RetrogeneDB ID: | retro_itri_14 | ||
Retrocopy location | Organism: | Squirrel (Ictidomys tridecemlineatus) | |
| Coordinates: | JH393426.1:1880166..1880700(-) | ||
| Located in intron of: | None | ||
Retrocopy information | Ensembl ID: | ENSSTOG00000014673 | |
| Aliases: | None | ||
| Status: | KNOWN_PROTEIN_CODING | ||
Parental gene information | Parental gene summary: | ||
| Parental gene symbol: | COPZ2 | ||
| Ensembl ID: | ENSSTOG00000027550 | ||
| Aliases: | None | ||
| Description: | coatomer protein complex, subunit zeta 2 [Source:HGNC Symbol;Acc:19356] |
Retrocopy-Parental alignment summary:
>retro_itri_14
ATGGAGGTGCTGATTTTGGAACCCTCCCTGTATACTGTCAAAGCCATCCTGATTCTGGACAATGATGGAGACCGACTTTT
TGCCAAGTACTATGACGACACCTACCCCAGTGTCAAGGAGCAAAAGGCCTTTGAAAAGAATATTTTCAACAAGACCCATC
GGACTGACAGTGAAATTGCCCTCTTGGAAGGCCTGACGGTGGTGTATAAAAGCAGCATCGATCTCTATTTCTGTGTGATT
GGCAGCTCCTATGAAAATGAGTTGATGCTTATGGCTGTTCTGAATTGCCTCTTTGACTCCTTGAGCCAGATGCTGAGGAA
AAATGTAGAAAAACGAGCTCTGCTGGAGAACGTGGAGGGGCTCTTCTTGGCTGTGGATGAAATCGTAGATGGAGGGGTGA
TACTAGAGAGGGATCCCCAGCAAGTTGTACACCGGGGGGCATTGAGGGGTGAAGATGTACCCTTAACGGAGCAGACCGTG
TCTCAGGTGCTTCAGTCAGCTAAAGAACAGATCAAGTGGTCACTCCTCCCGTGA
ORF - retro_itri_14 Open Reading Frame is conserved.
Retrocopy - Parental Gene Alignment summary:
| Percent Identity: | 72.94 % |
| Parental protein coverage: | 97.7 % |
| Number of stop codons detected: | 0 |
| Number of frameshifts detected: | 0 |
Retrocopy - Parental Gene Alignment:
| Parental | EPSLYTIKAVFILDNDGRRLLAKYYDDTFPSMKEQMVFEKNVFNKTSRTESEIAFFGGMTIVYKSSIDLF |
| EPSLYT.KA..ILDNDG.RL.AKYYDDT.PS.KEQ..FEKN.FNKT.RT.SEIA...G.T.VYKSSIDL. | |
| Retrocopy | EPSLYTVKAILILDNDGDRLFAKYYDDTYPSVKEQKAFEKNIFNKTHRTDSEIALLEGLTVVYKSSIDLY |
| Parental | LYVVGSSHENELMLMSVLTCLFESLSHILRKNVEKRWLLENMDGAFLVLDEIVDGGVILESDPQQVIQKV |
| ..V.GSS.ENELMLM.VL.CLF.SLS..LRKNVEKR.LLEN..G.FL..DEIVDGGVILE.DPQQV.... | |
| Retrocopy | FCVIGSSYENELMLMAVLNCLFDSLSQMLRKNVEKRALLENVEGLFLAVDEIVDGGVILERDPQQVVHRG |
| Parental | NFRADDSSLTEQSVTQVLQSAKEQIKWSLL |
| ..R..D..LTEQ.V.QVLQSAKEQIKWSLL | |
| Retrocopy | ALRGEDVPLTEQTVSQVLQSAKEQIKWSLL |
Legend:
| * | Stop codon |
| > | Forward frameshift by one nucleotide |
| < | Reverse frameshift by one nucleotide |
Ictidomys tridecemlineatus was not studied using RNA-Seq expression data.
Ictidomys tridecemlineatus was not studied using ChIP-Seq data.
No EST(s) were mapped for retro_itri_14 retrocopy.
Ictidomys tridecemlineatus was not studied using FANTOM5 data.
retro_itri_14 was not experimentally validated.
Retrocopy orthology:
Ictidomys tridecemlineatus 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 | |
|---|---|---|---|
| Ictidomys tridecemlineatus | ENSSTOG00000027550 | 1 retrocopy |
retro_itri_14 ,
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