RetrogeneDB ID: | retro_chof_2216 | ||
Retrocopy location | Organism: | Sloth (Choloepus hoffmanni) | |
| Coordinates: | scaffold_58974:3401..4276(-) | ||
| Located in intron of: | None | ||
Retrocopy information | Ensembl ID: | None | |
| Aliases: | None | ||
| Status: | NOVEL | ||
Parental gene information | Parental gene summary: | ||
| Parental gene symbol: | C7orf57 | ||
| Ensembl ID: | ENSCHOG00000000934 | ||
| Aliases: | None | ||
| Description: | chromosome 7 open reading frame 57 [Source:HGNC Symbol;Acc:22247] |
Retrocopy-Parental alignment summary:
>retro_chof_2216
AGAGATCTCAGCATGAGAAACACGAGCAAGGAGCTGCATGGCACAACCAGCTGTTATGCTCCCTGTGATTGGTATTATCA
TTTTCCAGCAAAGAGGTCTGAGAAGGTGGTCGAGGCCCCACCAGTGTCCCAGATCCCGGGTCTCAGCGATTTGGGAGAAT
CACACAATGGGAATACATTTGCAACTCGCAGATACTGAATAAACGAAACAGACTCAGAATATGTCAAGCTGGCAAAACAA
GGCGGCAGGCCTGATCTGCTGAAACATTTTGGCCCTGGGACCAGGAAAGGCTCCCTGGTCACGTACTCGATGCCAGATTG
GTATATCCACCACAGCAAACCACTGACGGTCGACCAGAGAGAAGTCCCTGCTGTCTCTATGCCAGATTACATGGTTTATG
AAGAATTTAGCCCCAGTCAGGCCAATGGTAGCTATGAATCCAGAAGAGGACCTTTCAACTTTGACATGAAAACCATTTGG
CAACGAGAGGCTGAGGAACTTGAAGAGAAAAAAAGGTGAAACTGCTAGCATTTAACTCGAAGCAGCCAAGCGAGGTGGGA
ACCCGTATTGGCTTGAAAGATTCGGCAGGAAGTCAATTGTCCTTCCCTCCTGTGCCTGGTCAAAAAAATAGTTCACCCAC
AAACTTTTCCAAGCTTATTAGTAGTGGTTATAAGGATGAGTGGTTACAGCAGCGGTCCAATTTGGAAAAGAGGACCCTCA
TAGGCCCCCAGAACGCCGGCCTCGTCTCGGTCCACGGAAGACCCTGAAGGCACCCAGATGCAGAGATGCCTGAGGATGCA
GAGGTTCCAGAAGGTTCTGAGAAAGCTCCAGGTGCTGCAGCATCTCCATCTGCATTAACACCAGCAAAGCTCAAA
ORF - retro_chof_2216 Open Reading Frame is not conserved.
Retrocopy - Parental Gene Alignment summary:
| Percent Identity: | 84.28 % |
| Parental protein coverage: | 82.91 % |
| Number of stop codons detected: | 2 |
| Number of frameshifts detected: | 3 |
Retrocopy - Parental Gene Alignment:
| Parental | QSLSMRNTSKELHGATSRYAPCDWYYHLPAKRSEKAVEAPPASQIPGLNDLGESHNGNTFATRRYWIKET |
| ..LSMRNTSKELHG.TS.YAPCDWYYH.PAKRSEK.VEAPP.SQIPGL.DLGESHNGNTFATRRY.I.ET | |
| Retrocopy | RDLSMRNTSKELHGTTSCYAPCDWYYHFPAKRSEKVVEAPPVSQIPGLSDLGESHNGNTFATRRY*INET |
| Parental | DSEYVKLAKQGGRPDLLKHFGPGTRKGSPVTYSMPDWYIHHSKPPTADQREVPAVFMPDYMVYEEFSPSQ |
| DSEYVKLAKQGGRPDLLKHFGPGTRKGS.VTYSMPDWYIHHSKP.T.DQREVPAV.MPDYMVYEEFSPSQ | |
| Retrocopy | DSEYVKLAKQGGRPDLLKHFGPGTRKGSLVTYSMPDWYIHHSKPLTVDQREVPAVSMPDYMVYEEFSPSQ |
| Parental | ANGIYESRRGPFDFDMKTIWQREAEELEER-KKVKLPAINSRQPGKVGTPVGSKDSAGSRLSFPPMPGQK |
| ANG.YESRRGPF.FDMKTIWQREAEELEE..KKVKL.A.NS.QP..VGT..G.KDSAGS.LSFPP.PGQK | |
| Retrocopy | ANGSYESRRGPFNFDMKTIWQREAEELEEK<KKVKLLAFNSKQPSEVGTRIGLKDSAGSQLSFPPVPGQK |
| Parental | NSSPTNFSKLISNGYKDEWLQQRANSGKRT-PQTPRMPASSQSTEDPEG-HPDAEMPEDAEVPEASEKAP |
| NSSPTNFSKLIS.GYKDEWLQQR.N..KRT....PR.PASS.STEDPEG.HPDAEMPEDAEVPE.SEKAP | |
| Retrocopy | NSSPTNFSKLISSGYKDEWLQQRSNLEKRT>S*APRTPASSRSTEDPEG<HPDAEMPEDAEVPEGSEKAP |
| Parental | XXXXXTAASPSALTPAELK |
| ......AASPSALTPA.LK | |
| Retrocopy | ----GAAASPSALTPAKLK |
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_2216 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 | ENSCHOG00000000934 | 1 retrocopy |
retro_chof_2216 ,
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