RetrogeneDB ID:

retro_chof_1299

Retrocopy
location
Organism:Sloth (Choloepus hoffmanni)
Coordinates:scaffold_25396:11217..11637(-)
Located in intron of:None
Retrocopy
information
Ensembl ID:None
Aliases:None
Status:NOVEL
Parental gene
information
Parental gene summary:
Parental gene symbol:AP1S3
Ensembl ID:ENSCHOG00000011939
Aliases:None
Description:adaptor-related protein complex 1, sigma 3 subunit [Source:HGNC Symbol;Acc:18971]


Retrocopy-Parental alignment summary:






>retro_chof_1299
TTTATGTTGCTTTTTAGTCATCAGGGAAAGCTTCGACTGCAGAAATGGTATGTCCCACTGTCAGACCAAAAGAAGAAAAA
GATCACAAGGGAATTTGTTCAAACTGTTTTAGCATGTAAACCTAAGACTTGCAGCTTTCTTGAGTGGCAAGATCTGAAGA
TTGTTTAGAGAAGATCTGCTAGTCTGTGCTTTTGCTGTGCTTTTGATGACCATGACAGTGAACTGATTACCCTGGAAATA
ATTCATCCTTACATGGAATTACTTGACAAGTATTTTGGCAGCATGTGTGAACTCGATATCATCTTTGATTTTGAGAAGGC
TTATTTTACTTTGGATGAGTTTCTGTTGGGAGGGGTAGTTAAGTAAGTATCCAAGAAAAATGTCCTCAAGGCCACTGAGC
AAGCAGAGCTCCTGCAGAAG

ORF - retro_chof_1299 Open Reading Frame is not conserved.
Retrocopy - Parental Gene Alignment summary:
Percent Identity: 59.29 %
Parental protein coverage: 98.59 %
Number of stop codons detected: 2
Number of frameshifts detected 0


Retrocopy - Parental Gene Alignment:

ParentalFILLFSRQGKLRLQKWYTTLPDKERKKVTREIIQIILSRGQRTSSFVDWKELKLVYKRYASLYFCCAVEN
F.LLFS.QGKLRLQKWY..L.D...KK.TRE..Q..L.....T.SF..W..LK.V..R.ASL.FCCA...
RetrocopyFMLLFSHQGKLRLQKWYVPLSDQKKKKITREFVQTVLACKPKTCSFLEWQDLKIV*RRSASLCFCCAFDD
ParentalQDNELLTLEIVHRYVELLDKYFGNVCELDIIFNFEKAYFILDEFIIGGEIQETSKKSAVKAIEDSDMLQE
.D.EL.TLEI.H.Y.ELLDKYFG..CELDIIF.FEKAYF.LDEF..GG.....SKK...KA.E....LQ.
RetrocopyHDSELITLEIIHPYMELLDKYFGSMCELDIIFDFEKAYFTLDEFLLGGVVK*VSKKNVLKATEQAELLQK

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.