RetrogeneDB ID:

retro_chof_2058

Retrocopy
location
Organism:Sloth (Choloepus hoffmanni)
Coordinates:scaffold_46960:8305..8960(+)
Located in intron of:None
Retrocopy
information
Ensembl ID:None
Aliases:None
Status:NOVEL
Parental gene
information
Parental gene summary:
Parental gene symbol:None
Ensembl ID:ENSCHOG00000010080
Aliases:None
Description:None


Retrocopy-Parental alignment summary:






>retro_chof_2058
TCTATGATGCTACAACTGCTGGGACTAGTTTGGAGACTTGTTTGACTTGTGTGATAGAACATTTTCTCTTAAAACAGGTT
GCATGATAGGTATCCAACTAATTTCTCATATGGAATTTGTCCATTCAAAGAATTTAATATACAGAGATGTAAAACATGAG
GAATTCTTAATAGGACAACAAGGAAACAAAACCCAAAAAAATTATTCCCATTATAGATTTTGGTTTGGTAAGGATATATC
AATCCAGAGACAAAGAAACACATACCATACAGTGAACACAAGAGTCTTACAGGATCAGCTGAGATATATAAACATGAACA
CACATTTAGGAAAGAAACAAAGTAGAAGGAATGATTTAGAACTTTTAGGAAACATGTTTATGAATTTTCTGAGAAGACAT
CATCCTTGGCAAGGCTTAAAGGCTGACACATTAAAAAAAGAAATATCAGAAAATTGGAGATACAAAATGAGCCACACTAA
TAGAAGTGCTATGTGAAAATTTTTCAGAAGAAATGGCAACATATCTTTGTTATGAAAGATGGTAAGATTTTTTTGAAAAA
CCAGAATATGGCTACCTAAGAAAACTTTTTAATGACTTGTGTGATCAAAAAGGCATGTGTCAGAGTATAAATATGACAGG
ATCAGTAAACAGTTG

ORF - retro_chof_2058 Open Reading Frame is not conserved.
Retrocopy - Parental Gene Alignment summary:
Percent Identity: 66.22 %
Parental protein coverage: 54.21 %
Number of stop codons detected: 2
Number of frameshifts detected 6


Retrocopy - Parental Gene Alignment:

ParentalAMVLELLG-PSLE-DLFDLCDRTFTLKTVLMIAIQLLSRMEYVHSKNLIYRDVKPENFLIGRQGNKKEHV
.M.L.LLG..SLE.DLFDLCDRTF.LKT..MI.IQL.S.ME.VHSKNLIYRDVK.E.FLIG.QGNK....
RetrocopySMMLQLLG<TSLE<DLFDLCDRTFSLKTGCMIGIQLISHMEFVHSKNLIYRDVKHEEFLIGQQGNKTQKN
ParentalIHIIDFGLAKE-YIDPETKKHIPYREHKSLTGTA-RYMSINTHLGKEQSRRDDLEALGHMFMYFLRGSLP
.....F...K..YI.PETKKHIPY.EHKSLTG.A.RY...NTHLGK.QSRR.DLE.LG.MFM.FLR...P
RetrocopyYSHYRFWFGKD<YINPETKKHIPYSEHKSLTGSA>RYINMNTHLGKKQSRRNDLELLGNMFMNFLRRHHP
ParentalWQGLKADTL-KERYQKIGDTKRNTPIEALCENFPEEMATYLRYVRRLDFFEKPDYEYLRTLFTDLFERKG
WQGLKADTL.K..YQKIGDTK..T.IE.LCENF.EEMATYL.Y.R..DFFEKP.Y.YLR.LF.DL...KG
RetrocopyWQGLKADTL>KKKYQKIGDTK*ATLIEVLCENFSEEMATYLCYERW*DFFEKPEYGYLRKLFNDLCDQKG
Parental-YTFDYVYDWVGRPI
.....Y.YD......
Retrocopy<HVSEYKYDRISKQL

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_2058 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 5 parental genes, and 7 retrocopies.

Species Parental gene accession Retrocopies number
Choloepus hoffmanni ENSCHOG000000032991 retrocopy
Choloepus hoffmanni ENSCHOG00000010080 3 retrocopies
retro_chof_1577, retro_chof_2058 , retro_chof_216,
Dasypus novemcinctus ENSDNOG000000188571 retrocopy
Rattus norvegicus ENSRNOG000000166201 retrocopy
Tupaia belangeri ENSTBEG000000030131 retrocopy



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