RetrogeneDB ID:

retro_chof_1435

Retrocopy
location
Organism:Sloth (Choloepus hoffmanni)
Coordinates:scaffold_294303:44..382(-)
Located in intron of:None
Retrocopy
information
Ensembl ID:None
Aliases:None
Status:NOVEL
Parental gene
information
Parental gene summary:
Parental gene symbol:EIF1
Ensembl ID:ENSCHOG00000008378
Aliases:None
Description:eukaryotic translation initiation factor 1 [Source:HGNC Symbol;Acc:3249]


Retrocopy-Parental alignment summary:






>retro_chof_1435
ATGTCCGCTATCCAGAACCTCCACTCTTTCGACCCCTTTGCTGATGCAAGGAAGGGTGAAGACCTACTTCCTGCTGGGAG
TGAGGATTATGTCCATATAAGAACTCAACACAGAAACGGCAGGAAGACCCTTACCACTGTCCAAGCGATCGCTGATGATT
ATGATAAAAAGAAACTAGTGAAGGTGTTTAAGAAGAAATTTGCCTGCAATGGTACTGTAATTGAGCATCCAGAATATGGA
GAAGTGATTCAGCTACAGGGTGACCAGCGCAAGAACATATGCCAGTTTCTTGTAGAGATTGGACTGGCGAAAGAGACTGG
CTGAAAGTTCATGGGTTT

ORF - retro_chof_1435 Open Reading Frame is not conserved.
Retrocopy - Parental Gene Alignment summary:
Percent Identity: 89.47 %
Parental protein coverage: 100. %
Number of stop codons detected: 0
Number of frameshifts detected 1


Retrocopy - Parental Gene Alignment:

ParentalMSAIQNLHSFDPFADASKDDDLLPAGTEDYIHIRNQQRNGRKTLTTVQGIADDYDKKKLVKAFKKKFACN
MSAIQNLHSFDPFADA.K..DLLPAG.EDY.HIR.Q.RNGRKTLTTVQ.IADDYDKKKLVK.FKKKFACN
RetrocopyMSAIQNLHSFDPFADARKGEDLLPAGSEDYVHIRTQHRNGRKTLTTVQAIADDYDKKKLVKVFKKKFACN
ParentalGTVIEHPEYGEVIQLQGDQRKNICQFLVEIGLAKD-DQLKVHGF
GTVIEHPEYGEVIQLQGDQRKNICQFLVEIGLAK..D.LKVHGF
RetrocopyGTVIEHPEYGEVIQLQGDQRKNICQFLVEIGLAKE<DWLKVHGF

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_1435 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 6 parental genes, and 29 retrocopies.

Species Parental gene accession Retrocopies number
Choloepus hoffmanni ENSCHOG00000008378 7 retrocopies
Dipodomys ordii ENSDORG000000138534 retrocopies
Rattus norvegicus ENSRNOG000000327691 retrocopy
Rattus norvegicus ENSRNOG0000003376515 retrocopies
Sorex araneus ENSSARG000000062871 retrocopy
Sarcophilus harrisii ENSSHAG000000057291 retrocopy



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