RetrogeneDB ID:

retro_ogar_3501

Retrocopy
location
Organism:Bushbaby (Otolemur garnettii)
Coordinates:GL873965.1:61326..62539(-)
Located in intron of:None
Retrocopy
information
Ensembl ID:None
Aliases:None
Status:NOVEL
Parental gene
information
Parental gene summary:
Parental gene symbol:KIF2A
Ensembl ID:ENSOGAG00000000527
Aliases:None
Description:kinesin heavy chain member 2A [Source:HGNC Symbol;Acc:6318]


Retrocopy-Parental alignment summary:






>retro_ogar_3501
GCACATAGGAAATCTAATTGTGTGATAGAAGTAGAAAAATTGCAAGAAAAAAGAGAAAAAAGGAGATTGCAACAGCAAGA
GCTTAGAGAAAAAAGAGCCCAGGATGTTGATGCCACAAACCCAAATTATGAAATTATGTGTATGATCAGAGACTTTATAG
GAAGTTTGGATTATAGACCCTTAACAACAGCAGACCCCATTGATGAACATAGAATATGTGTTTGTGTAAGAAAACAACCA
CTCAATAAAAAAGAAACTCAAATGAAAGACCTGATGTAATAATAATCCCTAGCAAAGATGTGATGGTACATGAGCCAAAA
CAAAAAGTAGATTTAACAAGTTACCTAGAAAACCAAACATTTCGTTTTGATTATGCCTTTGATGACTCAGCTCCTAATGA
AATGGTTTACAGGTTTACTGCTAGACCTCTAGTGGAAACTATATTTGAAAGAGGAATGGCTACATGCTTTGCTTACGGGC
AGACTGGCAGTGGAAAAACTCATACTATGGGTGGTGACTTTTCAGGAAAAAACCAAGACTACTCTAAAGGAATTTATGTA
CTAGCAGCTTGAGATGTCTTTTTAATGCTAAAGAAGCCAAACTATAAGAAGCTAGAACTTCAAGTATATGCAACCTTTTT
TGAAATTTACAGTGGAAAGGTGTTTGACTTGCTAAATAGGAAAACAAAATTAAGAGTTCTAGAAGATGGAAAACAGCAGG
TTCAAGTGGTGGGATTACAGGAATGAGAGATCAAATGTGTTGAAGATGTACTAAAACTTATTGACATAGGCAACAGTTGC
AGAACATCTGGTCAAACATCTGCAAATGCCCATTCATCTCAAAGCCCTGCAGTGTTTCAGATTATTCTTAGAAGGAAAGG
AAAACTACATGCAAATTTTATTTCATCAATTTGGCTGGAAATGAAAGAGGAGCTGATACTTCCAGTGCAGACAGGCAAAG
TAGGATTGAAGGTGCTGAAATTAATAAAAGCCTTTTAGCACTCAAGGAGTGCATCAGAGCCTTAGGTAGAAGTAAACCTC
ATACTCCTTTCCAAGCAAGTAAACTCACTCAGGTGTTAAGAGATTCATTCATAGGTGAAAACTCATGTACCTGCATGATT
GCCACAATCTCTCCAGGAATGGCATCCTGTGAAAATACTCTTAATACATTAAGGTATGCAAATAGGGTGAAAGAACTGAC
TGTAGATCCAACC

ORF - retro_ogar_3501 Open Reading Frame is not conserved.
Retrocopy - Parental Gene Alignment summary:
Percent Identity: 89.95 %
Parental protein coverage: 56. %
Number of stop codons detected: 2
Number of frameshifts detected 2


Retrocopy - Parental Gene Alignment:

ParentalSRRKSNCVKEVEKLQEKREKRRLQQQELREKRAQDVDATNPNYEIMCMIRDFRGSLDYRPLTTADPIDEH
..RKSNCV.E...........RLQQQELREKRAQDVDATNPNYEIMCMIRDF.GSLDYRPLTTADPIDEH
RetrocopyAHRKSNCVIEXXXXXXXXXXXRLQQQELREKRAQDVDATNPNYEIMCMIRDFIGSLDYRPLTTADPIDEH
ParentalRICVCVRKRPLNKKETQMKDL-DVITIPSKDVVMVHEPKQKVDLTSYLENQTFRFDYAFDDSAPNEMVYR
RICVCVRK.PLNKKETQMKDL.DVI.IPSKD.VMVHEPKQKVDLTSYLENQTFRFDYAFDDSAPNEMVYR
RetrocopyRICVCVRKQPLNKKETQMKDL<DVIIIPSKD-VMVHEPKQKVDLTSYLENQTFRFDYAFDDSAPNEMVYR
ParentalFTARPLVETIFERGMATCFAYGQTGSGKTHTMGGDFSGKNQDCSKGIYALAARDVFLMLKKPNYKKLELQ
FTARPLVETIFERGMATCFAYGQTGSGKTHTMGGDFSGKNQD.SKGIY.LAA.DVFLMLKKPNYKKLELQ
RetrocopyFTARPLVETIFERGMATCFAYGQTGSGKTHTMGGDFSGKNQDYSKGIYVLAA*DVFLMLKKPNYKKLELQ
ParentalVYATFFEIYSGKVFDLLNRKTKLRVLEDGKQQVQVVGLQEREVKCVEDVLKLIDIGNSCRTSGQTSANAH
VYATFFEIYSGKVFDLLNRKTKLRVLEDGKQQVQVVGLQE.E.KCVEDVLKLIDIGNSCRTSGQTSANAH
RetrocopyVYATFFEIYSGKVFDLLNRKTKLRVLEDGKQQVQVVGLQE*EIKCVEDVLKLIDIGNSCRTSGQTSANAH
ParentalSSRSHAVFQIILRRKGKLHG-KFSLIDLAGNERGADTSSADRQTRLEGAEINKSLLALKECIRALGRNKP
SS.S.AVFQIILRRKGKLH..KF..I.LAGNERGADTSSADRQ.R.EGAEINKSLLALKECIRALGR.KP
RetrocopySSQSPAVFQIILRRKGKLHA<KFYFINLAGNERGADTSSADRQSRIEGAEINKSLLALKECIRALGRSKP
ParentalHTPFRASKLTQVLRDSFIGENSRTCMIATISPGMASCENTLNTLRYANRVKEFGISPS
HTPF.ASKLTQVLRDSFIGENS.TCMIATISPGMASCENTLNTLRYANRVKE....P.
RetrocopyHTPFQASKLTQVLRDSFIGENSCTCMIATISPGMASCENTLNTLRYANRVKELTVDPT

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






RNA-Seq - click to see more details

Otolemur garnettii was not studied using RNA-Seq expression data.

ChIP-Seq - click to see more details

Otolemur garnettii was not studied using ChIP-Seq data.

EST - click to see more details

Otolemur garnettii was not studied using EST data.

TSS - click to see more details

Otolemur garnettii was not studied using FANTOM5 data.

Lab - click to see more details

retro_ogar_3501 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 26 parental genes, and 32 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 ENSNLEG000000028651 retrocopy
retro_nleu_2329,
Oryctolagus cuniculus ENSOCUG000000104661 retrocopy
retro_ocun_156,
Otolemur garnettii ENSOGAG000000002661 retrocopy
retro_ogar_2234,
Otolemur garnettii ENSOGAG00000000527 5 retrocopies
retro_ogar_126, retro_ogar_3166, retro_ogar_3498, retro_ogar_3501 , retro_ogar_672,
Otolemur garnettii ENSOGAG000000069161 retrocopy
retro_ogar_1892,
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,




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