RetrogeneDB ID: | retro_gacu_24 | ||
Retrocopy location | Organism: | Stickleback (Gasterosteus aculeatus) | |
| Coordinates: | scaffold_111:317896..318349(-) | ||
| Located in intron of: | None | ||
Retrocopy information | Ensembl ID: | None | |
| Aliases: | None | ||
| Status: | NOVEL | ||
Parental gene information | Parental gene summary: | ||
| Parental gene symbol: | suv420h2 | ||
| Ensembl ID: | ENSGACG00000013526 | ||
| Aliases: | None | ||
| Description: | suppressor of variegation 4-20 homolog 2 (Drosophila) [Source:ZFIN;Acc:ZDB-GENE-080523-2] |
Retrocopy-Parental alignment summary:
>retro_gacu_24
AGTAATCGTCAGCAACTGCTAAGGAAACGGGTCCATCACTACCTCAGTGCCTTGCTGTTGGACAGTGGTCTGAGCATAGA
GTCCATAGTGAGATACTCCTGTGAGAATACTGGAGCGAAGGTAACCGCGACAAGGCACTGGCTTCCAGGACAGCGCATCA
AGGTCCTGCTGGGCTGCATAGCAGAGTTCACTCCTGCCGACAGTGCTGTGCTGAAGGCTGGAGTGAATGACTTCAGCGTG
ATGTATTCCATGAGAAGAAAACGCAATCAGCTCGGACCTGCACGTCTCGTGAACCACGACTGCCATCCCAATGTCAAATA
AGTTGCCTGCAAGTCCGTGGCTTCCGTAGTTGTGGTTAGATCCATCTCACCTGGCGAGGAGATCACCTGCTTTTATGGTC
CAAACTTTTTGGAAGACAAAAATGAGTTGTGTGAATGCTGCACCTGTGACAGG
ORF - retro_gacu_24 Open Reading Frame is not conserved.
Retrocopy - Parental Gene Alignment summary:
| Percent Identity: | 60.26 % |
| Parental protein coverage: | 75.0 % |
| Number of stop codons detected: | 1 |
| Number of frameshifts detected: | 0 |
Retrocopy - Parental Gene Alignment:
| Parental | SHRQELLRQHVYRYLSAFLLDNGIKIESCDRYSSETNGAKITSTRQWFAGERVEVLLGCIAELSPADGTV |
| S.RQ.LLR..V..YLSA.LLD.G..IES..RYS.E..GAK.T.TR.W..G.R..VLLGCIAE..PAD..V | |
| Retrocopy | SNRQQLLRKRVHHYLSALLLDSGLSIESIVRYSCENTGAKVTATRHWLPGQRIKVLLGCIAEFTPADSAV |
| Parental | LRAGVNDFSVMYSTRKRCTQLWLGPAAFINHDKDCKPNCKFVPGEKNIACVEAIRPISPGEEITCYYGAS |
| L.AGVNDFSVMYS.R....Q..LGPA...NH..DC.PN.K.V...K..A.V...R.ISPGEEITC.YG.. | |
| Retrocopy | LKAGVNDFSVMYSMRRKRNQ--LGPARLVNH--DCHPNVK*V-ACKSVASVVVVRSISPGEEITCFYGPN |
| Parental | FFGEGNEMCECCTCER |
| F....NE.CECCTC.R | |
| Retrocopy | FLEDKNELCECCTCDR |
Legend:
| * | Stop codon |
| > | Forward frameshift by one nucleotide |
| < | Reverse frameshift by one nucleotide |
Gasterosteus aculeatus was not studied using RNA-Seq expression data.
Gasterosteus aculeatus was not studied using ChIP-Seq data.
Gasterosteus aculeatus was not studied using EST data.
Gasterosteus aculeatus was not studied using FANTOM5 data.
retro_gacu_24 was not experimentally validated.
Retrocopy orthology:
Retrocopy retro_gacu_24 has 0 orthologous retrocopies within teleost group .Parental genes homology:
Parental genes homology involve 1 parental gene, and 1 retrocopy.| Species | Parental gene accession | Retrocopies number | |
|---|---|---|---|
| Gasterosteus aculeatus | ENSGACG00000013526 | 1 retrocopy |
retro_gacu_24 ,
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