RetrogeneDB ID: | retro_psin_50 | ||
Retrocopy location | Organism: | Chinese softshell turtle (Pelodiscus sinensis) | |
| Coordinates: | JH208874.1:16730..17270(+) | ||
| Located in intron of: | ENSPSIG00000009494 | ||
Retrocopy information | Ensembl ID: | None | |
| Aliases: | None | ||
| Status: | NOVEL | ||
Parental gene information | Parental gene summary: | ||
| Parental gene symbol: | C9orf171 | ||
| Ensembl ID: | ENSPSIG00000006088 | ||
| Aliases: | None | ||
| Description: | chromosome 9 open reading frame 171 [Source:HGNC Symbol;Acc:33776] |
Retrocopy-Parental alignment summary:
>retro_psin_50
GCTGAGTTAGGAAAGATTCGCCCCAGATGCACACAGTTGCCTGGATCTGATTTTGTGTATGGACTCACCTATCGTAGAGC
TGATGGGGGAGTTCCTGAAGCCATAGGCCACTGGAACACCATAAAACGCATTATCAAGGCCCCAAAGCATCTGCCGCGTA
ATTTTATTGCCATGAACCGTGGAGCAGTCATAGCTGGTCTTGTCACAGCCAAAGAACACTACCGGTACCGCCAAACCCAC
GACATCCACTGTCCAGAAGATGACGAGCGTCACTTTAAAAGGGACCCACCACGCCTCCCTGATGCCATGAGCTATGGAAT
GCCAGCTCGCCCATCCACCCCTATCAGAGATGTTCTCCAGCACAAATACAAGGATCTTTGGATGGAGGCACAGAGAACAG
CGACTCAGGATCATCATAAGGCAAAACAGAAAATCGTGCAGCCAGGGAAGATATACGAAACACATTCCACTATGCTGAAG
AAATACAAACAGCCTATGAAGCTAGATCCGCTTTGGCATTTGCCCCACTTTGAGAAAGTG
ORF - retro_psin_50 Open Reading Frame is conserved.
Retrocopy - Parental Gene Alignment summary:
| Percent Identity: | 54.44 % |
| Parental protein coverage: | 75.0 % |
| Number of stop codons detected: | 0 |
| Number of frameshifts detected: | 0 |
Retrocopy - Parental Gene Alignment:
| Parental | AELGKPRRSCYTLPGYDFAYGLYLHGDDGGVPEAIGHWHSMKPKPPSPREMQRDYKAMNRGALKAGYVTA |
| AELGK.R..C..LPG.DF.YGL.....DGGVPEAIGHW...K.....P....R...AMNRGA..AG.VTA | |
| Retrocopy | AELGKIRPRCTQLPGSDFVYGLTYRRADGGVPEAIGHWNTIKRIIKAPKHLPRNFIAMNRGAVIAGLVTA |
| Parental | REFNLYRQWKDIRCNEDDESRFKRAPPKVPPDMTYGMLARPSTPFFDLLQHRYKEVWMEQQRAIVVAQQV |
| .E...YRQ..DI.C.EDDE..FKR.PP..P..M.YGM.ARPSTP..D.LQH.YK..WME.QR........ | |
| Retrocopy | KEHYRYRQTHDIHCPEDDERHFKRDPPRLPDAMSYGMPARPSTPIRDVLQHKYKDLWMEAQRTATQDHHK |
| Parental | DKKKVTAKRKVYETRTSLLRKQPPPVKLDSLWHMPHFQKV |
| .K.K.....K.YET....L.K...P.KLD.LWH.PHF.KV | |
| Retrocopy | AKQKIVQPGKIYETHSTMLKKYKQPMKLDPLWHLPHFEKV |
Legend:
| * | Stop codon |
| > | Forward frameshift by one nucleotide |
| < | Reverse frameshift by one nucleotide |
Pelodiscus sinensis was not studied using RNA-Seq expression data.
Pelodiscus sinensis was not studied using ChIP-Seq data.
No EST(s) were mapped for retro_psin_50 retrocopy.
Pelodiscus sinensis was not studied using FANTOM5 data.
retro_psin_50 was not experimentally validated.
Retrocopy orthology:
Pelodiscus sinensis 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 | |
|---|---|---|---|
| Pelodiscus sinensis | ENSPSIG00000006088 | 1 retrocopy |
retro_psin_50 ,
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