RetrogeneDB ID: | retro_itri_893 | ||
Retrocopy location | Organism: | Squirrel (Ictidomys tridecemlineatus) | |
| Coordinates: | JH393339.1:129837..130263(+) | ||
| Located in intron of: | None | ||
Retrocopy information | Ensembl ID: | None | |
| Aliases: | None | ||
| Status: | NOVEL | ||
Parental gene information | Parental gene summary: | ||
| Parental gene symbol: | ATF3 | ||
| Ensembl ID: | ENSSTOG00000007121 | ||
| Aliases: | None | ||
| Description: | activating transcription factor 3 [Source:HGNC Symbol;Acc:785] |
Retrocopy-Parental alignment summary:
>retro_itri_893
ACACCCTTTGTCAAGGAAGAGTTGAGGTTTGCCATCCAGAACAAGCACCTCTGCCATTGGATGTCCTCTGCGCTGGAGTC
AGTCATGATCAGCGACAGACCACTGGAGATGTCAGTCACAAAAGCTGAGGTAGCTCCTGAGGATGATGAAAGGAAAAAGA
GGCAGTGGGAAAGAAATAAGATCACAGCCACCAAGTGCCAAAACAAGCAAAAGGAAAAGATGGAGTGCCTGCAGTCAGAG
AAGCTGGAAAGTCTGAATGCCGAACTAAAGACCCAAATTGAGGAGCTGAAGAATGAGAAGTAGTATTTGATATACATGCT
CAACCTGTGTCAGTCCACGGGTATTGTCTGGGCTCAGAATGGGCAGACTCCAGAAGATGAGAGAAACCTCTTTATCCGAC
AGATAAAAGAAGGAACACTAAACAGC
ORF - retro_itri_893 Open Reading Frame is not conserved.
Retrocopy - Parental Gene Alignment summary:
| Percent Identity: | 82.64 % |
| Parental protein coverage: | 79.56 % |
| Number of stop codons detected: | 1 |
| Number of frameshifts detected: | 0 |
Retrocopy - Parental Gene Alignment:
| Parental | TPFVKEELRFAIQNKHLCHRMSSALESVTVSDRPLEMSVTKAEVAPEEDERKKRRRERNKIAAAKCRNKK |
| TPFVKEELRFAIQNKHLCH.MSSALESV..SDRPLEMSVTKAEVAPE.DERKKR..ERNKI.A.KC.NK. | |
| Retrocopy | TPFVKEELRFAIQNKHLCHWMSSALESVMISDRPLEMSVTKAEVAPEDDERKKRQWERNKITATKCQNKQ |
| Parental | KEKTECLQKESEKLESVNAELKAQIEELKNEKQHLIYMLNLHRPTCIVRAQNGRTPEDERNLFIQQIKEG |
| KEK.ECLQ..SEKLES.NAELK.QIEELKNEK..LIYMLNL...T.IV.AQNG.TPEDERNLFI.QIKEG | |
| Retrocopy | KEKMECLQ--SEKLESLNAELKTQIEELKNEK*YLIYMLNLCQSTGIVWAQNGQTPEDERNLFIRQIKEG |
| Parental | TLQS |
| TL.S | |
| Retrocopy | TLNS |
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_893 retrocopy.
Ictidomys tridecemlineatus was not studied using FANTOM5 data.
retro_itri_893 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 | ENSSTOG00000007121 | 1 retrocopy |
retro_itri_893 ,
|