RetrogeneDB ID:

retro_chof_1464

Retrocopy
location
Organism:Sloth (Choloepus hoffmanni)
Coordinates:scaffold_300305:0..536(+)
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:ENSCHOG00000007548
Aliases:None
Description:None


Retrocopy-Parental alignment summary:






>retro_chof_1464
AAAACTGGCAAATTTTTTTCACTCAGTGAGCAGAACCTGGTGGACAGCACTCAGGTTGCGGGTGATAATGGCTGCAATGG
TGGCCTAATGGACAATGCTTTCCAGTATGTCCAGGATAACAAAAGCCTCAATTTAGAGAAATCCTATCCATATATTGGAA
AGGACATGACTTGATGCTACAAGACCGAATATTCTGCTGCCAATGACACTGGCTTCGTGGATATTCCCCCATGGTAGAAA
GCACCTATGAAGGCAGTGGCAACTGTAGGACCCACCTCTGTTGCTATCGATGTACACCATGACAGCTTCCAGTTCTGCTC
ATCAGCACTTATTTTGAGCTGGGCTGCAGCAGCAAAGACCTGGATCACGGTGTTCTGCTGGTTAACTATGGCTTTGGAGG
AGCAGATTTAGATTACAGTAAATGTTGTCGCATCAAGGACAGCTGGAGTGAAAACTGGGGCGTGGAGGGTGACATAAAGA
TAGCCAGAGAGTGGAACAACCACTGTGGAGTTGCCGCATCAGCCAGCTATCCCACC

ORF - retro_chof_1464 Open Reading Frame is not conserved.
Retrocopy - Parental Gene Alignment summary:
Percent Identity: 63.89 %
Parental protein coverage: 57.01 %
Number of stop codons detected: 2
Number of frameshifts detected 1


Retrocopy - Parental Gene Alignment:

ParentalKTGILVSLSEQNLVDCSRAEGNSGCNGGLMDNAFQYVQDNKGLDSEESYPYVGKDMNCSYKPEYSAANDT
KTG...SLSEQNLVD.....G..GCNGGLMDNAFQYVQDNK.L..E.SYPY.GKDM...YK.EYSAANDT
RetrocopyKTGKFFSLSEQNLVDSTQVAGDNGCNGGLMDNAFQYVQDNKSLNLEKSYPYIGKDMT*CYKTEYSAANDT
ParentalGFVEVAPLEKTLMAAVAAVGPISVAIDASHESFQFYESGI-YYEPDCSSKDLDHGVLVVGYGFEETDSDN
GFV...P..K..M.AVA.VGP.SVAID..H.SFQF..S...Y.E..CSSKDLDHGVL.V.YGF...D.D.
RetrocopyGFVDIPPW*KAPMKAVATVGPTSVAIDVHHDSFQFCSSAL<YFELGCSSKDLDHGVLLVNYGFGGADLDY
ParentalNKYWLVKNSWGESWGMEGYVKMARDRDNHCGIATKASYPT
.K....K.SW.E.WG.EG..K.AR...NHCG.A..ASYPT
RetrocopySKCCRIKDSWSENWGVEGDIKIAREWNNHCGVAASASYPT

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_1464 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 10 parental genes, and 21 retrocopies.

Species Parental gene accession Retrocopies number
Choloepus hoffmanni ENSCHOG00000007548 8 retrocopies
Dasypus novemcinctus ENSDNOG000000120371 retrocopy
Macropus eugenii ENSMEUG000000021682 retrocopies
Macropus eugenii ENSMEUG000000142931 retrocopy
Macropus eugenii ENSMEUG000000162092 retrocopies
Monodelphis domestica ENSMODG000000028441 retrocopy
Otolemur garnettii ENSOGAG000000013492 retrocopies
Ochotona princeps ENSOPRG000000010302 retrocopies
Petromyzon marinus ENSPMAG000000034531 retrocopy
Tupaia belangeri ENSTBEG000000164061 retrocopy



Copyright © RetrogeneDB 2014-2017