RetrogeneDB ID: | retro_trub_43 | ||
Retrocopylocation | Organism: | Fugu rubripes (Takifugu rubripes) | |
| Coordinates: | scaffold_6206:2232..2679(-) | ||
| Located in intron of: | None | ||
Retrocopyinformation | Ensembl ID: | ENSTRUG00000002255 | |
| Aliases: | None | ||
| Status: | KNOWN_PSEUDOGENE | ||
Parental geneinformation | Parental gene summary: | ||
| Parental gene symbol: | HOXB6A | ||
| Ensembl ID: | ENSTRUG00000009487 | ||
| Aliases: | None | ||
| Description: | Homeobox protein Hox-B8a [Source:UniProtKB/Swiss-Prot;Acc:Q1KKY1] |
Retrocopy-Parental alignment summary:
>retro_trub_43
ATGTCCATTTCTGGGACTTTGAGCAACTATTACGTGGACTCCATTATAAGTCACGAGAGTGACGACCTCACAGCGTCCAC
TCGGTTTCCCAGCGTTCAGTATTCCGGCTCGAGCTCCGCCGCGGCCGCTAACGGAAGGCAGCCCGGGGGCGCGGTGCACG
CCGAGCATCCTCACCCGGAGCCGTACCCGTCCTGCAGCTTCCAGCCGAAGCCTCCGGTCTTCTCGTCTTCGTGGAGCCCC
TTCAGTCCGCACCACGGTGCCAGCAGCCTGCCGGCCGTCTACCACCCGTATCTCCCCGCGCAGCACGTCCCCTCCGCGGA
CACACGCTACCTCCGCTCATGGCTGGACTGCGCGCCGCGCGGCTCCGAGTCCGTCCAGGGCCACACGGGTCAGGTCAAGC
TGGAACCGCAGCTCGGTCATCTCGGAGGCGAGATTCCAGCCAAGCTC
ATGTCCATTTCTGGGACTTTGAGCAACTATTACGTGGACTCCATTATAAGTCACGAGAGTGACGACCTCACAGCGTCCAC
TCGGTTTCCCAGCGTTCAGTATTCCGGCTCGAGCTCCGCCGCGGCCGCTAACGGAAGGCAGCCCGGGGGCGCGGTGCACG
CCGAGCATCCTCACCCGGAGCCGTACCCGTCCTGCAGCTTCCAGCCGAAGCCTCCGGTCTTCTCGTCTTCGTGGAGCCCC
TTCAGTCCGCACCACGGTGCCAGCAGCCTGCCGGCCGTCTACCACCCGTATCTCCCCGCGCAGCACGTCCCCTCCGCGGA
CACACGCTACCTCCGCTCATGGCTGGACTGCGCGCCGCGCGGCTCCGAGTCCGTCCAGGGCCACACGGGTCAGGTCAAGC
TGGAACCGCAGCTCGGTCATCTCGGAGGCGAGATTCCAGCCAAGCTC
ORF - retro_trub_43 Open Reading Frame is conserved.
Retrocopy - Parental Gene Alignment summary:
| Percent Identity: | 59.33 % |
| Parental protein coverage: | 57.69 % |
| Number of stop codons detected: | 0 |
| Number of frameshifts detected | 0 |
Retrocopy - Parental Gene Alignment:
| Parental | MSISGTLSNYYVDSIISHESDDLTASTRFPSVQYSGSSSAAAANGRQPGGAVHAEHPHPEPYPSCSFQPI |
| MSISGTLSNYYVDSIISHESDDLTASTRFPSVQYSGSSSAAAANGRQPGGAVHAEHPHPEPYPSCSFQP. | |
| Retrocopy | MSISGTLSNYYVDSIISHESDDLTASTRFPSVQYSGSSSAAAANGRQPGGAVHAEHPHPEPYPSCSFQP- |
| Parental | RGPWFHFDIDTHSVRASISLFPLQKDPSVEVQPVAEKDTFPIRISVYCSGLSLDVAAFHCVKVSVQPQIL |
| ..P.F.......S.....S..P....P....Q.V...DT...R....C..........H...V...PQ.. | |
| Retrocopy | KPPVFSSSWSPFSPHHGASSLPAVYHPYLPAQHVPSADTRYLRSWLDCAPRGSESVQGHTGQVKLEPQLG |
| Parental | LIGKIVPVKL |
| ..G...P.KL | |
| Retrocopy | HLGGEIPAKL |
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_43 retrocopy.
Takifugu rubripes was not studied using FANTOM5 data.
retro_trub_43 was not experimentally validated.
Retrocopy orthology:
Retrocopy retro_trub_43 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 | ENSTRUG00000009487 | 1 retrocopy |
retro_trub_43 ,
|