RetrogeneDB ID: | retro_btau_907 | ||
Retrocopy location | Organism: | Cow (Bos taurus) | |
| Coordinates: | 20:40039773..40040121(+) | ||
| Located in intron of: | ENSBTAG00000012558 | ||
Retrocopy information | Ensembl ID: | None | |
| Aliases: | None | ||
| Status: | NOVEL | ||
Parental gene information | Parental gene summary: | ||
| Parental gene symbol: | DYNLT3 | ||
| Ensembl ID: | ENSBTAG00000038156 | ||
| Aliases: | None | ||
| Description: | dynein light chain Tctex-type 3 [Source:RefSeq peptide;Acc:NP_001094690] |
Retrocopy-Parental alignment summary:
>retro_btau_907
ATGGAGGAGTACCATCGCCCCTGTGACGAGGTTGGCTTCAATGCTGATGAAGCCCACAATATCGTTCAAGAGTGTATAGA
TGGGGTCTTGGGAGGTGAAGATTATAATCAGAACAATATCGACCAATGGACTGCAAACATAGTGGAACAATCCCTAGCAC
ATCTGGTTAAGTTGGGAAAAGCTCATAAGTATATTGTGACCTGCGCAGTGGTCCAGAGGAGTCCATATGGCTTTCACACA
GCCAGCTCATGTTTTTGGGACACTACATCTGATGGAACCTGCACTGTAAGATGGGAGAACCGAACCATGAACTGTATCGT
CAACGTTTTTGCCATTGCTATTGTCCTG
ORF - retro_btau_907 Open Reading Frame is conserved.
Retrocopy - Parental Gene Alignment summary:
| Percent Identity: | 96.55 % |
| Parental protein coverage: | 100.0 % |
| Number of stop codons detected: | 0 |
| Number of frameshifts detected: | 0 |
Retrocopy - Parental Gene Alignment:
| Parental | MEEYHRPCDEVGFNADEAHNIVKECIDGVLGGEDYNQNNINQWTASIVEQSLAHLVKLGKAYKYIVTCAV |
| MEEYHRPCDEVGFNADEAHNIV.ECIDGVLGGEDYNQNNI.QWTA.IVEQSLAHLVKLGKA.KYIVTCAV | |
| Retrocopy | MEEYHRPCDEVGFNADEAHNIVQECIDGVLGGEDYNQNNIDQWTANIVEQSLAHLVKLGKAHKYIVTCAV |
| Parental | VQRSPYGFHTASSCFWDTTSDGTCTVRWENRTMNCIVNVFAIAIVL |
| VQRSPYGFHTASSCFWDTTSDGTCTVRWENRTMNCIVNVFAIAIVL | |
| Retrocopy | VQRSPYGFHTASSCFWDTTSDGTCTVRWENRTMNCIVNVFAIAIVL |
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 | 78 .15 RPM |
| ERP005899_muscle | 0 .05 RPM | 49 .73 RPM |
| SRP017611_brain | 0 .05 RPM | 37 .05 RPM |
| SRP017611_kidney | 0 .00 RPM | 114 .22 RPM |
| SRP017611_liver | 0 .00 RPM | 22 .05 RPM |
| SRP030211_testis | 0 .04 RPM | 18 .68 RPM |
Bos taurus was not studied using ChIP-Seq data.
No EST(s) were mapped for retro_btau_907 retrocopy.
Bos taurus was not studied using FANTOM5 data.
retro_btau_907 was not experimentally validated.