RetrogeneDB ID:

retro_chof_369

Retrocopy
location
Organism:Sloth (Choloepus hoffmanni)
Coordinates:scaffold_100646:7529..7901(-)
Located in intron of:None
Retrocopy
information
Ensembl ID:None
Aliases:None
Status:NOVEL
Parental gene
information
Parental gene summary:
Parental gene symbol:EIF4E2
Ensembl ID:ENSCHOG00000013109
Aliases:None
Description:eukaryotic translation initiation factor 4E family member 2 [Source:HGNC Symbol;Acc:3293]


Retrocopy-Parental alignment summary:






>retro_chof_369
AACAAGTTTGTTGCCTTGAAAGATGACAACAGTAGGGACCATGATCAGAATGAAGAAAACAGCACACTTAGAAAGATGGT
GAGAAGGAAAAAAACAGAACCAGACAAGAGTCAGAGCAGCAGCAAGAGGAAGGCTGTTGTCCCAGGACCAGCAGAGCATC
CCCTGCAGTACAACTACACATTCTGGCACTCCCGGAGAACCCCCCGCCGTCCCACCAGCTACCAGAGCTATGAACAGAAT
ATCAAGCAGATCGGCACCTTTGCCTCTGTGGAGCAGTTCTGGAGGTTTTACAGCCATATACTGCGTCCCGGGGACTTGAC
TGGCCACAGTGACTTCCATCTCTTCAAAGAAGGTGTTAAGCCCGTGTGGGAG

ORF - retro_chof_369 Open Reading Frame is not conserved.
Retrocopy - Parental Gene Alignment summary:
Percent Identity: 80.95 %
Parental protein coverage: 50.2 %
Number of stop codons detected: 1
Number of frameshifts detected 2


Retrocopy - Parental Gene Alignment:

ParentalNKFDALK-DDDSGDHDQNEENS-TQKDGEKEK-TERDKSQSSSKRKAVVPGPAEHPLQYNYTFWYSRRTP
NKF.ALK.D.........E....T.KDGEKEK.TE.DKSQSSSKRKAVVPGPAEHPLQYNYTFW.SRRTP
RetrocopyNKFVALKDDNSRDHDQNEENST<T*KDGEKEK>TEPDKSQSSSKRKAVVPGPAEHPLQYNYTFWHSRRTP
ParentalGRPTSSQSYEQNIKQIGTFASVEQFWRFYSHMVRPGDLTGHSDFHLFKEGVKPMWE
.RPTS.QSYEQNIKQIGTFASVEQFWRFYSH..RPGDLTGHSDFHLFKEGVKP.WE
RetrocopyRRPTSYQSYEQNIKQIGTFASVEQFWRFYSHILRPGDLTGHSDFHLFKEGVKPVWE

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_369 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 11 parental genes, and 24 retrocopies.

Species Parental gene accession Retrocopies number
Ailuropoda melanoleuca ENSAMEG000000164561 retrocopy
Canis familiaris ENSCAFG000000113281 retrocopy
Choloepus hoffmanni ENSCHOG000000094509 retrocopies
Choloepus hoffmanni ENSCHOG00000013109 3 retrocopies
retro_chof_1963, retro_chof_369 , retro_chof_567,
Callithrix jacchus ENSCJAG000000137862 retrocopies
Echinops telfairi ENSETEG000000079301 retrocopy
Microcebus murinus ENSMICG000000150822 retrocopies
Myotis lucifugus ENSMLUG000000112691 retrocopy
Mustela putorius furoENSMPUG000000052062 retrocopies
Otolemur garnettii ENSOGAG000000091551 retrocopy
Sarcophilus harrisii ENSSHAG000000131081 retrocopy



Copyright © RetrogeneDB 2014-2017