RetrogeneDB ID: | retro_btau_1429 | ||
Retrocopy location | Organism: | Cow (Bos taurus) | |
| Coordinates: | 5:63238919..63239669(-) | ||
| Located in intron of: | ENSBTAG00000030994 | ||
Retrocopy information | Ensembl ID: | ENSBTAG00000025812 | |
| Aliases: | None | ||
| Status: | KNOWN_PSEUDOGENE | ||
Parental gene information | Parental gene summary: | ||
| Parental gene symbol: | CD38 | ||
| Ensembl ID: | ENSBTAG00000013569 | ||
| Aliases: | None | ||
| Description: | ADP-ribosyl cyclase 1 [Source:RefSeq peptide;Acc:NP_786992] |
Retrocopy-Parental alignment summary:
>retro_btau_1429
ATCGGAATCTACAAGTGGCACTACTCCGGGCTCAACAGGTGGCACGGGGCAGGCAGCACCGCTGATTTTCAGAAAATCAT
CCAGGAGCGATGCGACACCTACACCCAGACGATCCGGCCGGGTTCCAGAAGCAGAAACTGCCAAGCGATCAGGCAGGCAT
TCATGAGTACCTTCATTTCCAAGGATCCCTGCAAAGCGACAAAGGAAGACTACAACTCCCTGATCAACCTGGCACCTCCC
ACTGTGCCTTGTGGCCAGCAAGTCTTCTGGAGCAAAACGAAGGAGCTGGCTCATGAATACGTGAAAAGGCAGCGCCTGAT
GACTCTGGAGGACACGCTGCTGGGTTACCTTGCGGATGGCCTCAGCTGGTGTGGAGAGCCAGGCTCTTCTGATTTGAACA
TTTGGTCTTGTCCAGACTGGAGGAAAGACTGCAGAACCAACTATCTTTCTGTATTCTGGGAAGTGCTGTCTGAAAGGTTT
GCAGAAAGTGCCTGTAGTACAGTCCGGGTGGTGCTCAATGGATCGTTGGAGAATGCCTTTGATAGCATGAGCATATTTGG
ACGAGTGGAAGCCCCTAACTTGAGGCCACAGGTTGAACTAGAGGCTTGGCTGGTACATGACACTGGAAAACCTCCCAGTG
ACTCATGCTCTGGCTCCTCTATAAGGAAACTGAAGTCCATCTTAGATGGAAGAAATGTCAAATTTAGATGCATGGATAAT
CTCAGCCGTGACCAGTTTCTTCAAAGATCC
ORF - retro_btau_1429 Open Reading Frame is conserved.
Retrocopy - Parental Gene Alignment summary:
| Percent Identity: | 98.0 % |
| Parental protein coverage: | 89.93 % |
| Number of stop codons detected: | 0 |
| Number of frameshifts detected: | 0 |
Retrocopy - Parental Gene Alignment:
| Parental | IGIYKWHYSGLNRWHGAGSTADFQKIIQERCDTYTQTIRPGSRSRNCQAIRQAFMSAFISKDPCKATKED |
| IGIYKWHYSGLNRWHGAGSTADFQKIIQERCDTYTQTIRPGSRSRNCQAIRQAFMS.FISKDPCKATKED | |
| Retrocopy | IGIYKWHYSGLNRWHGAGSTADFQKIIQERCDTYTQTIRPGSRSRNCQAIRQAFMSTFISKDPCKATKED |
| Parental | YNSLINLAPPTVPCGQQVFWSKTKELAHEYAKRRRLMTLEDTLLGYLADGLRWCGEPGSSDLNIWSCPDW |
| YNSLINLAPPTVPCGQQVFWSKTKELAHEY.KR.RLMTLEDTLLGYLADGL.WCGEPGSSDLNIWSCPDW | |
| Retrocopy | YNSLINLAPPTVPCGQQVFWSKTKELAHEYVKRQRLMTLEDTLLGYLADGLSWCGEPGSSDLNIWSCPDW |
| Parental | RKDCRTNYLSVFWEVLSERFAESACNTVRVVLNGSLENAFDSMSIFGRVEAPNLRPQVELEAWLVHDTGK |
| RKDCRTNYLSVFWEVLSERFAESAC.TVRVVLNGSLENAFDSMSIFGRVEAPNLRPQVELEAWLVHDTGK | |
| Retrocopy | RKDCRTNYLSVFWEVLSERFAESACSTVRVVLNGSLENAFDSMSIFGRVEAPNLRPQVELEAWLVHDTGK |
| Parental | PPSDSCSGSSIRKLKSILDGRNVKFRCMDNLSRDQFLQRS |
| PPSDSCSGSSIRKLKSILDGRNVKFRCMDNLSRDQFLQRS | |
| Retrocopy | PPSDSCSGSSIRKLKSILDGRNVKFRCMDNLSRDQFLQRS |
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 .07 RPM | 5 .84 RPM |
| ERP005899_muscle | 0 .16 RPM | 10 .66 RPM |
| SRP017611_brain | 0 .41 RPM | 26 .13 RPM |
| SRP017611_kidney | 0 .12 RPM | 2 .55 RPM |
| SRP017611_liver | 0 .08 RPM | 1 .28 RPM |
| SRP030211_testis | 0 .05 RPM | 0 .41 RPM |
Bos taurus was not studied using ChIP-Seq data.
No EST(s) were mapped for retro_btau_1429 retrocopy.
Bos taurus was not studied using FANTOM5 data.
retro_btau_1429 was not experimentally validated.
Retrocopy orthology:
Retrocopy retro_btau_1429 has 0 orthologous retrocopies within eutheria group .Parental genes homology:
Parental genes homology involve 1 parental gene, and 1 retrocopy.| Species | Parental gene accession | Retrocopies number | |
|---|---|---|---|
| Bos taurus | ENSBTAG00000013569 | 1 retrocopy |
retro_btau_1429 ,
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