGGGAGAGTGGGCCCCTTTCCCTAATGACAT
CCTTCCCTACCAGGACCATGGTGACAGTAGAGCAACCACCTTTTCCCAGAACCTAGTAAAGAATCCGCAGGTGTCCTCAG
CAAGCCAGAACTTCCTCATGAGGAGCTGTGACTGGATGACGGCAAGACCAGCCATGCACCTCTCACCCGATCCGTGAGCG
AGAAGAGCAGATGTGACCATTTCAGAAGTTTGTACGGTCCAAATATGGGACTTCTCTTCCCGTCCCTGGGACTCTGGGAG
CATCAATGAAGTCTTCAGATATCACCCTCCCTCAGCCTCCAGTGCCTCCCAAATCTAAAGCC
ORF - retro_etel_1523 Open Reading Frame is not conserved.
Retrocopy - Parental Gene Alignment summary:
| Percent Identity: | 82.02 % |
| Parental protein coverage: | 57.4 % |
| Number of stop codons detected: | 4 |
| Number of frameshifts detected: | 3 |
Retrocopy - Parental Gene Alignment:
| Parental | ECIEGLRENDYLLIHSCRQWTTITAHSLEEGHYVIGPKIEIPVHYAGQFKLLEQDRDIKEPVQYFNSVEE |
| ECI.GL.ENDYLLIHSCRQWTTITAHSLEEGHYVIGPKIEI.VHY.GQFKLLEQ.RDIKEPVQYFNSVEE | |
| Retrocopy | ECIVGLQENDYLLIHSCRQWTTITAHSLEEGHYVIGPKIEILVHYTGQFKLLEQGRDIKEPVQYFNSVEE |
| Parental | VAKAFPERVYVMEEITFNVKVASGECNEDTEVYNITLCTGDELTLMGQAEILYAKTFKEKSRLNTIFKKI |
| VAKAFPERVY.MEEITFNVKVA.GECNEDTEVYNITLCTGDEL.LMGQAEILY..TFKEKS.LN.IFKKI | |
| Retrocopy | VAKAFPERVYIMEEITFNVKVAAGECNEDTEVYNITLCTGDELRLMGQAEILYV*TFKEKSPLNKIFKKI |
| Parental | G-KLNSISKLGKGKMPCLICMNHRTNESISLPFQCKGRFSTRSPLELQMQEGEHTIRNIVEKTRLPVNVT |
| G..LNSIS.LGKGKM.CLICMNH.T.ES.SLPFQ.K...STRSPLELQMQE.EHTIRNIVEKTRL.VN.. | |
| Retrocopy | G<ELNSISNLGKGKMQCLICMNHLTKESNSLPFQFKDPYSTRSPLELQMQENEHTIRNIVEKTRLHVNMI |
| Parental | VPSPPPRNPYDLHFIREGHRYKFVNIQTKTVVVCCVLRSNKILPMHFPLHLTVPKFSLPEHLVKGEVWSE |
| .P.PPPRN.YDLHFIR.GH.YK........VV.C.VLRS.KI.P.HFPLH.TV..FSL..HLVKG..W.E | |
| Retrocopy | MPRPPPRNVYDLHFIRKGHCYKTKTV----VVCC-VLRSTKIFPIHFPLHFTVLRFSLS*HLVKGKIWPE |
| Parental | TLVHHWLGICQEQFDIDEYSRAVRDVKTDWNEDCKSPKKGRCSGHNHVPNSLSYARDELTQSFHRLSVCV |
| TL.HH.LGIC.EQFDID.YSRAV.DVKTDWNEDCKSP.KG.CS.HNHVPNSLSYA..ELTQSFH.LSVCV | |
| Retrocopy | TLTHHCLGICEEQFDID*YSRAVHDVKTDWNEDCKSPTKGQCSDHNHVPNSLSYAQEELTQSFHWLSVCV |
| Parental | YGNNLHGNSEVNLHGCRDLGGEWAPFPNDILPYQDHGDSG-SDYLFPEPSEESAGVLGKPELPYEELWLD |
| Y.NNL.GNSEVNLHGCRDLGGEWAPFPNDILPYQDHGDS..S..LFPEPS.ESAGVL.KPELP.EEL.LD | |
| Retrocopy | YDNNLRGNSEVNLHGCRDLGGEWAPFPNDILPYQDHGDSR<SNHLFPEPSKESAGVLSKPELPHEEL*LD |
| Parental | EGKTSHAPLTRSLSEKGRCDHFRS-SVRSKCGTSPLPAPGALGAPMKSSDVTLPPPPVPPKSEA |
| .GKTSHAPLTRS.SEK.RCDHFRS..VRSK.GTS.LP.PG.LGA.MKSSD.TLP.PPVPPKS.A | |
| Retrocopy | DGKTSHAPLTRSVSEKSRCDHFRS<FVRSKYGTS-LPVPGTLGASMKSSDITLPQPPVPPKSKA |
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_1523 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 | ENSETEG00000015863 | 1 retrocopy |
retro_etel_1523 ,
|