RetrogeneDB ID:

retro_nleu_2329

Retrocopy
location
Organism:Gibbon (Nomascus leucogenys)
Coordinates:GL397344.1:3350128..3351337(+)
Located in intron of:None
Retrocopy
information
Ensembl ID:ENSNLEG00000007962
Aliases:None
Status:KNOWN_PSEUDOGENE
Parental gene
information
Parental gene summary:
Parental gene symbol:KIF2A
Ensembl ID:ENSNLEG00000002865
Aliases:None
Description:None


Retrocopy-Parental alignment summary:






>retro_nleu_2329
AGCAGAAAAAAGTCTCCTTGCCTCTGGGAAATCCAGAAACTGCAGAAGCAGCGGGAAAAGCGCAGGCGGCAGCAGCAGGA
GATCCGAGCTAGAGGCGCCCTCGATGGCAACACCAGAAACCCCAACTACGAAATCATGCACGTGATCGAAGAGTATCCCA
GGCACCTGGACAGCAGCAAGATCTCAGTCCTGGAGCCCCCGCAAGAACATCGCATCTGCGTCTGCGTGAGGAAGCGGCCT
CTCAACCAGCGAGAGACAACCTTGAAGGACCTGGATATCATCACGGTCCCCTCGGACAATGTGGTGATGGTGCATGAGTC
CAAGCAAAAGGTGGACCTCACTCGCTACCTGGAGAACCAGACCTTCTGCTTCGACCATGCCTTTGATGACAAAGCCTCCA
ACGAGTTGGTGTACAAGTTCACCGCCCAGCCACTGGTGGAGTCCGTCTTCCGCAAGGGCATGGCCACCTGCTTTGCCTAT
GGGCAGACGGGAAGTGGGAAGACGTACACCATGGGTGGAGACTTTTCAGGAAGGGCCCAGGATTGTTCTAAGGGCACTTA
TGCTCTGGTGGCACAGGATGTCTTTCTCCTGCGCAGAAACTCCACATACGAGAAGCTGGACCTCAAAGTCTATGGGACAT
TTTTTGAGATTTATGGGGGCAAGGTGTATGATTTGCTGAACTGGAAGAAGAAGCTGCAAGTCCTTGAGGATGGCAATCAG
CAAATCCAAGTGGTCGGGCTGCAGGAGAAAGAGGTGTGCTGTGTGGAGGAAGTGCTGAACCTGGTGGAAATAGGGAATAG
CTGTCGGACTTTCAGGCAAACATCTGTCAACGCTCACTCATCCGGGGGCCATGCAGTGTTCCAGATCATCCTGAAGTCAG
GAGGGAAACTGCATGGCAAGTTTTCCCTCGTTGATTTAGCTGGGAATGAAAGGGGAGCGGATACGACCAAGGCCAGCCGG
AAAAGGCAGCTGGAAGGGGCAGAGATTAACAAGAGTCTTCTAGCCCTCAAACAATGGATTCTGGCTTTGGGTCAGAACAA
GCCCCACACCCCATTCAGAGCCAGCAAACTCACACAGGTGCTCCGGGACTCCTTTATCAGCCAGAACTCCTCCACTTGCA
TGATTGCTACTATCTCTCCAGGGATGACCTCTTGTGAAAACACTCTCAACACTTCAAGATATGCAAACAGAGTAAACAAA
TTAAATGTA

ORF - retro_nleu_2329 Open Reading Frame is conserved.
Retrocopy - Parental Gene Alignment summary:
Percent Identity: 71.71 %
Parental protein coverage: 55.74 %
Number of stop codons detected: 0
Number of frameshifts detected: 0


Retrocopy - Parental Gene Alignment:

