RetrogeneDB ID: | retro_sara_684 | ||
Retrocopy location | Organism: | Shrew (Sorex araneus) | |
| Coordinates: | scaffold_258280:1901..2645(+) | ||
| Located in intron of: | None | ||
Retrocopy information | Ensembl ID: | ENSSARG00000003923 | |
| Aliases: | None | ||
| Status: | KNOWN_PSEUDOGENE | ||
Parental gene information | Parental gene summary: | ||
| Parental gene symbol: | CLMP | ||
| Ensembl ID: | ENSSARG00000012393 | ||
| Aliases: | None | ||
| Description: | CXADR-like membrane protein [Source:HGNC Symbol;Acc:24039] |
Retrocopy-Parental alignment summary:
>retro_sara_684
GTGATCACTTACTCCAGCCGCCATGTCTACAATAACCTGACCGAGGAACAGAAGGGCCGAGTGGCCTTTGCTTCCAATTT
CCTGGCAGGAGATGCCTCCCTGCAGATCGAACCCCTGAAGCCCAGTGATGAGGGCCGCTACACCTGCAAGGTGAAGAACT
CGGGGCGCTATGTGTGGAGCCACGTCATCTTAAAAGTCTTAGTGAGACCATCCAAGCCCAAATGTGAGCTGGAAGGAGAG
CTGACGGAAGGCAGTGACCTCACCCTGCAGTGCGAGTCATCCTCAGGCACCAAGCCCATCGTGTATAACTGGCAGCGGGT
CCGAGAGAAGGAGGGAGAAGATGAACATCTGCCTCCCAACTCTCGGATTGACTACAACCACCCAGGGCGCGTCCTGCTGC
AGAATCTCACCATGTCCTCCTCTGGCCTGTACCAGTGCACAGCGGACAACGAGGCGGGCAAGGAGAGCTGCGTGGTGAGA
GTGACTGTGCAGTATGTGCAAAGCATAGGCATGTTGGCAGGGGCAGTTACCGGCATGGTGGCTGGCGCGATGCTGATTGT
CTTCTTAGTGTGGCTGCTGATCCGAAGGAAAGACAAAGAGAGATACGAGGAAGAGGAGAGACCCAATGAGATCCGAGAGG
ATGCAGAAGCCCCCAAAGCACGCCTGGTGAAACCCAGCTCCTCTTCCTCAGGCTCTCAGAGCTCCCGCTCGGGCTCGTCC
TCCACACGCTCCACTGCAAATAGT
ORF - retro_sara_684 Open Reading Frame is conserved.
Retrocopy - Parental Gene Alignment summary:
| Percent Identity: | 99.19 % |
| Parental protein coverage: | 68.32 % |
| Number of stop codons detected: | 0 |
| Number of frameshifts detected: | 0 |
Retrocopy - Parental Gene Alignment:
| Parental | VITYSSRHVYNNLTEEQKGRVAFASNFLAGDASLQIEPLKPSDEGRYTCKVKNSGRYVWSHVILKVLVRP |
| VITYSSRHVYNNLTEEQKGRVAFASNFLAGDASLQIEPLKPSDEGRYTCKVKNSGRYVWSHVILKVLVRP | |
| Retrocopy | VITYSSRHVYNNLTEEQKGRVAFASNFLAGDASLQIEPLKPSDEGRYTCKVKNSGRYVWSHVILKVLVRP |
| Parental | SKPKCELEGELTEGSDLTLQCESSSGTKPIVYNWQRVREKEGEDEHLPPKSRIDYNHPGRVLLQNLTMSS |
| SKPKCELEGELTEGSDLTLQCESSSGTKPIVYNWQRVREKEGEDEHLPP.SRIDYNHPGRVLLQNLTMSS | |
| Retrocopy | SKPKCELEGELTEGSDLTLQCESSSGTKPIVYNWQRVREKEGEDEHLPPNSRIDYNHPGRVLLQNLTMSS |
| Parental | SGLYQCTAGNEAGKESCVVRVTVQYVQSIGMLAGAVTGMVAGAMLIVFLVWLLIRRKDKERYEEEERPNE |
| SGLYQCTA.NEAGKESCVVRVTVQYVQSIGMLAGAVTGMVAGAMLIVFLVWLLIRRKDKERYEEEERPNE | |
| Retrocopy | SGLYQCTADNEAGKESCVVRVTVQYVQSIGMLAGAVTGMVAGAMLIVFLVWLLIRRKDKERYEEEERPNE |
| Parental | IREDAEAPKARLVKPSSSSSGSQSSRSGSSSTRSTANS |
| IREDAEAPKARLVKPSSSSSGSQSSRSGSSSTRSTANS | |
| Retrocopy | IREDAEAPKARLVKPSSSSSGSQSSRSGSSSTRSTANS |
Legend:
| * | Stop codon |
| > | Forward frameshift by one nucleotide |
| < | Reverse frameshift by one nucleotide |
Sorex araneus was not studied using RNA-Seq expression data.
Sorex araneus was not studied using ChIP-Seq data.
Sorex araneus was not studied using EST data.
Sorex araneus was not studied using FANTOM5 data.
retro_sara_684 was not experimentally validated.
Retrocopy orthology:
Sorex araneus does not belong to any of the species groups (eutheria, teleost or neognath), studied for retrocopy-based homology. For more information about studied groups, please go to help section.Parental genes homology:
Parental genes homology involve 1 parental gene, and 1 retrocopy.| Species | Parental gene accession | Retrocopies number | |
|---|---|---|---|
| Sorex araneus | ENSSARG00000012393 | 1 retrocopy |
retro_sara_684 ,
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