RetrogeneDB ID:

retro_chof_1070

Retrocopy
location
Organism:Sloth (Choloepus hoffmanni)
Coordinates:scaffold_19362:13156..13567(-)
Located in intron of:None
Retrocopy
information
Ensembl ID:None
Aliases:None
Status:NOVEL
Parental gene
information
Parental gene summary:
Parental gene symbol:SPC25
Ensembl ID:ENSCHOG00000013303
Aliases:None
Description:SPC25, NDC80 kinetochore complex component [Source:HGNC Symbol;Acc:24031]


Retrocopy-Parental alignment summary:






>retro_chof_1070
CACAAGGACTCCATTAAAGCATTTGCAGAAAAGCTGTCTGTGAAGTTAAAGGAAGAAGACCGAATGGTTGAGATGTTTCT
GGAATATCAAAATCAGATCTGCCGGCAGAATAAGCTCATTCAGGAAAAAAAAGATAACTTGTTAAAGTTGATTGCTGAAG
TAAAACACAAAAAGCAAGAAATGGAAGTATTGACTGCAAATTTCTGGGATCATAAAGAAGAATAAGCAAAGAAGAAGGAA
ACTATTTCCACTGCTGACAAAGCTAATGAAGAGAGGTTGAAAAGGCTGCAGAAATCTGCAGACTTATATCAAGATTGACT
TGGACTAGAAATTCGAAAACTTTATGCTGATAAATTAGAGTTTATATTCACTAATATTGACCCTAAGCATCCTTAGAATC
CATATGTTTTC

ORF - retro_chof_1070 Open Reading Frame is not conserved.
Retrocopy - Parental Gene Alignment summary:
Percent Identity: 84.67 %
Parental protein coverage: 60.62 %
Number of stop codons detected: 3
Number of frameshifts detected 0


Retrocopy - Parental Gene Alignment:

ParentalYKDSIKAFAEKLSMKLKEEDRMVEMFLEYQNQICQQNQRIQEKKDNLLKLIAEVKCKKQEMEVLTANIQD
.KDSIKAFAEKLS.KLKEEDRMVEMFLEYQNQIC.QN..IQ...DNLLKLIAEVK.KKQEMEVLTAN..D
RetrocopyHKDSIKAFAEKLSVKLKEEDRMVEMFLEYQNQICRQNKLIQXXXDNLLKLIAEVKHKKQEMEVLTANFWD
ParentalLKEEYAKKKETISTANKANEERLKRLQKSADLYKDRLGLEIRKIYGDKLQFIFTNIDPKHPENPYMF
.KEE.AKKKETISTA.KANEERLKRLQKSADLY.D.LGLEIRK.Y.DKL.FIFTNIDPKHP.NPY.F
RetrocopyHKEE*AKKKETISTADKANEERLKRLQKSADLYQD*LGLEIRKLYADKLEFIFTNIDPKHP*NPYVF

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_1070 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 8 parental genes, and 11 retrocopies.

Species Parental gene accession Retrocopies number
Choloepus hoffmanni ENSCHOG00000013303 4 retrocopies
Cavia porcellus ENSCPOG000000059261 retrocopy
Dasypus novemcinctus ENSDNOG000000044291 retrocopy
Echinops telfairi ENSETEG000000156421 retrocopy
Loxodonta africana ENSLAFG000000046681 retrocopy
Monodelphis domestica ENSMODG000000077531 retrocopy
Tupaia belangeri ENSTBEG000000125591 retrocopy
Tursiops truncatus ENSTTRG000000061121 retrocopy



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