RetrogeneDB ID: | retro_mmus_2308 | ||
Retrocopy location | Organism: | Mouse (Mus musculus) | |
| Coordinates: | 3:138503843..138504203(-) | ||
| Located in intron of: | None | ||
Retrocopy information | Ensembl ID: | None | |
| Aliases: | None | ||
| Status: | NOVEL | ||
Parental gene information | Parental gene summary: | ||
| Parental gene symbol: | Cib4 | ||
| Ensembl ID: | ENSMUSG00000053194 | ||
| Aliases: | Cib4, 1700041E20Rik | ||
| Description: | calcium and integrin binding family member 4 [Source:MGI Symbol;Acc:MGI:1920509] |
Retrocopy-Parental alignment summary:
>retro_mmus_2308
TTCAGAGACCGCATCTGCAGGATATTTTCCCACGACAACGTGCTCTCCTTTGAAGACGTGCTGGGCATGGCATCTCTATT
CAGTGAGCAGGCCTGCCCCAGCCTGAAGATTGAGTATGCCTTTCCTATCTATGATTTTAACGAGAATGGTGTTGTTGATG
AGGAGGACCTCCAGAAGATAGTGCTAGGACTACTGAAGAGTGATGACGTGTCTGAGGACCTGCTGATGGACGTCATGCGC
CACGTCCTGGGTGAGTCAGACCTGGACAATGGCGGTATGCTTTCCCTCTCCGAGTTTGAACACGCCTTGGCCAAATCTCC
AGATTTCACGAACTCCTTTTGGATTCACTTCTGGGGCTGC
ORF - retro_mmus_2308 Open Reading Frame is conserved.
Retrocopy - Parental Gene Alignment summary:
| Percent Identity: | 85.0 % |
| Parental protein coverage: | 64.86 % |
| Number of stop codons detected: | 0 |
| Number of frameshifts detected: | 0 |
Retrocopy - Parental Gene Alignment:
| Parental | FRDRICRVFSHDNVFSFEDVLGMASVFSEQACPSLKIEYAFRIYDFNENGFIDEEDLEEIVLRLLKSDDA |
| FRDRICR.FSHDNV.SFEDVLGMAS.FSEQACPSLKIEYAF.IYDFNENG..DEEDL..IVL.LLKSDD. | |
| Retrocopy | FRDRICRIFSHDNVLSFEDVLGMASLFSEQACPSLKIEYAFPIYDFNENGVVDEEDLQKIVLGLLKSDDV |
| Parental | SEDLLMDVMHHVLSESDLDNDSMLSFSEFEHAMAKSPDFMNSFRIHFWGC |
| SEDLLMDVM.HVL.ESDLDN..MLS.SEFEHA.AKSPDF.NSF.IHFWGC | |
| Retrocopy | SEDLLMDVMRHVLGESDLDNGGMLSLSEFEHALAKSPDFTNSFWIHFWGC |
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 |
|---|---|---|
| SRP007412_brain | 0 .00 RPM | 0 .00 RPM |
| SRP007412_cerebellum | 0 .00 RPM | 0 .04 RPM |
| SRP007412_heart | 0 .00 RPM | 0 .00 RPM |
| SRP007412_kidney | 0 .02 RPM | 0 .04 RPM |
| SRP007412_liver | 0 .00 RPM | 0 .00 RPM |
| SRP007412_testis | 0 .09 RPM | 25 .20 RPM |
RNA Polymerase II activity near the 5' end of retro_mmus_2308 was not detected
No EST(s) were mapped for retro_mmus_2308 retrocopy.
No TSS is located nearby retro_mmus_2308 retrocopy 5' end.
retro_mmus_2308 was not experimentally validated.
Retrocopy orthology:
Retrocopy retro_mmus_2308 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 | |
|---|---|---|---|
| Mus musculus | ENSMUSG00000053194 | 1 retrocopy |
retro_mmus_2308 ,
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