RetrogeneDB ID: | retro_chof_105 | ||
Retrocopy location | Organism: | Sloth (Choloepus hoffmanni) | |
| Coordinates: | GeneScaffold_2030:396..1074(+) | ||
| Located in intron of: | None | ||
Retrocopy information | Ensembl ID: | None | |
| Aliases: | None | ||
| Status: | NOVEL | ||
Parental gene information | Parental gene summary: | ||
| Parental gene symbol: | NFATC2IP | ||
| Ensembl ID: | ENSCHOG00000011828 | ||
| Aliases: | None | ||
| Description: | nuclear factor of activated T-cells, cytoplasmic, calcineurin-dependent 2 interacting protein [Source:HGNC Symbol;Acc:25906] |
Retrocopy-Parental alignment summary:
>retro_chof_105
GTCCAGGACACCTCTCCTCTGCCCTCACCTCCACCTAGGACTAAAAGCAGAAAGCACACGAGGGCCCTCCAGAAGTTAAG
GGAGGTGAGCAGGCGCCTCCACGACCTCCGTTCCTGCCTGAGTCCCCTGCAGCACCAGGGCCAAGACCACTGGAACCAGG
ACGACGAGGTGGTCCTGGTGGAGGGGTCCACTGTCCCAGAGAGCCCCCGACTCTTCCCCCTCAAAATCCGGTGCCGGGCG
GACCTGATCAGATTGCCTGTCGAGATGTCGGAGCCCCTGCAGGGTGTGGTGGACCACCTTGCCGCCCGCCTCGGGGTGTC
CCCAAGTAGGATCCTCTTGCTCTTTGGAGAGGCAGAGCTGTCCTCTACTGCCACCCCCAAGACCCTGAAGCTCGGAGTGG
CTGACATCATCTACTGTGTGGTGCTAGCAAGTTCTCCGGAGGCTACAGAGATGTTCCAGCAGTTCCAGCTCCGGGTGCAG
GGGAAGGAGAAGCACCAGATGCTGGAGGTCTCGCTGGCTCGGGATTCTTCCCTCAAGACCCTCATGTCCCACTACGAGGA
AGCCATGGGACTCTCATGACACAAGCTCTCCTTCTTCTTTGATGGGGCAAAGCTTTCAGGCAAGGAGCTGCCAGCCGATC
TGGGCATGGAATCTGGGGACCTCATTGAGGTCTGGAGC
ORF - retro_chof_105 Open Reading Frame is not conserved.
Retrocopy - Parental Gene Alignment summary:
| Percent Identity: | 96.02 % |
| Parental protein coverage: | 68.69 % |
| Number of stop codons detected: | 1 |
| Number of frameshifts detected: | 0 |
Retrocopy - Parental Gene Alignment:
| Parental | VQDTSPLPSPPPRTKSRKHTRALQKLREVSRRLHDLRSCLSPLQHQGQDHWNQDDEVVLVEGSTVPESPR |
| VQDTSPLPSPPPRTKSRKHTRALQKLREVSRRLHDLRSCLSPLQHQGQDHWNQDDEVVLVEGSTVPESPR | |
| Retrocopy | VQDTSPLPSPPPRTKSRKHTRALQKLREVSRRLHDLRSCLSPLQHQGQDHWNQDDEVVLVEGSTVPESPR |
| Parental | LFPLKIRCRADLIRLPVEMSEPLQGVVDHLAARLGVSPSRIPLLFGEAELSPTATPKTLILGVADIIDCV |
| LFPLKIRCRADLIRLPVEMSEPLQGVVDHLAARLGVSPSRI.LLFGEAELS.TATPKTL.LGVADII.CV | |
| Retrocopy | LFPLKIRCRADLIRLPVEMSEPLQGVVDHLAARLGVSPSRILLLFGEAELSSTATPKTLKLGVADIIYCV |
| Parental | VLASSPEATEMSQQLQLRVQGKEKHQMLEVSLARDSPLKTLMSRYEEAMGLSGHKLSFFFDGAKLSGKEL |
| VLASSPEATEM.QQ.QLRVQGKEKHQMLEVSLARDS.LKTLMS.YEEAMGLS.HKLSFFFDGAKLSGKEL | |
| Retrocopy | VLASSPEATEMFQQFQLRVQGKEKHQMLEVSLARDSSLKTLMSHYEEAMGLS*HKLSFFFDGAKLSGKEL |
| Parental | PADLGMESGDLIEVWS |
| PADLGMESGDLIEVWS | |
| Retrocopy | PADLGMESGDLIEVWS |
Legend:
| * | Stop codon |
| > | Forward frameshift by one nucleotide |
| < | Reverse frameshift by one nucleotide |
Choloepus hoffmanni was not studied using RNA-Seq expression data.
Choloepus hoffmanni was not studied using ChIP-Seq data.
Choloepus hoffmanni was not studied using EST data.
Choloepus hoffmanni was not studied using FANTOM5 data.
retro_chof_105 was not experimentally validated.
Retrocopy orthology:
Choloepus hoffmanni 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 | |
|---|---|---|---|
| Choloepus hoffmanni | ENSCHOG00000011828 | 1 retrocopy |
retro_chof_105 ,
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