ParentalSRRKSNCVKEVEKLQEKREKRRLQQQELREKRAQDVDATNPNYEIMCMIRDFRGSLDYRPLTTADPIDEH
SR.KS.C..E..KLQ..REKRR.QQQE.R...A.D....NPNYEIM..I......LD........P..EH
RetrocopySRKKSPCLWEIQKLQKQREKRRRQQQEIRARGALDGNTRNPNYEIMHVIEEYPRHLDSSKISVLEPPQEH
ParentalRICVCVRKRPLNKKETQMKDLDVITIPSKDVVMVHEPKQKVDLTRYLENQTFRFDYAFDDSAPNEMVYRF
RICVCVRKRPLN..ET..KDLD.IT.PS..VVMVHE.KQKVDLTRYLENQTF.FD.AFDD.A.NE.VY.F
RetrocopyRICVCVRKRPLNQRETTLKDLDIITVPSDNVVMVHESKQKVDLTRYLENQTFCFDHAFDDKASNELVYKF
ParentalTARPLVETIFERGMATCFAYGQTGSGKTHTMGGDFSGKNQDCSKGIYALAARDVFLMLKKPNYKKLELQV
TA.PLVE..F..GMATCFAYGQTGSGKT.TMGGDFSG..QDCSKG.YAL.A.DVFL......Y.KL.L.V
RetrocopyTAQPLVESVFRKGMATCFAYGQTGSGKTYTMGGDFSGRAQDCSKGTYALVAQDVFLLRRNSTYEKLDLKV
ParentalYATFFEIYSGKVFDLLNRKTKLRVLEDGKQQVQVVGLQEREVKCVEDVLKLIDIGNSCRTSGQTSANAHS
Y.TFFEIY.GKV.DLLN.K.KL.VLEDG.QQ.QVVGLQE.EV.CVE.VL.L..IGNSCRT..QTS.NAHS
RetrocopyYGTFFEIYGGKVYDLLNWKKKLQVLEDGNQQIQVVGLQEKEVCCVEEVLNLVEIGNSCRTFRQTSVNAHS
ParentalSRSHAVFQIILRRKGKLHGKFSLIDLAGNERGADTSSADRQTRLEGAEINKSLLALKECIRALGRNKPHT
S..HAVFQIIL...GKLHGKFSL.DLAGNERGADT..A.R...LEGAEINKSLLALK..I.ALG.NKPHT
RetrocopySGGHAVFQIILKSGGKLHGKFSLVDLAGNERGADTTKASRKRQLEGAEINKSLLALKQWILALGQNKPHT
ParentalPFRASKLTQVLRDSFIGENSRTCMIATISPGMASCENTLNTLRYANRVKEFGI
PFRASKLTQVLRDSFI..NS.TCMIATISPGM.SCENTLNT.RYANRV.....
RetrocopyPFRASKLTQVLRDSFISQNSSTCMIATISPGMTSCENTLNTSRYANRVNKLNV

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_2329 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 24 parental genes, and 30 retrocopies.

Species Parental gene accession Retrocopies number
Anas platyrhynchos ENSAPLG000000095191 retrocopy
retro_apla_3,
Bos taurus ENSBTAG000000150221 retrocopy
retro_btau_180,
Choloepus hoffmanni ENSCHOG000000078881 retrocopy
retro_chof_1348,
Cavia porcellus ENSCPOG000000093931 retrocopy
retro_cpor_72,
Dipodomys ordii ENSDORG000000063351 retrocopy
retro_dord_763,
Equus caballus ENSECAG000000198101 retrocopy
retro_ecab_32,
Homo sapiens ENSG000000687961 retrocopy
retro_hsap_69,
Gorilla gorilla ENSGGOG000000047741 retrocopy
retro_ggor_68,
Macaca mulatta ENSMMUG000000003991 retrocopy
retro_mmul_145,
Monodelphis domestica ENSMODG000000196051 retrocopy
retro_mdom_242,
Mus musculus ENSMUSG000000216931 retrocopy
retro_mmus_68,
Nomascus leucogenys ENSNLEG00000002865 1 retrocopy
retro_nleu_2329 ,
Oryctolagus cuniculus ENSOCUG000000104661 retrocopy
retro_ocun_156,
Otolemur garnettii ENSOGAG000000005275 retrocopies
retro_ogar_126, retro_ogar_3166, retro_ogar_3498, retro_ogar_3501, retro_ogar_672,
Ochotona princeps ENSOPRG000000117681 retrocopy
retro_opri_815,
Procavia capensis ENSPCAG000000050891 retrocopy
retro_pcap_22,
Rattus norvegicus ENSRNOG000000140002 retrocopies
retro_rnor_1284, retro_rnor_47,
Sorex araneus ENSSARG000000077681 retrocopy
retro_sara_457,
Sarcophilus harrisii ENSSHAG000000019501 retrocopy
retro_shar_30,
Ictidomys tridecemlineatus ENSSTOG000000127101 retrocopy
retro_itri_40,
Tupaia belangeri ENSTBEG000000093961 retrocopy
retro_tbel_761,
Tarsius syrichta ENSTSYG000000021151 retrocopy
retro_tsyr_1791,
Vicugna pacos ENSVPAG000000088641 retrocopy
retro_vpac_572,
Drosophila melanogaster FBgn00302682 retrocopies
retro_dmel_1, retro_dmel_2,


Copyright © RetrogeneDB 2014-2017