RetrogeneDB ID:

retro_sara_457

Retrocopy
location
Organism:Shrew (Sorex araneus)
Coordinates:scaffold_214863:5150..6359(-)
Located in intron of:None
Retrocopy
information
Ensembl ID:ENSSARG00000003713
Aliases:None
Status:KNOWN_PSEUDOGENE
Parental gene
information
Parental gene summary:
Parental gene symbol:KIF2A
Ensembl ID:ENSSARG00000007768
Aliases:None
Description:kinesin heavy chain member 2A [Source:HGNC Symbol;Acc:6318]


Retrocopy-Parental alignment summary:






>retro_sara_457
CAGAAGAAATCTCCCTGCCTAAGGGAAATAGAGAAACTGAAACTGCAGCGGGAAAGACGCAGAATGCAGCAGCTACAAAT
CCGAGCCCAGCGTGTCCTCGACATCAACATCAGAAACCCTAAGCACCACATCATGTACATGATTGAAAAGTATCGCAGGC
AACTGGAGCAAAACAAGGTGACTCGCCTGGGGCTCCGGGAGGACCATCGCATCTGCGTCTGTGTAAGAGAAGCGCCCCCC
TCAACCAGAGAGAGACCAGCATGAATGACCTGGATATCATCACCCATCCTCTCGGAAAACGTGGTTATGGTGCATGAGTC
CAAGCGAAAGGTGGATCTCACTCGCTACCTGGAGAACCAGACCTTTTTCTTCGACCATGCCTTTGACGACACTGCCTCCA
ATGAGTTGGTGTACCAGTTCACTGCCCAGCCGCTGGTGGAGTCCATCTTCCGCCAGGGAATGGCCACCTGCTTTGCCTAT
GGTCAGACGGGCAGTGGGAAAACCCACACCATGGGTGGAGTGTTTTCAGGCAGGAACCAAGATTTTTCAAAAGGTATTTA
TGCCCTGGTGGCACAGGATGTCTTTCTTTTGCTCCAAGCTTCAACTTATAAAACACTAGACTTCAGAGTCTATGGGACCT
TTTTTGAGATTTATGGGAGCAAGGTGTTTGATTTGTTGAACTGCAAGAAGAAACTGCAGGTCCTTGAAGATAGCCATAGG
AAAATGCAGGTGGTTGGGCTACAGGAGCAGGAGGTATATTGTGTGGAGGATGTGCTGAGCCTAGTGGAATTAGGCAATAG
CTGCCGGACTTCTGGGCAGACGTCAGTCAACGCTCACTCTTCTAGGAGCCACGCTGTGTTCCAGATCATTCTGAAGTCCA
GAGGGAAAATCCATGGCAAGTTTTCTCTTGTTGACTTAGCTGGGAATGAAAGAGGAGCAGATACTGCCAAAGCCAACAGA
AGCAGGCAGCTAGAAGGGGCAGAGATCAATAAGAGTCTTCTCACACTCAAAGAATGCATCCGGGCTTTGGGTAAGAACAA
GTCTCACACCCCTTTCAGAGCCAGCAAACTCACACAGGTGCTCCGGGACTCCTTTATTGGTCAAAACTCTTCTACATGCA
TGATCGCCACTATCTCTCCAGGGATGGCCTCTTGTGAAAACACCCTCAACACTTTGAGATATGCCAACAGAGTTAAAGAA
TTAACTCTA

ORF - retro_sara_457 Open Reading Frame is not conserved.
Retrocopy - Parental Gene Alignment summary:
Percent Identity: 71.6 %
Parental protein coverage: 59.03 %
Number of stop codons detected: 0
Number of frameshifts detected: 3


Retrocopy - Parental Gene Alignment:

ParentalRRKSNCVKEVEKLQEKREKRRLQQQELREKRAQDVDATNPNYEIMCMIRDFRGSLDYRPLTTADPIDEHR
..KS.C..E.EKL...RE.RR.QQ...R..R..D....NP...IM.MI...R..L.....T.......HR
RetrocopyQKKSPCLREIEKLKLQRERRRMQQLQIRAQRVLDINIRNPKHHIMYMIEKYRRQLEQNKVTRLGLREDHR
ParentalICVCVR-KRP-LNKKETQMKDLDVITIP-SKDVVMVHEPKQKVDLTRYLENQTFRFDYAFDDSAPNEMVY
ICVCVR.KRP.LN..ET.M.DLD.IT.P.S..VVMVHE.K.KVDLTRYLENQTF.FD.AFDD.A.NE.VY
RetrocopyICVCVR>KRP>LNQRETSMNDLDIITHP>SENVVMVHESKRKVDLTRYLENQTFFFDHAFDDTASNELVY
ParentalRFTARPLVETIFERGMATCFAYGQTGSGKTHTMGGDFSGKNQDCSKGIYALAARDVFLMLKKPNYKKLEL
.FTA.PLVE.IF..GMATCFAYGQTGSGKTHTMGG.FSG.NQD.SKGIYAL.A.DVFL.L....YK.L..
RetrocopyQFTAQPLVESIFRQGMATCFAYGQTGSGKTHTMGGVFSGRNQDFSKGIYALVAQDVFLLLQASTYKTLDF
ParentalQVYATFFEIYSGKVFDLLNRKTKLRVLEDGKQQVQVVGLQEREVKCVEDVLKLIDIGNSCRTSGQTSANA
.VY.TFFEIY..KVFDLLN.K.KL.VLED.....QVVGLQE.EV.CVEDVL.L...GNSCRTSGQTS.NA
RetrocopyRVYGTFFEIYGSKVFDLLNCKKKLQVLEDSHRKMQVVGLQEQEVYCVEDVLSLVELGNSCRTSGQTSVNA
ParentalHSSRSHAVFQIILRRKGKLHGKFSLIDLAGNERGADTSSADRQTRLEGAEINKSLLALKECIRALGRNKP
HSSRSHAVFQIIL...GK.HGKFSL.DLAGNERGADT..A.R...LEGAEINKSLL.LKECIRALG.NK.
RetrocopyHSSRSHAVFQIILKSRGKIHGKFSLVDLAGNERGADTAKANRSRQLEGAEINKSLLTLKECIRALGKNKS
ParentalHTPFRASKLTQVLRDSFIGENSRTCMIATISPGMASCENTLNTLRYANRVKELTV
HTPFRASKLTQVLRDSFIG.NS.TCMIATISPGMASCENTLNTLRYANRVKELT.
RetrocopyHTPFRASKLTQVLRDSFIGQNSSTCMIATISPGMASCENTLNTLRYANRVKELTL

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






RNA-Seq - click to see more details

Sorex araneus was not studied using RNA-Seq expression data.

ChIP-Seq - click to see more details

Sorex araneus was not studied using ChIP-Seq data.

EST - click to see more details

Sorex araneus was not studied using EST data.

TSS - click to see more details

Sorex araneus was not studied using FANTOM5 data.

Lab - click to see more details

retro_sara_457 was not experimentally validated.

Retrocopy orthology:
Sorex araneus 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 ENSNLEG000000028651 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 ENSSARG00000007768 1 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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