RetrogeneDB ID:

retro_chof_916

Retrocopy
location
Organism:Sloth (Choloepus hoffmanni)
Coordinates:scaffold_168330:1098..1390(+)
Located in intron of:None
Retrocopy
information
Ensembl ID:None
Aliases:None
Status:NOVEL
Parental gene
information
Parental gene summary:
Parental gene symbol:RPL12
Ensembl ID:ENSCHOG00000006732
Aliases:None
Description:ribosomal protein L12 [Source:HGNC Symbol;Acc:10302]


Retrocopy-Parental alignment summary:






>retro_chof_916
GCCCCCAAGATCGGCCTCCTGGGTCTGTCTCCAAGAAAGCTGGTGGTGGCATCACCAAGGCAACTGGTGACTAGAAGGGT
CTGAGGGTCACAGTGAAACTGACCATCCAGATCAGACAGGTCCGGGTTGAGGGGGGACCTTCTGCCTCCGCCCTGATCAC
GAGAGCCCTGAGGAACCAGCCAGAGACAGAACGGAGCAGGGAACCATTCATCACAGTGGAAATACCACTTTTGAAGAGAT
GGTCAACATTGCCCAACAGACGTGGCACAGATCCTTATCCAGAGAACTCTCT

ORF - retro_chof_916 Open Reading Frame is not conserved.
Retrocopy - Parental Gene Alignment summary:
Percent Identity: 69. %
Parental protein coverage: 86.73 %
Number of stop codons detected: 1
Number of frameshifts detected 2


Retrocopy - Parental Gene Alignment:

ParentalAPKIGPLGLSP-KKVGDDIAKATGDWKGLRITVKLTIQNRQAQIEVVPSASALIIKALK-EPPRDRKKQK
APKIG.LGLSP.KK.G..I.KATGD.KGLR.TVKLTIQ.RQ...E..PSASALI..AL..EP.RDR..Q.
RetrocopyAPKIGLLGLSP<KKAGGGITKATGD*KGLRVTVKLTIQIRQVRVEGGPSASALITRALR<EPARDRTEQG
ParentalNIKHSGNITFDEIVNIARQMRHRSLARELS
.I.HSGN.TF.E.VNIA.Q..HRSL.RELS
RetrocopyTIHHSGNTTFEEMVNIAQQTWHRSLSRELS

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_916 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 70 retrocopies.

Species Parental gene accession Retrocopies number
Choloepus hoffmanni ENSCHOG00000006732 32 retrocopies
Latimeria chalumnae ENSLACG000000153733 retrocopies
Loxodonta africana ENSLAFG0000001766910 retrocopies
Macropus eugenii ENSMEUG0000000738012 retrocopies
Monodelphis domestica ENSMODG000000045719 retrocopies
Rattus norvegicus ENSRNOG000000162204 retrocopies



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