RetrogeneDB ID: | retro_etel_1908 | ||
Retrocopy location | Organism: | Lesser hedgehog tenrec (Echinops telfairi) | |
| Coordinates: | scaffold_312883:170621..171194(-) | ||
| Located in intron of: | None | ||
Retrocopy information | Ensembl ID: | None | |
| Aliases: | None | ||
| Status: | NOVEL | ||
Parental gene information | Parental gene summary: | ||
| Parental gene symbol: | SNRNP48 | ||
| Ensembl ID: | ENSETEG00000011102 | ||
| Aliases: | None | ||
| Description: | small nuclear ribonucleoprotein 48kDa (U11/U12) [Source:HGNC Symbol;Acc:21368] |
Retrocopy-Parental alignment summary:
>retro_etel_1908
CTTTATTCTTCACTGTCTTTTGAAGTACCTCTGAAGCATAAATGGTGCTTTTGTTGTCTAATTCAAGCTGATCGCCAAAA
ATCTTTGATTTTGTAGTTGAAGAAACAAAAAAGGAGAAGCACTCAAATGCTCAAATCACTGAAAATGACAGCGATCTTTT
TGCAGCCTTGGCAGCTAAAGTCAATCAAGTAAATAGCTGAAAATGTCCAAAATCATACCTTGACATTCTGGCAGAAGTGA
TTGATTGTAAAAGAAGATGCCAGTCCTAAGAGTTAAGAATGCTCACATAACCAAGAGGTCATACACTGCGCTGGTCCGGG
ATGCGATACATGTGCACATGGAAGAACTCTGCAATCAGGGGCAAGATGAGCAGGATGAAGTAGATTACAGTGCTCTACAG
GAGGGAGACAGGGGATCAGCTTCTGTAGATTCATGGCAGTCTGGGGGAAGCTATTTGGATGCCGAGTGTTCACAGCAGAG
AAGGGATCAGCGTAGGAGCCAGCACAAATGAAAGAAAGTAAAGATAGGGATAGAAACAACCTCAGAAGAAGGAAATAGAG
GGAAGAGAAATAT
ORF - retro_etel_1908 Open Reading Frame is not conserved.
Retrocopy - Parental Gene Alignment summary:
| Percent Identity: | 70.26 % |
| Parental protein coverage: | 56.42 % |
| Number of stop codons detected: | 3 |
| Number of frameshifts detected: | 3 |
Retrocopy - Parental Gene Alignment:
| Parental | IYSSVPVEVPLNHKRFVCDLTQADRRA-IYDFVVEETKK-KQSSSQITENDSDLFVDLAAKVNQDNSRKC |
| .YSS...EVPL.HK...C.L.QADR...I.DFVVEETKK.K.S..QITENDSDLF..LAAKVNQ.NS.KC | |
| Retrocopy | LYSSLSFEVPLKHKWCFCCLIQADRQK<IFDFVVEETKKEKHSNAQITENDSDLFAALAAKVNQVNS*KC |
| Parental | PKSYLEILAEVRDYKRRRQS-YRAKNVHITKKSYTEVIRDVINVHMEELSNQWQDEQEKAEDGAMKEGDR |
| PKSYL.ILAEV.D.KRR.QS..R.KN.HITK.SYT...RD.I.VHMEEL.NQ.QDEQ......A..EGDR | |
| Retrocopy | PKSYLDILAEVIDCKRRCQS<LRVKNAHITKRSYTALVRDAIHVHMEELCNQGQDEQDEVDYSALQEGDR |
| Parental | GSASVDSWQSGGSYLDAECSQQRRDQRRSQHKKSK-ERDR--NNLRRRKRDGERH |
| GSASVDSWQSGGSYLDAECSQQRRDQRRSQHK..K...DR..NNLRRRK...E.. | |
| Retrocopy | GSASVDSWQSGGSYLDAECSQQRRDQRRSQHK*KK<SKDRDRNNLRRRK*REEKY |
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_1908 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 | ENSETEG00000011102 | 1 retrocopy |
retro_etel_1908 ,
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