RetrogeneDB ID:

retro_nleu_10

Retrocopy
location
Organism:Gibbon (Nomascus leucogenys)
Coordinates:GL397287.1:23760953..23762024(+)
Located in intron of:None
Retrocopy
information
Ensembl ID:ENSNLEG00000018722
Aliases:None
Status:KNOWN_PROTEIN_CODING
Parental gene
information
Parental gene summary:
Parental gene symbol:PCBP2
Ensembl ID:ENSNLEG00000017693
Aliases:None
Description:None


Retrocopy-Parental alignment summary:






>retro_nleu_10
ATGGATGCCGGTGTGACTGAAAGTGGACTAAATGTGACTCTCACCATTCGGCTTCTTATGCACGGAAAGGAAGTAGGAAG
CATCATTGGGAAGAAAGGGGAGTCGGTTAAGAGGATCCGCGAGGAGAGTGGCGCGCGGATCAACATCTCGGAGGGGAATT
GTCCGGAGAGAATCATCACTCTGACCGGCCCCACCAATGCCATCTTTAAGGCTTTCGCTATGATCATCGACAAGCTGGAG
GAAGATATCAACAGCTCCATGACCAACAGCACCGCGGCCAGCAGGCCCCCGGTCACCCTGAGGCTGGTGGTGCCGGCCAC
CCAGTGCGGCTCCCTGATTGGGAAAGGCGGGTGTAAGATCAAAGAGATCCGCGAGAGTACGGGGGCGCAGGTCCAGGTGG
CGGGGGATATGCTGCCCAACTCCACCGAGCGGGCCATCACCATCGCTGGCGTGCCGCAGTCTGTCACCGAGTGTGTCAAG
CAGATCTGCCTGGTCATGCTGGAGACGCTCTCCCAGTCTCCGCAAGGGAGAGTCATGACCATTCCGTACCAGCCCATGCC
GGCCAGCTCCCCAGTCATCTGCGCGGGCGGCCAAGATCGGTGCAGCGACGCTGCGGGCTACCCCCATGCCACCCATGACC
TGGAGGGACCACCTCTAGATGCCTACTCGATTCAAGGACAACACACCATTTCTCCGCTCGATCTGGCCAAGCTGAACCAG
GTGGCAAGACAACAGTCTCACTTTGCCATGATGCACGGCGGGACCGGATTCGCCGGAATTGACTCCAGCTCTCCAGAGGT
GAAAGGCTATTGGGCAAGTTTGGATGCATCTACTCAAACCACCCATGAACTCACCATTCCAAATAACTTAATTGGCTGCA
TAATCGGGCGCCAAGGCGCCAACATTAATGAGATCCGCCAGATGTCCGGGGCCCAGATCAAAATTGCCAACCCAGTGGAA
GGCTCCTCTGGTAGGCAGGTTACTATCACTGGCTCTGCTGCCAGTATTAGTCTGGCCCAGTATCTAATCAATGCCAGGCT
TTCCTCTGAGAAGGGCATGGGGTGCAGCTAG

ORF - retro_nleu_10 Open Reading Frame is conserved.
Retrocopy - Parental Gene Alignment summary:
Percent Identity: 84.58 %
Parental protein coverage: 57.73 %
Number of stop codons detected: 0
Number of frameshifts detected 0


Retrocopy - Parental Gene Alignment:

ParentalMDTGVIEGGLNVTLTIRLLMHGKEVGSIIGKKGESVKKMREESGARINISEGNCPERIITLAGPTNAIFK
MD.GV.E.GLNVTLTIRLLMHGKEVGSIIGKKGESVK..REESGARINISEGNCPERIITL.GPTNAIFK
RetrocopyMDAGVTESGLNVTLTIRLLMHGKEVGSIIGKKGESVKRIREESGARINISEGNCPERIITLTGPTNAIFK
ParentalAFAMIIDKLEEDISSSMTNSTAASRPPVTLRLVVPASQCGSLIGKGGCKIKEIRESTGAQVQVAGDMLPN
AFAMIIDKLEEDI.SSMTNSTAASRPPVTLRLVVPA.QCGSLIGKGGCKIKEIRESTGAQVQVAGDMLPN
RetrocopyAFAMIIDKLEEDINSSMTNSTAASRPPVTLRLVVPATQCGSLIGKGGCKIKEIRESTGAQVQVAGDMLPN
ParentalSTERAITIAGIPQSIIECVKQICVVMLES---PPKG--VTIPYRPKPSSSPVIFAGGQDRYSTGSDSASF
STERAITIAG.PQS..ECVKQIC.VMLE.....P.G...TIPY.P.P.SSPVI.AGGQDR.S...D.A..
RetrocopySTERAITIAGVPQSVTECVKQICLVMLETLSQSPQGRVMTIPYQPMPASSPVICAGGQDRCS---DAAGY
ParentalPHTT
PH.T
RetrocopyPHAT

