RetrogeneDB ID:

retro_chof_1703

Retrocopy
location
Organism:Sloth (Choloepus hoffmanni)
Coordinates:scaffold_362247:665..1178(+)
Located in intron of:None
Retrocopy
information
Ensembl ID:None
Aliases:None
Status:NOVEL
Parental gene
information
Parental gene summary:
Parental gene symbol:YWHAZ
Ensembl ID:ENSCHOG00000002798
Aliases:None
Description:tyrosine 3-monooxygenase/tryptophan 5-monooxygenase activation protein, zeta polypeptide [Source:HGNC Symbol;Acc:12855]


Retrocopy-Parental alignment summary:






>retro_chof_1703
AAAGGAATCTTCTCTCAGTTGCTTATAAAAATTGTAGGAGCTCATAGGTCATCTTGGAGGGTTGTCTCAAGTATTGAGCA
AAAGACAGAAGGTGCTGAGAAAAAACAGCAGATGGCTCGAGAATACAGAGAAAACTGAGACCAAGGTAAGAGATATCTGC
AATGATGTACTGTCTCTTTTGAAAAACTTCTTGATCCCTCATGAGCAGAGAGCAAACTCTTCTATTTGAAAATGAAAGGA
GACTACTATCATTACTTGGCCGAGGTTGCTGCTGGTGATGACAAGAAAGGGATTGTGTATCAGTCACAACAAGCATCCCA
AGAAGCATTTGAAATCAGCAAAAAGGAAATGCAACCAATGCATCCTATCAGATTGGGTCTAGCCCTTAACATTTCTGTGT
TCTATTATGAGATTCTGAACTCCCCAGAGAAAGCCTGCTCTCTTGCAAAGACAGCTTTTGATGAAGCCATTGCTGAAATT
GATACATTAAGTGAAGAGTCATACAAAGACAGC

ORF - retro_chof_1703 Open Reading Frame is not conserved.
Retrocopy - Parental Gene Alignment summary:
Percent Identity: 77.84 %
Parental protein coverage: 75.98 %
Number of stop codons detected: 1
Number of frameshifts detected 2


Retrocopy - Parental Gene Alignment:

ParentalRNLLSVAYKNVVGARRSSWRVVSSIEQKTEGAEKKQQMAR-EYREKIETELRDICNDVLSLL-EKFLIPN
....S......VGA.RSSWRVVSSIEQKTEGAE.K.Q....E..EK.ET..RDICNDVLSLL.EK.L.P.
RetrocopyKGIFSQLLIKIVGAHRSSWRVVSSIEQKTEGAE-KKQQMA>ENTEKTETKVRDICNDVLSLL<EKLLDP-
ParentalASQAESKVFYLKMKGDYYRYLAEVAAGDDKXXIVDQSQQAYQEAFEISKKEMQPTHPIRLGLALNFSVFY
.S.AESK.FYLKMKGDYY.YLAEVAAGDDK..IV.QSQQA.QEAFEISKKEMQP.HPIRLGLALN.SVFY
Retrocopy-S*AESKLFYLKMKGDYYHYLAEVAAGDDKKGIVYQSQQASQEAFEISKKEMQPMHPIRLGLALNISVFY
ParentalYEILNSPEKACSLAKTAFDEAIAELDTLSEESLGDS
YEILNSPEKACSLAKTAFDEAIAE.DTLSEES..DS
RetrocopyYEILNSPEKACSLAKTAFDEAIAEIDTLSEESYKDS

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_1703 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 27 parental genes, and 124 retrocopies.

Species Parental gene accession Retrocopies number
Anolis carolinensis ENSACAG000000086942 retrocopies
Bos taurus ENSBTAG000000002364 retrocopies
Canis familiaris ENSCAFG000000005806 retrocopies
Choloepus hoffmanni ENSCHOG00000002798 9 retrocopies
Choloepus hoffmanni ENSCHOG0000000466113 retrocopies
Choloepus hoffmanni ENSCHOG0000000578215 retrocopies
Choloepus hoffmanni ENSCHOG000000108612 retrocopies
Callithrix jacchus ENSCJAG000000158445 retrocopies
Cavia porcellus ENSCPOG000000202855 retrocopies
Dasypus novemcinctus ENSDNOG0000000167210 retrocopies
Ficedula albicollis ENSFALG000000058601 retrocopy
Felis catus ENSFCAG000000320174 retrocopies
Gallus gallus ENSGALG000000107251 retrocopy
Gorilla gorilla ENSGGOG000000221339 retrocopies
Loxodonta africana ENSLAFG000000049442 retrocopies
Myotis lucifugus ENSMLUG000000173233 retrocopies
Macaca mulatta ENSMMUG000000064897 retrocopies
Mus musculus ENSMUSG000000222853 retrocopies
Oryctolagus cuniculus ENSOCUG000000007342 retrocopies
Pongo abelii ENSPPYG000000187917 retrocopies
Pelodiscus sinensis ENSPSIG000000037031 retrocopy
Sarcophilus harrisii ENSSHAG000000126712 retrocopies
Sus scrofa ENSSSCG000000060622 retrocopies
Ictidomys tridecemlineatus ENSSTOG000000238643 retrocopies
Taeniopygia guttata ENSTGUG000000120781 retrocopy
Tursiops truncatus ENSTTRG000000159064 retrocopies
Vicugna pacos ENSVPAG000000058651 retrocopy



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