RetrogeneDB ID:

retro_ogar_3139

Retrocopy
location
Organism:Bushbaby (Otolemur garnettii)
Coordinates:GL873727.1:2441922..2442574(-)
Located in intron of:None
Retrocopy
information
Ensembl ID:ENSOGAG00000025935
Aliases:None
Status:KNOWN_PSEUDOGENE
Parental gene
information
Parental gene summary:
Parental gene symbol:RRP36
Ensembl ID:ENSOGAG00000012699
Aliases:None
Description:ribosomal RNA processing 36 homolog (S. cerevisiae) [Source:HGNC Symbol;Acc:21374]


Retrocopy-Parental alignment summary:






>retro_ogar_3139
CAGTTCGGTACATGGAACATGTCATTTGAGTACTTTTTGGAATTACAGAGCCAAGCGGGCACTAAGACATAGAAACAGTT
GGTAGCTGCAAACAGCTCTAAGAAACAGGTTTCTAGACCACCTGCCCAAAGCCCAGGTGTTGCAGATAAGCACAGGTCTT
TGGAAATGTCAGCCAAGATCCAAGTACCATTTTTACGGCAGGTTGTCCCCCTCTGTAAAACGGTAGCCCGGGAACCCCGC
TTTAATGATCTGTCAGGGGAATATAATCCTGAGGTGTTTGACAAAACATACCAATTCTTGGATAACATCTGACCCAAGGA
AAAAGAGCTTGTGAAAAAGCAGTTGAAGAAGCACGTTCAGGGGAGCAGCATGAGAAGCTGCAGCAGCTGCTTCGGAAAAT
GGAGCGGCAAGAAAAGGCACAGCAGGAAGGAAAGCTGCAGCGGGAGTTGCGCCTGGCCCTGAAGCATGGACCGCGGGCTC
AGGCCCAGGAGGCCCATCGGCCTTACTTCCTAAAGAAATCTGAGCAGCGCAGTTGGCCCTAGCTGAGAAGTTCAAAGAGC
TGAGACGCAGAAGGAAGCTGGAGAGCTTCTTGAAAAGAAAGAGGCTCTGAAATGCAGACAAGGACAAGAGATAGCTCCCT
TTGAGCAAAGAG

ORF - retro_ogar_3139 Open Reading Frame is not conserved.
Retrocopy - Parental Gene Alignment summary:
Percent Identity: 83.64 %
Parental protein coverage: 94.78 %
Number of stop codons detected: 4
Number of frameshifts detected 2


Retrocopy - Parental Gene Alignment:

ParentalQRGISNMSFEELLELQSQVGTKTYKQFVTANSTKKQVSRPPIQSPGVADKHRPLEMSAKIRVPFLRQVVP
Q.G..NMSFE..LELQSQ.GTKT.KQ.V.ANS.KKQVSRPP.QSPGVADKHR.LEMSAKI.VPFLRQVVP
RetrocopyQFGTWNMSFEYFLELQSQAGTKT*KQLVAANSSKKQVSRPPAQSPGVADKHRSLEMSAKIQVPFLRQVVP
ParentalICKKVARDPRFDDLSGEYNPEVFDKTYQFLDDIRAKEKELVKKQLKKH-RSGEQHEKLQQLLQRMERQEM
.CK.VAR.PRF.DLSGEYNPEVFDKTYQFLD.I..KEKELVKKQLKKH.RSGEQHEKLQQLL..MERQE.
RetrocopyLCKTVAREPRFNDLSGEYNPEVFDKTYQFLDNI*PKEKELVKKQLKKH<RSGEQHEKLQQLLRKMERQEK
ParentalAQQERKRQQELRLALKHERRAQAQEGHRPYFLKKSEQR-QLALAEKFKELRRRRKLESFLSRKRRRNAGK
AQQE.K.Q.ELRLALKH..RAQAQE.HRPYFLKKSEQR.QLALAEKFKELRRRRKLESFL.RKR..NA.K
RetrocopyAQQEGKLQRELRLALKHGPRAQAQEAHRPYFLKKSEQR<QLALAEKFKELRRRRKLESFLKRKRL*NADK
ParentalDKRQLPLSKE
DKR.LPLSKE
RetrocopyDKR*LPLSKE

Legend:
*Stop codon
>Forward frameshift by one nucleotide
<Reverse frameshift by one nucleotide






Otolemur garnettii was not studied using RNA-Seq expression data.
Otolemur garnettii was not studied using ChIP-Seq data.
Otolemur garnettii was not studied using EST data.
Otolemur garnettii was not studied using FANTOM5 data.
retro_ogar_3139 was not experimentally validated.

Retrocopy orthology:
Otolemur garnettii 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 3 retrocopies.

Species Parental gene accession Retrocopies number
Choloepus hoffmanni ENSCHOG000000125251 retrocopy
Otolemur garnettii ENSOGAG00000012699 1 retrocopy
retro_ogar_3139 ,
Ictidomys tridecemlineatus ENSSTOG000000095111 retrocopy



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