RetrogeneDB ID:

retro_chof_2564

Retrocopy
location
Organism:Sloth (Choloepus hoffmanni)
Coordinates:scaffold_86533:3064..3630(-)
Located in intron of:None
Retrocopy
information
Ensembl ID:None
Aliases:None
Status:NOVEL
Parental gene
information
Parental gene summary:
Parental gene symbol:None
Ensembl ID:ENSCHOG00000006810
Aliases:None
Description:None


Retrocopy-Parental alignment summary:






>retro_chof_2564
CATGGCTTGGGCCATGGCTTTGTGAACTATGTGACTGTGGAAGACACAGAAAGAGCAATAAGCATGCTGAATGGCCTGAG
ACTCCAGTTAAAAACCATGAAGGTGTTGTATGCATGCCTGAGCTTAGAGGTCATCAAAGATACCAACTTGTACATCAGTG
GACTTCTGACGACCCAGAAGGACACGGAGGACATGTTCCCTTGGTTTGGATGAATCATCAACTCCTCTGTCCCCATGGAT
CGACCACAGGTTTGTCCAGAGGGGTTGTGTTTATCCAGTTTGACAAATGATCAGAAGCAGAAGAGGCAATTACCAGTTTC
AATGGTCATAATTCCACAGGTTTCTCTGAGCCCATTACAATGAAGTTTGCCGTCAATCCCCACCAGAACAAAAATGTGGC
CTTGTTCTCCCAGTGATACCACTCACCATTTAGACGGTTCTCAGGGCCAGTTCATTACCAGGCACAGAGATTCAGGTTCT
CCCCTACGGGTATTGATCACATGAGTGGGCTTTCTGGTGTAAATGTTCCAGGAAACGCTTCTTCGGGCTGGTGCATCTTC
TTCTGG

ORF - retro_chof_2564 Open Reading Frame is not conserved.
Retrocopy - Parental Gene Alignment summary:
Percent Identity: 76.04 %
Parental protein coverage: 71.27 %
Number of stop codons detected: 3
Number of frameshifts detected 1


Retrocopy - Parental Gene Alignment:

ParentalHSLGYGFVNYVTAKDAERAINTLNGLRLQSKTIKVSYARPSSEVIKDANLYISGLPRTMTQKDVEDMFSR
H.LG.GFVNYVT..D.ERAI..LNGLRLQ.KT.KV.YA..S.EVIKD.NLYISGL....TQKD.EDMF..
RetrocopyHGLGHGFVNYVTVEDTERAISMLNGLRLQLKTMKVLYACLSLEVIKDTNLYISGL--LTTQKDTEDMFPW
ParentalFGRIINSRVLVDQ-TTGLSRGVAFIRFDKRSEAEEAITSFNGHKPPGSSEPITVKFAANPNQNKNVALLS
FG.IINS.V..D..TTGLSRGV.FI.FDK.SEAEEAITSFNGH...G.SEPIT.KFA.NP.QNKNVAL.S
RetrocopyFG*IINSSVPMDR<TTGLSRGVVFIQFDK*SEAEEAITSFNGHNSTGFSEPITMKFAVNPHQNKNVALFS
ParentalQLYHSPARRFGGPVHHQAQRFRFSPMGVDHMSGLSGVNVPGNASSGWCIFIY
Q.YHSP.RRF.GPVH.QAQRFRFSP.G.DHMSGLSGVNVPGNASSGWCIF..
RetrocopyQ*YHSPFRRFSGPVHYQAQRFRFSPTGIDHMSGLSGVNVPGNASSGWCIFFW

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_2564 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 6 parental genes, and 9 retrocopies.

Species Parental gene accession Retrocopies number
Canis familiaris ENSCAFG000000183531 retrocopy
Choloepus hoffmanni ENSCHOG000000024641 retrocopy
Choloepus hoffmanni ENSCHOG000000053273 retrocopies
Choloepus hoffmanni ENSCHOG00000006810 2 retrocopies
retro_chof_2564 , retro_chof_44,
Choloepus hoffmanni ENSCHOG000000081781 retrocopy
Tupaia belangeri ENSTBEG000000150381 retrocopy



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