RetrogeneDB ID: | retro_trub_3 | ||
Retrocopy location | Organism: | Fugu rubripes (Takifugu rubripes) | |
| Coordinates: | scaffold_99:718888..719893(+) | ||
| Located in intron of: | None | ||
Retrocopy information | Ensembl ID: | ENSTRUG00000008847 | |
| Aliases: | None | ||
| Status: | KNOWN_PROTEIN_CODING | ||
Parental gene information | Parental gene summary: | ||
| Parental gene symbol: | ccdc113 (2 of 2) | ||
| Ensembl ID: | ENSTRUG00000007278 | ||
| Aliases: | None | ||
| Description: | coiled-coil domain containing 113 [Source:ZFIN;Acc:ZDB-GENE-041010-163] |
Retrocopy-Parental alignment summary:
>retro_trub_3
ACATTCAGGAAAATGTCAGAGCCACAATTGGTATCATCAGGTGACTCAACAGACGATGAAAACCAAAGGATTCAGCTCCA
CCAACAAGTGGAAGAACTGAGAGGTTTTAATGAAGCACTCTTGGCAGAGAATGAGATGTTTGAGCAGTTCATCATCCACA
GTGATAAACAGAACCAGAAGTTCAGTGTAGACCCCCAACGGAACGATAAACTTAAAAAGGGTTCTAGCATCCGCTCAATA
TCCCAGTCTCGTGAGCTGACCATTGAGCAAAAACTTTATGTATCAGAGACGGCAATAAAAGAGGCACAAAAAGATCTGGA
GCAACTCAGAGAAAGAAATATGAAAACCTGGGATCACTATGTGTCCACCCTGGAAGAAGCAAAGTTGTGTCTTGAAGAAA
TCAGGAAAGGGAAGAAGGAATTTGAGCAAAAACTGCTCAGACGCGCGAATGAAAAAAGGCTGGAGATGAAAGAACCTGAG
AAGTTGCTCCTGTACATTGTCGACAAGTCCAAGACCACTAAAATTGAAATGTTGTCTATAAAGAACAGTGTATTAAAAGG
CCTCAAGAATAAGCTTAAGCATGATTTTCAACAGAAAAAAGAAAATCTTAAAATCTATTATGAAAAATCTGTCCTTTTCC
AAGGGTGGAGTAAGCAGAAAAGAGAAAAGCCCCTGGGGGAACTTCTAGGTGACTATGTAAAAACGCAGCATGTCATCACT
GTACATAAAGAGAAACAGAAGGGTGTGACAGCCGAACACACAAAGGTTTGCAAAAGGATTAAAAAGAGGGCGGAATTTCT
GGTAAAAACTGAGAATGACATTCAACAGGCGGAACAAGGACGTTTGAAGGCAGGAAACCTGAACCGACGCCTGCGCTCTC
AGATGGAAAATTATGAGGTCCCTGAGGTAAAGGAGTACTTAGAAGCCAGGAGGAGATACAAGAAGCTGCAGCAGGATATT
CGAATTTGGGAGAGGAAGGTCAAGATTGCTCAGATGATTTTATAG
ORF - retro_trub_3 Open Reading Frame is conserved.
Retrocopy - Parental Gene Alignment summary:
| Percent Identity: | 51.16 % |
| Parental protein coverage: | 51.2 % |
| Number of stop codons detected: | 0 |
| Number of frameshifts detected: | 0 |
Retrocopy - Parental Gene Alignment:
| Parental | QKDGRVSTACRRHQLTLEEKLHVSREEIAEAQKDLENLRETNEGTCDAYKASLKEAGLHLEEIRKAKNEF |
| .K............LT.E.KL.VS...I.EAQKDLE.LRE.N..T.D.Y...L.EA.L.LEEIRK.K.EF | |
| Retrocopy | KKGSSIRSISQSRELTIEQKLYVSETAIKEAQKDLEQLRERNMKTWDHYVSTLEEAKLCLEEIRKGKKEF |
| Parental | EHKMQERMNDKRLEMKEPEKCLQYLEDKAKAAQVEILRLKNGALKVIENKLKHNFHQKREKGKTSYEE-- |
| E.K...R.N.KRLEMKEPEK.L.Y..DK.K....E.L..KN..LK...NKLKH.F.QK.E..K..YE... | |
| Retrocopy | EQKLLRRANEKRLEMKEPEKLLLYIVDKSKTTKIEMLSIKNSVLKGLKNKLKHDFQQKKENLKIYYEKSV |
| Parental | IFQDWGEHKSEKSLDELRANSLEVQRVLTVHK |
| .FQ.W...K.EK.L.EL.......Q.V.TVHK | |
| Retrocopy | LFQGWSKQKREKPLGELLGDYVKTQHVITVHK |
Legend:
| * | Stop codon |
| > | Forward frameshift by one nucleotide |
| < | Reverse frameshift by one nucleotide |
Takifugu rubripes was not studied using RNA-Seq expression data.
Takifugu rubripes was not studied using ChIP-Seq data.
No EST(s) were mapped for retro_trub_3 retrocopy.
Takifugu rubripes was not studied using FANTOM5 data.
retro_trub_3 was not experimentally validated.
Retrocopy orthology:
Retrocopy retro_trub_3 has 0 orthologous retrocopies within teleost group .Parental genes homology:
Parental genes homology involve 1 parental gene, and 1 retrocopy.| Species | Parental gene accession | Retrocopies number | |
|---|---|---|---|
| Takifugu rubripes | ENSTRUG00000007278 | 1 retrocopy |
retro_trub_3 ,
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