RetrogeneDB ID: | retro_cfam_447 | ||
Retrocopy location | Organism: | Dog (Canis familiaris) | |
| Coordinates: | 11:18699901..18700218(-) | ||
| Located in intron of: | None | ||
Retrocopy information | Ensembl ID: | None | |
| Aliases: | None | ||
| Status: | NOVEL | ||
Parental gene information | Parental gene summary: | ||
| Parental gene symbol: | None | ||
| Ensembl ID: | ENSCAFG00000019677 | ||
| Aliases: | None | ||
| Description: | Nucleoside diphosphate kinase [Source:UniProtKB/TrEMBL;Acc:F1PEZ2] |
Retrocopy-Parental alignment summary:
>retro_cfam_447
GCTGAGCACTACCATGACCTGCAGACGAAGTCATTCTACCCAGCCCTCCTCAGCTACATGAACTCCGGCCCCGTGGTGGC
CATGATCTGGGAAGACTCCAACGTGGGTGCTCCTCAAAGGCCATGATGGGACACACAGACTCAGCTGAGGCTGCCTCTGG
CACCATCAGGGGGTATTTCCAAGTTCACATCAGCAGGAACATCATCTACTCCAACGACTACATGGAGGGGGCCCAGAGTG
AGATCCAGCTATGGTTTCAGAGCAGTGAGCTGGTGGATGGGGCAGAGGAAAGCCACCAGAGCAGCATCTATCCAGCC
ORF - retro_cfam_447 Open Reading Frame is not conserved.
Retrocopy - Parental Gene Alignment summary:
| Percent Identity: | 73.83 % |
| Parental protein coverage: | 54.08 % |
| Number of stop codons detected: | 0 |
| Number of frameshifts detected: | 1 |
Retrocopy - Parental Gene Alignment:
| Parental | AEHYHDLQRKPFYPSLISYMTSGPVVAMVWEGPNVV-CSSRTMIGHTDSAEAAPGTIRGDFSVHISRNII |
| AEHYHDLQ.K.FYP.L.SYM.SGPVVAM.WE..NV..CSS..M.GHTDSAEAA.GTIRG.F.VHISRNII | |
| Retrocopy | AEHYHDLQTKSFYPALLSYMNSGPVVAMIWEDSNVG<CSSKAMMGHTDSAEAASGTIRGYFQVHISRNII |
| Parental | HASDSVEGARREIQLWFQSSELVDWADENHHSSIYAA |
| ...D..EGA..EIQLWFQSSELVD.A.E.H.SSIY.A | |
| Retrocopy | YSNDYMEGAQSEIQLWFQSSELVDGAEESHQSSIYPA |
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 |
|---|---|---|
| SRP012049_cerebellum | 0 .00 RPM | 14 .53 RPM |
| SRP017611_brain | 0 .00 RPM | 8 .73 RPM |
| SRP017611_kidney | 0 .00 RPM | 60 .69 RPM |
| SRP017611_liver | 0 .00 RPM | 21 .32 RPM |
Canis familiaris was not studied using ChIP-Seq data.
No EST(s) were mapped for retro_cfam_447 retrocopy.
Canis familiaris was not studied using FANTOM5 data.
retro_cfam_447 was not experimentally validated.