RetrogeneDB ID:

retro_ogar_411

Retrocopy
location
Organism:Bushbaby (Otolemur garnettii)
Coordinates:GL873521.1:8647572..8648170(+)
Located in intron of:None
Retrocopy
information
Ensembl ID:None
Aliases:None
Status:NOVEL
Parental gene
information
Parental gene summary:
Parental gene symbol:NFYC
Ensembl ID:ENSOGAG00000012614
Aliases:None
Description:nuclear transcription factor Y, gamma [Source:HGNC Symbol;Acc:7806]


Retrocopy-Parental alignment summary:






>retro_ogar_411
TCTGTAACTGCCGCTGAGTCTGTCCAGTACTACTTCACGCTGGCTCAGCAGCCCACTGCCGTCCAAGTCCAGGGGCAGCA
GCAAGGCCAGCAGACTGCCAGCTCCACGGGCCACCATCCAGCCTGGGCAGATCATCATAGCACAGCCTCATCAGGGCCAG
ACCACACCTGTGACCATGCAAGTTAGAGAAGGTCAGCAGGTGCAGATTGTCTAGGCGCAGCGGCAGGCTCAAGCTCAACA
GGTCCAGAGTGGCAGTGGACAGACCATGCAGATGATGTAACAGATCATCATGAACACAGGGGAGATCCTGCAGATCCCAG
TACAGCTCAGTACTGGCCAGCTGCAGTGTGTCCACTTAGCCTAGCCTGTATCAGGCGCCCAAGTCGTGCAGGGACAGATC
CAGACACTTGCCACCAAGCCCAACAGATTACACAGACAGGGACAGCAAGAGCAGCAGCAGTTCAGCCAGTTCAGAGATGG
ACAGCAGCTCTACTAGATCCAGCAAGTCACCATGCCTGCCGGCCAGGACCTCACCCAGCCCATGTTCATCCAGTCAGCCA
ACCAGCCCTCTGACAGGCAGGTCCCTCAAGTGATAGGA

ORF - retro_ogar_411 Open Reading Frame is not conserved.
Retrocopy - Parental Gene Alignment summary:
Percent Identity: 81.77 %
Parental protein coverage: 59.7 %
Number of stop codons detected: 4
Number of frameshifts detected 3


Retrocopy - Parental Gene Alignment:

ParentalSVTPAEPVQYYFTLAQQPTAVQVQGQQQGQQTTSST-TTIQPGQIIIAQPQQGQTTPVTMQVGEGQQVQI
SVT.AE.VQYYFTLAQQPTAVQVQGQQQGQQT.SST..TIQPGQIIIAQP.QGQTTPVTMQV.EGQQVQI
RetrocopySVTAAESVQYYFTLAQQPTAVQVQGQQQGQQTASST>ATIQPGQIIIAQPHQGQTTPVTMQVREGQQVQI
ParentalVQAQPQGQAQQAQSSSGQTMQVMQQIITNTGEIQQIPVQLNAGQLQYIRLAQPVSGTQVVQGQIQTLAT-
V.AQ.Q.QAQQ.QS.SGQTMQ.M.QII.NTGEI.QIPVQL..GQLQ...LA.PVSG.QVVQGQIQTLAT.
RetrocopyV*AQRQAQAQQVQSGSGQTMQMM*QIIMNTGEILQIPVQLSTGQLQCVHLA*PVSGAQVVQGQIQTLAT<
ParentalNAQQITQTEV-QQGQQQFSQFTDGQQLYQIQQVTMPAGQDLAQPMFIQSANQPSDGQAPQVTG
.AQQITQT...Q..Q.QFSQF.DGQQLY.IQQVTMPAGQDL.QPMFIQSANQPSD.Q.PQV.G
RetrocopyQAQQITQTGT>QEQQ-QFSQFRDGQQLY*IQQVTMPAGQDLTQPMFIQSANQPSDRQVPQVIG

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_411 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 11 parental genes, and 18 retrocopies.

Species Parental gene accession Retrocopies number
Anolis carolinensis ENSACAG000000125911 retrocopy
Bos taurus ENSBTAG000000219431 retrocopy
Callithrix jacchus ENSCJAG000000029871 retrocopy
Homo sapiens ENSG000000661362 retrocopies
Gorilla gorilla ENSGGOG000000073602 retrocopies
Macropus eugenii ENSMEUG000000044801 retrocopy
Macaca mulatta ENSMMUG000000149702 retrocopies
Mus musculus ENSMUSG000000328971 retrocopy
Otolemur garnettii ENSOGAG00000012614 2 retrocopies
retro_ogar_2147, retro_ogar_411 ,
Pongo abelii ENSPPYG000000014833 retrocopies
Pan troglodytes ENSPTRG000000005962 retrocopies



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