RetrogeneDB ID:

retro_amel_753

Retrocopy
location
Organism:Panda (Ailuropoda melanoleuca)
Coordinates:GL192608.1:790602..791090(+)
Located in intron of:None
Retrocopy
information
Ensembl ID:None
Aliases:None
Status:NOVEL
Parental gene
information
Parental gene summary:
Parental gene symbol:PRDX5
Ensembl ID:ENSAMEG00000017959
Aliases:None
Description:peroxiredoxin 5 [Source:HGNC Symbol;Acc:9355]


Retrocopy-Parental alignment summary:






>retro_amel_753
TTCAGCCACACTGCCTCAGCCATGGTCCCAATCAAGGTGTGAGATGCCATCCCTTCAGTGGTGGTTTTTGAAGGGGAGCC
TGGAACCAGGTGAACCTGGCAGAGCTGTTCAAGGGCAAGAAGGGAGTGCTGTTTGGAATCCCTGGGGCCTTTACCCCCAG
GCTGTCCCAAGACCCACTTGCCAGGGTTTGTGGAGCAGGCTGAAGCTCTGAGGCCAAAGGGATTCAGGTGGTAGCATGTC
TGAGTGCTGATGTTTTTGTGACTGAAGTGTGGGGACCAGCTCACAACTCAGGAGGCAAGGTTAGGCTCTTGGCTGACTCC
ACTGGGACCTTTGGGAAGGAAACAGGTGATTCATTGGTGTCTATCTTTGGAAATCGCCAGCTCAAGAGGTTCTCCATAGT
GGTAGAGGATGGCATAGTGAAGTCCCTGAATGTGGAGCTGGAGGGTGTAGGCCTCGCCTGTCGCCTGGCCCCCAACATCA
TCTCGCAG

ORF - retro_amel_753 Open Reading Frame is not conserved.
Retrocopy - Parental Gene Alignment summary:
Percent Identity: 78.36 %
Parental protein coverage: 76.71 %
Number of stop codons detected: 1
Number of frameshifts detected: 3


Retrocopy - Parental Gene Alignment:

ParentalFRSAASAMAPIKVGDAIPSVVVFEGEPG-NKVNLAELFKGKKGVLFGVPGAFT-PGCSKTHLPGFVEQAD
F...ASAM.PIKV.DAIPSVVVFEGEPG.N.VNLAELFKGKKGVLFG.PGAFT.PGC.KTHLPGFVEQA.
RetrocopyFSHTASAMVPIKV*DAIPSVVVFEGEPG<NQVNLAELFKGKKGVLFGIPGAFT>PGCPKTHLPGFVEQAE
ParentalALK-AKGVQVIACLSVNDVFVTEEWGRAHNSGGKVRLLADPTGAFGKETDLLLDDSLVSLFGNHRLKRFS
AL..AKG.QV.ACLS..DVFVTE.WG.AHNSGGKVRLLAD.TG.FGKET.....DSLVS.FGN..LKRFS
RetrocopyALR<AKGIQVVACLSA-DVFVTEVWGPAHNSGGKVRLLADSTGTFGKET----GDSLVSIFGNRQLKRFS
ParentalMVVEDGIVKSLNVEPDGTGLTCSLAPNILLQ
.VVEDGIVKSLNVE..G.GL.C.LAPNI..Q
RetrocopyIVVEDGIVKSLNVELEGVGLACRLAPNIISQ

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






RNA-Seq - click to see more details

Ailuropoda melanoleuca was not studied using RNA-Seq expression data.

ChIP-Seq - click to see more details

Ailuropoda melanoleuca was not studied using ChIP-Seq data.

EST - click to see more details

No EST(s) were mapped for retro_amel_753 retrocopy.

TSS - click to see more details

Ailuropoda melanoleuca was not studied using FANTOM5 data.

Lab - click to see more details

retro_amel_753 was not experimentally validated.

Retrocopy orthology:
Ailuropoda melanoleuca 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 16 parental genes, and 22 retrocopies.

Species Parental gene accession Retrocopies number
Ailuropoda melanoleuca ENSAMEG00000017959 1 retrocopy
retro_amel_753 ,
Bos taurus ENSBTAG000000086481 retrocopy
retro_btau_1364,
Callithrix jacchus ENSCJAG000000180141 retrocopy
retro_cjac_3013,
Dasypus novemcinctus ENSDNOG000000046471 retrocopy
retro_dnov_2664,
Equus caballus ENSECAG000000177472 retrocopies
retro_ecab_823, retro_ecab_844,
Echinops telfairi ENSETEG000000002643 retrocopies
retro_etel_1821, retro_etel_662, retro_etel_740,
Homo sapiens ENSG000001264321 retrocopy
retro_hsap_408,
Gorilla gorilla ENSGGOG000000013371 retrocopy
retro_ggor_404,
Loxodonta africana ENSLAFG000000256612 retrocopies
retro_lafr_132, retro_lafr_250,
Macaca mulatta ENSMMUG000000133971 retrocopy
retro_mmul_504,
Mustela putorius furoENSMPUG000000129071 retrocopy
retro_mputfur_1360,
Nomascus leucogenys ENSNLEG000000050032 retrocopies
retro_nleu_1007, retro_nleu_2228,
Procavia capensis ENSPCAG000000108111 retrocopy
retro_pcap_144,
Pongo abelii ENSPPYG000000031061 retrocopy
retro_pabe_310,
Pan troglodytes ENSPTRG000000038351 retrocopy
retro_ptro_313,
Sus scrofa ENSSSCG000000130302 retrocopies
retro_sscr_1041, retro_sscr_888,


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