RetrogeneDB ID:

retro_nleu_1584

Retrocopy
location
Organism:Gibbon (Nomascus leucogenys)
Coordinates:GL397300.1:15096469..15097186(+)
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:ENSNLEG00000001476
Aliases:None
Description:None


Retrocopy-Parental alignment summary:






>retro_nleu_1584
ATGGGAAAGGACTTCTTCAAGTATGCCTGGGTCTTGGATAAAATGAAAGCTGAGCATGAACATGGTATCACCATTGATAT
CTCCCTATGAAAATATGAGAACAGCAAGTATTACGTGACTATCATTGATGTTCCAGAAGACAGAGACTTTATCAATAACA
TGATTATAGGGACATCTCAGGCTGACTGTGCTGTTCTGATTGTTGCTGCTGGTGTTGGAGAATTTAAAGCTGGTATCTCC
AAAAATGGGCAGACCTGTCAGCATGCCCTTCTGGCTTATAGGCTGAGTGTGAAGCAACTAATTGGTGTTAACAAAATGGA
TTCCACTGAGCCACCCTACAGCCAATAGAGATACGACGAAATCATTAAGGAAGTCAGCACTTACATTAAGAAAATTGGCT
ACAACCCCGACACAGTAGCATTTGTGCCAACTTCTGGTGGGAATAGTGACAACATGCTGAAGCCAACTGATAACATGCCT
TGGTTCATGGGATAGAAAGTCACCCATAAAGATGGTAATGCCAGGGGAACCATGCTGCTCGAAGCTCTGGACTGCATCCT
ACCACCAACTCATCCAACTGACAAACCCTTGCATCTGTCTCTCCAGTATGTCTACAAAACTGGTGATATTGGTACTGTGC
CTATAGGCCAAGTGAAGACTGGTGTTCTCAAACCCGGAATGGTGGTCACCTTTGCTCCAGTCAATGTTAGAACTGAA

ORF - retro_nleu_1584 Open Reading Frame is not conserved.
Retrocopy - Parental Gene Alignment summary:
Percent Identity: 82.08 %
Parental protein coverage: 57.97 %
Number of stop codons detected: 3
Number of frameshifts detected 0


Retrocopy - Parental Gene Alignment:

ParentalMGKGSFKYAWVLDKLKAERERGITIDISLWKFETSKYYVTIIDAPGHRDFIKNMITGTSQADCAVLIVAA
MGK..FKYAWVLDK.KAE.E.GITIDISL.K.E.SKYYVTIID.P..RDFI.NMI.GTSQADCAVLIVAA
RetrocopyMGKDFFKYAWVLDKMKAEHEHGITIDISL*KYENSKYYVTIIDVPEDRDFINNMIIGTSQADCAVLIVAA
ParentalGVGEFEAGISKNGQTREHALLAYTLGVKQLIVGVNKMDSTEPPYSQKRYEEIVKEVSTYIKKIGYNPDTV
GVGEF.AGISKNGQT..HALLAY.L.VKQLI.GVNKMDSTEPPYSQ.RY.EI.KEVSTYIKKIGYNPDTV
RetrocopyGVGEFKAGISKNGQTCQHALLAYRLSVKQLI-GVNKMDSTEPPYSQ*RYDEIIKEVSTYIKKIGYNPDTV
ParentalAFVPISGWNGDNMLEPSANMPWFKGWKVTRKDGNASGTTLLEALDCILPPTRPTDKPLRLPLQDVYKIGG
AFVP.SG.N.DNML.P..NMPWF.G.KVT.KDGNA.GT.LLEALDCILPPT.PTDKPL.L.LQ.VYK.G.
RetrocopyAFVPTSGGNSDNMLKPTDNMPWFMG*KVTHKDGNARGTMLLEALDCILPPTHPTDKPLHLSLQYVYKTGD
ParentalIGTVPVGRVETGVLKPGMVVTFAPVNVTTE
IGTVP.G.V.TGVLKPGMVVTFAPVNV.TE
RetrocopyIGTVPIGQVKTGVLKPGMVVTFAPVNVRTE

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






Nomascus leucogenys was not studied using RNA-Seq expression data.
Nomascus leucogenys was not studied using ChIP-Seq data.
Nomascus leucogenys was not studied using EST data.
Nomascus leucogenys was not studied using FANTOM5 data.
retro_nleu_1584 was not experimentally validated.

Retrocopy orthology:
Nomascus leucogenys 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 12 parental genes, and 54 retrocopies.

Species Parental gene accession Retrocopies number
Canis familiaris ENSCAFG000000132491 retrocopy
Cavia porcellus ENSCPOG0000000406715 retrocopies
Dipodomys ordii ENSDORG000000096291 retrocopy
Equus caballus ENSECAG000000222601 retrocopy
Erinaceus europaeus ENSEEUG000000003423 retrocopies
Loxodonta africana ENSLAFG000000280811 retrocopy
Monodelphis domestica ENSMODG000000185334 retrocopies
Mus musculus ENSMUSG0000003774215 retrocopies
Nomascus leucogenys ENSNLEG00000001476 6 retrocopies
Nomascus leucogenys ENSNLEG000000100602 retrocopies
Ictidomys tridecemlineatus ENSSTOG000000076874 retrocopies
Drosophila melanogaster FBgn00005571 retrocopy



Copyright © RetrogeneDB 2014-2017