RetrogeneDB ID: | retro_chof_2499 | ||
Retrocopy location | Organism: | Sloth (Choloepus hoffmanni) | |
| Coordinates: | scaffold_80363:5300..6967(+) | ||
| Located in intron of: | None | ||
Retrocopy information | Ensembl ID: | None | |
| Aliases: | None | ||
| Status: | NOVEL | ||
Parental gene information | Parental gene summary: | ||
| Parental gene symbol: | ARHGAP24 | ||
| Ensembl ID: | ENSCHOG00000009064 | ||
| Aliases: | None | ||
| Description: | Rho GTPase activating protein 24 [Source:HGNC Symbol;Acc:25361] |
Retrocopy-Parental alignment summary:
>retro_chof_2499
GGTAGCTTGTCTTCAGGAAGAAGCAACACAGATGTACACACAGTGGCATCACTTCTTAAACTGTATCTCCGAGAACTTCC
AGAGCCAGTTATTCCTTACGCGAAGTATGAAGATTTTTTGTCGTGTGCCAAACTACTCTGCAAGGAAGAGGAAGCAGGTG
TTAAGGAATTAGCAAAGCAGGTGAAGATTTTACCAGTGGTCAGTTACAACCTCCTCAAGTATATTTGCAGGTTCTTGGAT
GAAGTACAATCATATTCAGGCATTAACAAAATGAGTGCACAGAACTTGGCAACTGTATTTGGACCTAATATTCTGCGTCT
TAAAGTGGAAGATCCTTTGACCATCATGGAAGGTACAGTGATGGTCCAGCAGTTGATGTCAGTGATGATTAGCAAACATG
ATTGCCTCTTCCCCGAAGATGCAGAACTGCAAGGCAAGCCCCAAGATGGAATGAGCAACAACAACAATGAAATTCAGAAG
AAAGCCACCATGGGTCAGTTGCAGAACAAGGAGAACAATAATACCAAGGAAAGCCCTGGCAGACAGTGCTCTTGGGACAA
GTCTGAATCTCCCCAGAGAAGCAGCATGGACAACGGATCCCCCACAGCTCCATCGGGCAGCAAAACCAACAGCCCTCGGA
ACAGTGTTCACAAGCTGGATGTCTCCAGGAGCCCCCCTCTCATGGTCAAAAAGAACCCAGCCTTCAACAAGGGCAGTGGG
ATAGTCACCAATGGGTCCTTCAGCAGCAGTAATGCAGAGGGTCTTGAGAAAATGCAGACCACCCCCAATGGGAGCTTACA
GGCCAGAAGGACCTCTTCTCTGAAGGGGTCTGGTACCAAGATGGGCACTCACAGCGTGCAGAACGGAACAGTGCGCTTGG
GCGTTCTGAACACCGACGCGCCCGGGAACCCCGTGAACGGTCGCAGCATGAGCTGGCTGCCCAATGGCTACGTGACCCTG
AGGGATAACAAGCAGAAAGAGCAAGCGGGAGAGTCAGGCCAGCACAACAGGCTCTCCACCTACGACAACGTCCATCAACA
GTTCTCCGTGATGAACCTTGATGACAAGCAGAGTGTCGACAGCGCCACCTGGTCCACTTCCTCCTGTGAAATCTCCCTCC
CTGAGAACTCCAACTCCTGTCGCTCCTCCACCACCACCTGCCCAGAGCAAGACTTTTATGGTGAGAACTTGAGGACCCTG
TTCTGGATGGGCCCTCTCAGGACGACTTTTCCCACCCTTGGGGACTATGAAAGCAAAAGTGACAGGCGAAGCGCGAGAGG
GCGCAGTAGTCGCGCCACGAGCAGCAGCGACAACAGTGAGACGTTTGTGGGAACACCAGTAACCACAGTGCCCTGCACAG
TTTAGTGTCAAGCCTGAAACAGGAAATGACCAAACAGAAGATAGAGTATGAGTCCAGGATAAAGAGCTTAGAGAAGCGAA
ACTTGACTTTGGAAACAGAAATGATGAGCTTACACGATGAACTGGATCAAGAAAGGAAAAAGTTCACGATGATAGAAATC
AAAATGCGGACTGCTGAGCAAGCAAAAGAAGATGCAGAGAAAAGAAATGACATGCTATAGAAGGAAATGGAGCAGTTTTT
TTCCACATTTGGAGAGCTGACAGTGGAACCCAGGAGAACTGAAAGAGGAAACACAGTATGGATCCAG
ORF - retro_chof_2499 Open Reading Frame is not conserved.
