RetrogeneDB ID: | retro_chof_1216 | ||
Retrocopy location | Organism: | Sloth (Choloepus hoffmanni) | |
| Coordinates: | scaffold_228196:3056..3845(-) | ||
| Located in intron of: | None | ||
Retrocopy information | Ensembl ID: | ENSCHOG00000013414 | |
| Aliases: | None | ||
| Status: | KNOWN_PSEUDOGENE | ||
Parental gene information | Parental gene summary: | ||
| Parental gene symbol: | GORAB | ||
| Ensembl ID: | ENSCHOG00000012588 | ||
| Aliases: | None | ||
| Description: | golgin, RAB6-interacting [Source:HGNC Symbol;Acc:25676] |
Retrocopy-Parental alignment summary:
>retro_chof_1216
CTGTTTGAACCACAGCAGCGTCTCCCCGTGAAGAAAAGTTGCCAGCAACTTCAGCGAGAAAAAGCTCTTCAAGAGCAAAG
CCAAAAACTTGGACTTCAAGATGGATCAACTTCATTACCTCCAGAGCAGCTACTTTCTACATCAAAACCAAGATTTAATT
CTCAAAAGCCAAATTCTTCTCCACCTACTCCTCCTAGTCTTACAATCATTTCTCCTATTGGTGATAGGAAACAACCGGGT
ATTGAAAGTCAACCAAGCGGACTGGAACTTGAGAATTCCCATGGTGTACAAAACAAAAAAAATTGAGGCTCTTCCTTCAA
AGCCAGATTGCAAATTGGAGAAAAAGAAAATGGAATTGTTAGCAAGAAAAAACTCGTTGGGAAGTCCTCCAACAAGAACA
ACAGCTAATGGAAGAGAAAAATAAACGTAAGAAAGCTCTTTTGGCCAAAGCTATTGCAGAAAGATCTAAAAGAACTCAGG
CAGAGGCCATAAAACTAAAGCAGATCCAGAAGGAGTTACAGACTTTAGATGACATGGTGCCAGCTGACATTGGAATCCTC
AGGAACCGGATTGATCAGGCCAGCCTAGATTATTCATATGCTTGCAAGTGGTTTGACAGGGCTGAAGCAGAGTACATTAC
AGCAAAGCTAGATCTGCAGTGCAAGACTGAGATTAAAGAGCAACTCACTGAACACCTTTGTACAATCATACAACAAAGTG
AGCTCCAGATGCCAAGAGGTTGGAGGATTGATGCAAAAACTGGATGTAGAAGCTGATGAGGAGTCTTTG
ORF - retro_chof_1216 Open Reading Frame is not conserved.
Retrocopy - Parental Gene Alignment summary:
| Percent Identity: | 84.33 % |
| Parental protein coverage: | 76.01 % |
| Number of stop codons detected: | 1 |
| Number of frameshifts detected: | 4 |
Retrocopy - Parental Gene Alignment:
| Parental | LFEPQRRLPVKKSRQQLQREKALQEQSQKLGLQDGSTSLPPEQLLTTSKPRFNSQKPNSSPITPPSLLTI |
| LFEPQ.RLPVKKS.QQLQREKALQEQSQKLGLQDGSTSLPPEQLL.TSKPRFNSQKPNSSP.TPPSL.TI | |
| Retrocopy | LFEPQQRLPVKKSCQQLQREKALQEQSQKLGLQDGSTSLPPEQLLSTSKPRFNSQKPNSSPPTPPSL-TI |
| Parental | TSPVGDRKELGIESHPSELELENSHDVQNKKI-EALPSKPDCKLE-KKKMEL-QEKTRWEVLQKEQRLME |
| .SP.GDRK..GIES.PS.LELENSH.V......EALPSKPDCKLE.K.K....QEKTRWEVLQ.EQ.LME | |
| Retrocopy | ISPIGDRKQPGIESQPSGLELENSHGVXXXXX>EALPSKPDCKLE>KRKWNC*QEKTRWEVLQQEQQLME |
| Parental | EKNKRKKALLAKAIAERSKRTQAETIKLKRIQKELQTLDDMVSADIGILRNRIDQASLDYSYARKRFDRA |
| EKNKRKKALLAKAIAERSKRTQAE.IKLK.IQKELQTLDDMV.ADIGILRNRIDQASLDYSYA.K.FDRA | |
| Retrocopy | EKNKRKKALLAKAIAERSKRTQAEAIKLKQIQKELQTLDDMVPADIGILRNRIDQASLDYSYACKWFDRA |
| Parental | EAEYITAKLDLQRKTEIKEQLTEHLCTIIQQNELR-KAKKLEE-LMQQLDVQADEETL |
| EAEYITAKLDLQ.KTEIKEQLTEHLCTIIQQ.EL...AK.LE..LMQ.LDV.ADEE.L | |
| Retrocopy | EAEYITAKLDLQCKTEIKEQLTEHLCTIIQQSELQ<DAKRLED<LMQKLDVEADEESL |
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_1216 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 | ENSCHOG00000012588 | 1 retrocopy |
retro_chof_1216 ,
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