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






RNA-Seq - click to see more details

Nomascus leucogenys was not studied using RNA-Seq expression data.

ChIP-Seq - click to see more details

Nomascus leucogenys was not studied using ChIP-Seq data.

EST - click to see more details

Nomascus leucogenys was not studied using EST data.

TSS - click to see more details

Nomascus leucogenys was not studied using FANTOM5 data.

Lab - click to see more details

retro_nleu_10 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 25 parental genes, and 55 retrocopies.

Species Parental gene accession Retrocopies number
Bos taurus ENSBTAG000000207571 retrocopy
retro_btau_175,
Canis familiaris ENSCAFG000000068211 retrocopy
retro_cfam_54,
Callithrix jacchus ENSCJAG000000185902 retrocopies
retro_cjac_3253, retro_cjac_754,
Cavia porcellus ENSCPOG000000009672 retrocopies
retro_cpor_193, retro_cpor_97,
Dasypus novemcinctus ENSDNOG000000086886 retrocopies
retro_dnov_1146, retro_dnov_1399, retro_dnov_1672, retro_dnov_1823, retro_dnov_2434, retro_dnov_452,
Equus caballus ENSECAG000000223891 retrocopy
retro_ecab_67,
Echinops telfairi ENSETEG000000147413 retrocopies
retro_etel_1170, retro_etel_2108, retro_etel_840,
Homo sapiens ENSG000001971112 retrocopies
retro_hsap_4077, retro_hsap_83,
Gorilla gorilla ENSGGOG000000126132 retrocopies
retro_ggor_212, retro_ggor_2734,
Macropus eugenii ENSMEUG000000018877 retrocopies
retro_meug_1143, retro_meug_1988, retro_meug_432, retro_meug_526, retro_meug_618, retro_meug_828, retro_meug_964,
Microcebus murinus ENSMICG000000116512 retrocopies
retro_mmur_1226, retro_mmur_1228,
Myotis lucifugus ENSMLUG000000099713 retrocopies
retro_mluc_2199, retro_mluc_314, retro_mluc_571,
Macaca mulatta ENSMMUG000000066082 retrocopies
retro_mmul_1263, retro_mmul_1994,
Mus musculus ENSMUSG000000568511 retrocopy
retro_mmus_274,
Nomascus leucogenys ENSNLEG000000026391 retrocopy
retro_nleu_2044,
Nomascus leucogenys ENSNLEG000000034863 retrocopies
retro_nleu_1178, retro_nleu_1815, retro_nleu_973,
Nomascus leucogenys ENSNLEG00000017693 1 retrocopy
retro_nleu_10 ,
Oryctolagus cuniculus ENSOCUG000000224903 retrocopies
retro_ocun_10, retro_ocun_1622, retro_ocun_898,
Pongo abelii ENSPPYG000000045812 retrocopies
retro_pabe_3346, retro_pabe_92,
Pan troglodytes ENSPTRG000000050181 retrocopy
retro_ptro_113,
Pteropus vampyrus ENSPVAG000000122843 retrocopies
retro_pvam_1168, retro_pvam_1369, retro_pvam_868,
Rattus norvegicus ENSRNOG000000368522 retrocopies
retro_rnor_1238, retro_rnor_2088,
Sus scrofa ENSSSCG000000002741 retrocopy
retro_sscr_61,
Ictidomys tridecemlineatus ENSSTOG000000036352 retrocopies
retro_itri_1522, retro_itri_557,
Vicugna pacos ENSVPAG000000004061 retrocopy
retro_vpac_471,


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