RetrogeneDB ID: | retro_btau_292 | ||
Retrocopy location | Organism: | Cow (Bos taurus) | |
| Coordinates: | 1:36685628..36685934(-) | ||
| Located in intron of: | None | ||
Retrocopy information | Ensembl ID: | None | |
| Aliases: | None | ||
| Status: | NOVEL | ||
Parental gene information | Parental gene summary: | ||
| Parental gene symbol: | FUNDC2 | ||
| Ensembl ID: | ENSBTAG00000016977 | ||
| Aliases: | FUNDC2, HCBP6 | ||
| Description: | FUN14 domain-containing protein 2 [Source:UniProtKB/Swiss-Prot;Acc:Q8MJN0] |
Retrocopy-Parental alignment summary:
>retro_btau_292
GAAGCCGCGCGGGTGTCATCGCGAGACGAGCTCGCCGAAATGGCCGCCGCCAGTCAAGGAAACTTTGAGGGAAAGTTTGA
GTCACTGGACCTTGCAGAACTTGCTAAAAAGCAGCCATGGTGGCGCACGCTCTTTGGGCAGGAATCTGGGCCTTCAGCCG
AAAAGTATAGTGTGGCAACCCAGCTGTTAATTGGAGGTGTCACTGGATGGTGCACGGGTTTCATATTCCAGAAGTTAGTT
TCCCTGGTTACCTGCTATAATGGCTGGTCTTTACTGGTTTATATTAAACATAGTAAAGCTATAAAG
ORF - retro_btau_292 Open Reading Frame is conserved.
Retrocopy - Parental Gene Alignment summary:
| Percent Identity: | 81.73 % |
| Parental protein coverage: | 54.74 % |
| Number of stop codons detected: | 0 |
| Number of frameshifts detected: | 0 |
Retrocopy - Parental Gene Alignment:
| Parental | EAARVSSRDELAEMAAASQGNFEGKFESLDLAELAKKQPWWRTLFGQESGPSAEKYSVATQLLIGGVTGW |
| EAARVSSRDELAEMAAASQGNFEGKFESLDLAELAKKQPWWRTLFGQESGPSAEKYSVATQLLIGGVTGW | |
| Retrocopy | EAARVSSRDELAEMAAASQGNFEGKFESLDLAELAKKQPWWRTLFGQESGPSAEKYSVATQLLIGGVTGW |
| Parental | CTGFIFQKVGKLAATAVGGGFFLLQLANHTGYIK |
| CTGFIFQK...L.......G..LL....H...IK | |
| Retrocopy | CTGFIFQKLVSLVTCY--NGWSLLVYIKHSKAIK |
Legend:
| * | Stop codon |
| > | Forward frameshift by one nucleotide |
| < | Reverse frameshift by one nucleotide |
(Hint: click retrocopy or parental gene accession number on the plot's legend, to show / hide expression level values)
Expression validation based on RNA-Seq data:
| Library | Retrocopy expression | Parental gene expression |
|---|---|---|
| ERP005899_liver | 0 .00 RPM | 6 .20 RPM |
| ERP005899_muscle | 0 .05 RPM | 35 .74 RPM |
| SRP017611_brain | 0 .00 RPM | 39 .65 RPM |
| SRP017611_kidney | 0 .00 RPM | 40 .54 RPM |
| SRP017611_liver | 0 .00 RPM | 14 .20 RPM |
| SRP030211_testis | 0 .02 RPM | 72 .73 RPM |
Bos taurus was not studied using ChIP-Seq data.
No EST(s) were mapped for retro_btau_292 retrocopy.
Bos taurus was not studied using FANTOM5 data.
retro_btau_292 was not experimentally validated.