RetrogeneDB ID:

retro_chof_876

Retrocopy
location
Organism:Sloth (Choloepus hoffmanni)
Coordinates:scaffold_16002:1700..2159(-)
Located in intron of:None
Retrocopy
information
Ensembl ID:None
Aliases:None
Status:NOVEL
Parental gene
information
Parental gene summary:
Parental gene symbol:SRGN
Ensembl ID:ENSCHOG00000000448
Aliases:None
Description:serglycin [Source:HGNC Symbol;Acc:9361]


Retrocopy-Parental alignment summary:






>retro_chof_876
ATACAGAGGATCCTCCAGTGCGTTAGGCTTGTCCTGGCTGTCTCATTCACCCTGATTTGGGAATCTTCAGTTCAAGGTTA
TCCCATGCAGAGAGCCAGGTACCAGGGGGTGTGCTGCAGCCCAGACAGTATTTCTGCAAACTGTGTTGAGGAGAAGGGAC
CAGTGTTCAATCTGCATCCTGATGAATCTAGCAGGATCCTCCCTCCAAGGATTGACCCTTTATCAATGATGAGGTTCCCG
AACATGCACGATGTGTTCCCTCTTCCTGAGGACTAGTCTGGATCAGGCTCTGGCTCTGGATCGGGCCTTGGAAGTGGATT
CCTATCTGAGATGGAACAAGAACATGAACCAATAGATGAGGATGATGCTCTCCATTACAATGTTCAGCCTTTCAATAGGA
ATCTGCCTTCAGACTAACAGGACTTGGGTCAAGATGGATCAGAAGATTATTTTATTATG

ORF - retro_chof_876 Open Reading Frame is not conserved.
Retrocopy - Parental Gene Alignment summary:
Percent Identity: 71.9 %
Parental protein coverage: 99.35 %
Number of stop codons detected: 2
Number of frameshifts detected 0


Retrocopy - Parental Gene Alignment:

ParentalVEFFLQCGRLVLALSI-LIGESSVQGYPMRRARYQWVRCSPDSNSANCIEEKGPVFNLPPGESNRLLPPR
....LQC.RLVLA.S..LI.ESSVQGYPM.RARYQ.V.CSPDS.SANC.EEKGPVFNL.P.ES.R.LPPR
RetrocopyIQRILQCVRLVLAVSFTLIWESSVQGYPMQRARYQGVCCSPDSISANCVEEKGPVFNLHPDESSRILPPR
ParentalTDSLPMKSLLNVQEVFPLSEDYSGSGSGSGSGSGGGFLTEMEQEYEPVDGDDALQYNVQPFKRNLPSDYQ
.D.L.M....N...VFPL.ED.SGSGSGSGSG.G.GFL.EMEQE.EP.D.DDAL.YNVQPF.RNLPSD.Q
RetrocopyIDPLSMMRFPNMHDVFPLPED*SGSGSGSGSGLGSGFLSEMEQEHEPIDEDDALHYNVQPFNRNLPSD*Q
ParentalDLDQDGSEDDFMI
DL.QDGSED.F..
RetrocopyDLGQDGSEDYFIM

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_876 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 3 parental genes, and 12 retrocopies.

Species Parental gene accession Retrocopies number
Ailuropoda melanoleuca ENSAMEG000000179691 retrocopy
Choloepus hoffmanni ENSCHOG00000000448 9 retrocopies
Dasypus novemcinctus ENSDNOG000000068892 retrocopies



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