RetrogeneDB ID: | retro_chof_2666 | ||
Retrocopy location | Organism: | Sloth (Choloepus hoffmanni) | |
| Coordinates: | scaffold_95517:5233..5704(+) | ||
| Located in intron of: | None | ||
Retrocopy information | Ensembl ID: | None | |
| Aliases: | None | ||
| Status: | NOVEL | ||
Parental gene information | Parental gene summary: | ||
| Parental gene symbol: | STARD7 | ||
| Ensembl ID: | ENSCHOG00000001391 | ||
| Aliases: | None | ||
| Description: | StAR-related lipid transfer (START) domain containing 7 [Source:HGNC Symbol;Acc:18063] |
Retrocopy-Parental alignment summary:
>retro_chof_2666
CCCAGCCATGCCTCGGCCTTGATGGGGGCTCTGGCCGGTGTCTTCATGTGGAAGAGGAGCAGATCCAGGAGGAGATGCTG
CAGGGTCCACTGATGAGGTGAAGCGCTTGGAGGAAATGTCAAGCATGTTTCAGAGCTCCGGAGTCGAGTGCCATCCCCAG
AACCAAAATCCCAAACAGAAGGGAATGAAAATTCAGGCAGCCAAGAGCAGCCATGGGAAATGGCGATGGATAAGAAACAT
TTTAAGCCGTTGAGGCGCCCAATTACAGGCACCCACCTTTACCAGTATCGAGTTTTTGGAACCTACGCGATTGTGACACC
CCGGCAGTTCGTCAGTGTTCAGCTGGATACAGAGTATTGAAAAAAGCAGGACGCCCTGGTAAACAAGCTGGAGGTGGTGG
AGAGAGTCGCGGTTAGTGGTTCTGAGGTTCTCCACTGGGTAACCCATTTTCCTTATCTGACGTACTCGCGG
ORF - retro_chof_2666 Open Reading Frame is not conserved.
Retrocopy - Parental Gene Alignment summary:
| Percent Identity: | 79.5 % |
| Parental protein coverage: | 51.3 % |
| Number of stop codons detected: | 1 |
| Number of frameshifts detected: | 3 |
Retrocopy - Parental Gene Alignment:
| Parental | PAHALTLMAALTGVFAW-DEERIQEEELQR-SIDEMKRLEEMSRMFQSSGVECHPA-ETKSQTEGNENPD |
| P.HA..LM.AL.GVF.W..EE.IQEE.LQ..S.DE.KRLEEMS.MFQSSGVECHP..E.KSQTEGNEN.. | |
| Retrocopy | PSHASALMGALAGVFMW<EEEQIQEEMLQG<STDEVKRLEEMSSMFQSSGVECHPQ<EPKSQTEGNENSG |
| Parental | SQEQPWEMVMDKKHFKLWRRPITGTHLYQYRVFGTYTDVTPRQFFNVQLDTEYRKKWDALVIKLEVVERD |
| SQEQPWEM.MDKKHFK..RRPITGTHLYQYRVFGTY..VTPRQF..VQLDTEY.KK.DALV.KLEVVER. | |
| Retrocopy | SQEQPWEMAMDKKHFKPLRRPITGTHLYQYRVFGTYAIVTPRQFVSVQLDTEY*KKQDALVNKLEVVERV |
| Parental | AVSGSEVLHWVTHFPYPMYSR |
| AVSGSEVLHWVTHFPY..YSR | |
| Retrocopy | AVSGSEVLHWVTHFPYLTYSR |
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_2666 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 2 parental genes, and 4 retrocopies.| Species | Parental gene accession | Retrocopies number | |
|---|---|---|---|
| Choloepus hoffmanni | ENSCHOG00000001391 | 3 retrocopies |
retro_chof_1979, retro_chof_2666 , retro_chof_491,
|
| Ictidomys tridecemlineatus | ENSSTOG00000016345 | 1 retrocopy |