Retrocopy - Parental Gene Alignment summary:
| Percent Identity: | 94.81 % |
| Parental protein coverage: | 78.72 % |
| Number of stop codons detected: | 1 |
| Number of frameshifts detected: | 3 |
Retrocopy - Parental Gene Alignment:
| Parental | GEKPSFDSNTDVHTVASLLKLYLRELPEPVIPYAKYEDFLSCAKLLSKEEEAGVKELAKQVKSLPVVNYN |
| G...S..SNTDVHTVASLLKLYLRELPEPVIPYAKYEDFLSCAKLL.KEEEAGVKELAKQVK.LPVV.YN | |
| Retrocopy | GSLSSGRSNTDVHTVASLLKLYLRELPEPVIPYAKYEDFLSCAKLLCKEEEAGVKELAKQVKILPVVSYN |
| Parental | LLKYICRFLDEVQSYSGVNKMSAQNLATVFGPNILRPKVEDPLTIMEGTVVVQQLMSVMISKHDCLFPKD |
| LLKYICRFLDEVQSYSG.NKMSAQNLATVFGPNILR.KVEDPLTIMEGTV.VQQLMSVMISKHDCLFP.D | |
| Retrocopy | LLKYICRFLDEVQSYSGINKMSAQNLATVFGPNILRLKVEDPLTIMEGTVMVQQLMSVMISKHDCLFPED |
| Parental | AELQGKPQDGMS-NNNEIQKKATMGQLQNKENNNTKESPGRQCSWDKSESPQRSSMDNGSPTAPSGSKTN |
| AELQGKPQDGMS.NNNEIQKKATMGQLQNKENNNTKESPGRQCSWDKSESPQRSSMDNGSPTAPSGSKTN | |
| Retrocopy | AELQGKPQDGMSNNNNEIQKKATMGQLQNKENNNTKESPGRQCSWDKSESPQRSSMDNGSPTAPSGSKTN |
| Parental | SPRNSVHKLDVSRSPPLMVKKNPAFNKGSGIVTNGSFSSSNAEGLEKMQTTPNGSLQARRTSSLKGSGTK |
| SPRNSVHKLDVSRSPPLMVKKNPAFNKGSGIVTNGSFSSSNAEGLEKMQTTPNGSLQARRTSSLKGSGTK | |
| Retrocopy | SPRNSVHKLDVSRSPPLMVKKNPAFNKGSGIVTNGSFSSSNAEGLEKMQTTPNGSLQARRTSSLKGSGTK |
| Parental | MGTHSVQNGTVRLGVLNTDAPGNPVNGRSMSWLPNGYVTLRDNKQKEQAGESGQHNRLSTYDNVHQQFSV |
| MGTHSVQNGTVRLGVLNTDAPGNPVNGRSMSWLPNGYVTLRDNKQKEQAGESGQHNRLSTYDNVHQQFSV | |
| Retrocopy | MGTHSVQNGTVRLGVLNTDAPGNPVNGRSMSWLPNGYVTLRDNKQKEQAGESGQHNRLSTYDNVHQQFSV |
| Parental | MNLDDKQSVDSATWSTSSCEISLPENSNSCRSSTTTCPEQDFYGGN-FEDPVLDGPPQDDLSHP-GDYES |
| MNLDDKQSVDSATWSTSSCEISLPENSNSCRSSTTTCPEQDFYG.N..EDPVLDGP.QDD.SHP.GDYES | |
| Retrocopy | MNLDDKQSVDSATWSTSSCEISLPENSNSCRSSTTTCPEQDFYGEN<LEDPVLDGPSQDDFSHP>GDYES |
| Parental | KSDRRSVGGRSSRATSSSDNSETFV-GNAGNHSALHSLVSSLKQEMTKQKIEYESRIKSLEQRNLTLETE |
| KSDRRS..GRSSRATSSSDNSETFV.GN..NHSALHSLVSSLKQEMTKQKIEYESRIKSLE.RNLTLETE | |
| Retrocopy | KSDRRSARGRSSRATSSSDNSETFV<GNTSNHSALHSLVSSLKQEMTKQKIEYESRIKSLEKRNLTLETE |
| Parental | MMSLHDELDQERKKFTMIEIKMRNAERAKEDAEKRNDMLQKEMEQFFSTFGELTVEPRRTERGNTIWIQ |
| MMSLHDELDQERKKFTMIEIKMR.AE.AKEDAEKRNDML.KEMEQFFSTFGELTVEPRRTERGNT.WIQ | |
| Retrocopy | MMSLHDELDQERKKFTMIEIKMRTAEQAKEDAEKRNDML*KEMEQFFSTFGELTVEPRRTERGNTVWIQ |
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_2499 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 | ENSCHOG00000009064 | 1 retrocopy |
retro_chof_2499 ,
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