RetrogeneDB ID:

retro_chof_1456

Retrocopy
location
Organism:Sloth (Choloepus hoffmanni)
Coordinates:scaffold_29935:8911..9426(-)
Located in intron of:None
Retrocopy
information
Ensembl ID:None
Aliases:None
Status:NOVEL
Parental gene
information
Parental gene summary:
Parental gene symbol:ANP32B
Ensembl ID:ENSCHOG00000005149
Aliases:None
Description:acidic (leucine-rich) nuclear phosphoprotein 32 family, member B [Source:HGNC Symbol;Acc:16677]


Retrocopy-Parental alignment summary:






>retro_chof_1456
ATGGACATGAAGAGGAGGATCCACCTGGAGCTGAGGAACCGGACCCCAGAGGCGGTTCGAGAGCTTGTCCTGGATAATTG
CAAATCAAATGATGGGAAAATTGAGGGTGTAACAGCTGAATGTGTGAACTTGGGGTTCCTCAGCTTAATAAATGTAGGCT
TGATTTCAGTTTCGAATCTCCCCAAACTACCTAAGTTGAAAAAGCTTGAGCTCAGTGACAGTAGAATCTTTGGAGGTCTG
GACACGTTAGTGGGAAAACTTCGGAATCTCACACATCTAGATTTAAGTGGAAATAAACTGAAAGATATCAGCACCTTGGA
ACCTTTGAAAAAGCTGGATTGTCTGAAGAGCCTGGACCTGTTCAACTGTGAGGTCACCTACCTGAATGACCACCGCCAGC
GCTTCTTCAGGCTCCTGACCCAGGTGACCTCCCTGGATGCTAAGACCGAGAGGACCAGGTAGCATTCGACTCCGACGCCA
AGGTGGACGGTGTGGATGAAGAGGAGGACGATGAA

ORF - retro_chof_1456 Open Reading Frame is not conserved.
Retrocopy - Parental Gene Alignment summary:
Percent Identity: 85.55 %
Parental protein coverage: 67.19 %
Number of stop codons detected: 0
Number of frameshifts detected: 1


Retrocopy - Parental Gene Alignment:

ParentalMDMKRRIHLELRNRTPPAVRELVLDNCKSNDGKIEGLTAEFVNLEFLSLINVGLISVSNLPKLPKLKKLE
MDMKRRIHLELRNRTP.AVRELVLDNCKSNDGKIEG.TAE.VNL.FLSLINVGLISVSNLPKLPKLKKLE
RetrocopyMDMKRRIHLELRNRTPEAVRELVLDNCKSNDGKIEGVTAECVNLGFLSLINVGLISVSNLPKLPKLKKLE
ParentalLSDNRIFGGLDMLAEKLPNLTHLNLSGNKLKDISTLEPLKKLDCLKSLDLFNCEVTNLNDYRESVFRLLP
LSD.RIFGGLD.L..KL.NLTHL.LSGNKLKDISTLEPLKKLDCLKSLDLFNCEVT.LND.R...FRLL.
RetrocopyLSDSRIFGGLDTLVGKLRNLTHLDLSGNKLKDISTLEPLKKLDCLKSLDLFNCEVTYLNDHRQRFFRLLT
ParentalQLTYLDGY-DREDREAPDSDAEVDGVDEEEDDE
Q.T.LD...DRED..A.DSDA.VDGVDEEEDDE
RetrocopyQVTSLDAK<DREDQVAFDSDAKVDGVDEEEDDE

Legend:
*Stop codon
>Forward frameshift by one nucleotide
<Reverse frameshift by one nucleotide






RNA-Seq - click to see more details

Choloepus hoffmanni was not studied using RNA-Seq expression data.

ChIP-Seq - click to see more details

Choloepus hoffmanni was not studied using ChIP-Seq data.

EST - click to see more details

Choloepus hoffmanni was not studied using EST data.

TSS - click to see more details

Choloepus hoffmanni was not studied using FANTOM5 data.

Lab - click to see more details

retro_chof_1456 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 18 parental genes, and 43 retrocopies.

Species Parental gene accession Retrocopies number
Choloepus hoffmanni ENSCHOG00000005149 6 retrocopies
retro_chof_1293, retro_chof_1456 , retro_chof_19, retro_chof_2244, retro_chof_588, retro_chof_681,
Cavia porcellus ENSCPOG000000201183 retrocopies
retro_cpor_1336, retro_cpor_493, retro_cpor_509,
Equus caballus ENSECAG000000123102 retrocopies
retro_ecab_246, retro_ecab_826,
Echinops telfairi ENSETEG000000155144 retrocopies
retro_etel_2053, retro_etel_2167, retro_etel_510, retro_etel_677,
Homo sapiens ENSG000001369382 retrocopies
retro_hsap_1597, retro_hsap_1603,
Myotis lucifugus ENSMLUG000000048442 retrocopies
retro_mluc_1787, retro_mluc_1788,
Macaca mulatta ENSMMUG000000122421 retrocopy
retro_mmul_2600,
Monodelphis domestica ENSMODG000000032611 retrocopy
retro_mdom_763,
Mustela putorius furoENSMPUG000000064331 retrocopy
retro_mputfur_1392,
Mus musculus ENSMUSG000000283331 retrocopy
retro_mmus_2399,
Nomascus leucogenys ENSNLEG000000169411 retrocopy
retro_nleu_3009,
Otolemur garnettii ENSOGAG000000060912 retrocopies
retro_ogar_1915, retro_ogar_3282,
Pongo abelii ENSPPYG000000194302 retrocopies
retro_pabe_1312, retro_pabe_1316,
Pan troglodytes ENSPTRG000000211723 retrocopies
retro_ptro_1073, retro_ptro_1075, retro_ptro_40,
Pteropus vampyrus ENSPVAG000000065691 retrocopy
retro_pvam_699,
Sorex araneus ENSSARG000000008041 retrocopy
retro_sara_549,
Tupaia belangeri ENSTBEG000000021898 retrocopies
retro_tbel_1659, retro_tbel_2710, retro_tbel_2772, retro_tbel_3770, retro_tbel_3863, retro_tbel_4351, retro_tbel_4361, retro_tbel_491,
Tursiops truncatus ENSTTRG000000108252 retrocopies
retro_ttru_1899, retro_ttru_341,


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