RetrogeneDB ID: | retro_itri_997 | ||
Retrocopy location | Organism: | Squirrel (Ictidomys tridecemlineatus) | |
| Coordinates: | JH393357.1:1974189..1974584(-) | ||
| 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: | ENSSTOG00000025778 | ||
| Aliases: | None | ||
| Description: | None |
Retrocopy-Parental alignment summary:
>retro_itri_997
TTCCCATGGTGGTAACAATTAACATCAAAAGTCATCTTTTTCTGGCTTTTTGTCCTTTATCTTCTTCAAGTTGCTGTACT
AGTATTATTCTGTCCACTTCCAGCCCACATGGTATACCTCTGACAGAAGTGATCTGGCAGACATGGCTGATGCTGCTCTT
GGGAACTCTGAATTGCCATATTGTTTCAACAAGAATATCCAAACCCATTAGGTACAGGCAATAAAAGAGAGGTAAATTAA
GAAAAGCAGCTCATTTGGACAGACATAGGGAAGAAGATGGTTCTAGTATCACAGCAAACACACAGGAAGGAGCATTTCAG
AGCCACAGTACAAGCACCACTTACCGTGTTGATACTGTCTTCAGAGATCTCTGGAATGGTGCTTTCTTTTTATCA
ORF - retro_itri_997 Open Reading Frame is not conserved.
Retrocopy - Parental Gene Alignment summary:
| Percent Identity: | 74.81 % |
| Parental protein coverage: | 60.27 % |
| Number of stop codons detected: | 1 |
| Number of frameshifts detected: | 3 |
Retrocopy - Parental Gene Alignment:
| Parental | FRWWLQVTSKVIFFWLLVLYLLQVAAIVLFC-STSSPHSIPLTEVIGPIWLMLLLGTVHCQIVSTRT-PK |
| F.WW.Q.TSKVIFFWL.VLYLLQVA..VLFC.STSSPH.IPLTEVI...WLMLLLGT..C.IVSTR..P. | |
| Retrocopy | FPWW*QLTSKVIFFWLFVLYLLQVAVLVLFC<STSSPHGIPLTEVIWQTWLMLLLGTLNCHIVSTRI>PN |
| Parental | PISTGGKR-RRKLRKAAHLEVHREGDGSSTTDNTQEGAVQSHGTSTTYSVGAVFRDLWHAAFFLS |
| P..TG.KR.R.KLRKAAHL..HRE.DGSS.T.NTQEGA.QSH.TSTTY.V..VFRDLW..AFFLS | |
| Retrocopy | PLGTGNKR<RGKLRKAAHLDRHREEDGSSITANTQEGAFQSHSTSTTYRVDTVFRDLWNGAFFLS |
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_997 retrocopy.
Ictidomys tridecemlineatus was not studied using FANTOM5 data.
retro_itri_997 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 | ENSSTOG00000025778 | 1 retrocopy |
retro_itri_997 ,
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