RetrogeneDB ID:

retro_mmul_1052

Retrocopy
location
Organism:Rhesus macaque (Macaca mulatta)
Coordinates:14:11052812..11053399(+)
Located in intron of:None
Retrocopy
information
Ensembl ID:None
Aliases:None
Status:NOVEL
Parental gene
information
Parental gene summary:
Parental gene symbol:MMU.18566
Ensembl ID:ENSMMUG00000023077
Aliases:PTTG1, securin
Description:securin [Source:RefSeq peptide;Acc:NP_001182151]


Retrocopy-Parental alignment summary:






>retro_mmul_1052
CTGATCTATATTGATAAGGAGAATGGAGAACCAGGTATCCATGCAGCTCCTAAAGATAGGCTGAAGCTGGGATCTGGACC
TTCAATCAAAGGCTTAAAGGGGAGATCTCAAGTTTCAACACCATGTGTTGGCAAAATGTCCGGTGCTTTACCAGCCTTAC
CTAAAGCTACCAGAAAGGCTTTTGGAACTGTCGACAGGGCTACAGAAACGCGAGTAAAGACCAACAGACTCCTCAAACTA
AAACACCGAAATTTCTCTGCCAAAAAGATGACCAGGGAGACTGTTAAAGCAAAAAGCTCTGTTCCTGCCTCAGATAATGT
TATCCAGAAATAGAAAAATTATTTCACTTCAGTCTTCTAGATTTTGAGAGTTTTAACCAACCTGAAGAGCACCAGATTAC
AGGCCTCCCCTTGAGTGGAATGCCTCTTATGATCCTTGATAAGGAGAGAGAGCTTGAAAAGCTGTTTCAGCTGGGCCTGC
CTCCACCTGTGAAGATGCCCTCTCCATCATGGGAGCCCAATCTGTTGTAGTCTCCTTCAACCCTTCTGTTGACCCTGGAT
GTGGAATTGCCACCTGTTTGCTATGAC

ORF - retro_mmul_1052 Open Reading Frame is not conserved.
Retrocopy - Parental Gene Alignment summary:
Percent Identity: 75.13 %
Parental protein coverage: 97.03 %
Number of stop codons detected: 1
Number of frameshifts detected 1


Retrocopy - Parental Gene Alignment:

ParentalLIYVDKENGEPGTRVAAKDGLKLGSGPSIKALDGRSQVSTPRFGKTFDAPPALPKATRKALGTVNRATEK
LIY.DKENGEPG...A.KD.LKLGSGPSIK.L.GRSQVSTP..GK...A.PALPKATRKA.GTV.RATE.
RetrocopyLIYIDKENGEPGIHAAPKDRLKLGSGPSIKGLKGRSQVSTPCVGKMSGALPALPKATRKAFGTVDRATET
ParentalSVKTKGPLKQKQPNFSAKKMTEKTVKTKSSVPASDD-AYPEIEKFFPFNPLDFESFDLPEEHQIAHLPLS
.VKT...LK.K..NFSAKKMT..TVK.KSSVPASD...YPEIEK.F.F..LDFESF..PEEHQI..LPLS
RetrocopyRVKTNRLLKLKHRNFSAKKMTRETVKAKSSVPASDN<CYPEIEKLFHFSLLDFESFNQPEEHQITGLPLS
ParentalGVPLMILDEERELEKLFQLGPPSPVKMPSPPWESNLLQSPSSILSTLDVELPPVCCD
G.PLMILD.ERELEKLFQLG.P.PVKMPSP.WE.NLL.SPS..L.TLDVELPPVC.D
RetrocopyGMPLMILDKERELEKLFQLGLPPPVKMPSPSWEPNLL*SPSTLLLTLDVELPPVCYD

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






RNA-Seq - click to see more details

(Hint: click retrocopy or parental gene accession number on the plot's legend, to show / hide expression level values)

Expression validation based on RNA-Seq data:
Library Retrocopy expression Parental gene expression
SRP007412_brain 0 .00 RPM 2 .02 RPM
SRP007412_brain_prefrontal_cortex 0 .00 RPM 2 .22 RPM
SRP007412_cerebellum 0 .00 RPM 1 .55 RPM
SRP007412_heart 0 .06 RPM 1 .30 RPM
SRP007412_kidney 0 .00 RPM 0 .59 RPM
SRP007412_liver 0 .00 RPM 0 .40 RPM
SRP007412_testis 0 .23 RPM 75 .61 RPM

ChIP-Seq - click to see more details

Macaca mulatta was not studied using ChIP-Seq data.

EST - click to see more details

No EST(s) were mapped for retro_mmul_1052 retrocopy.

TSS - click to see more details

Macaca mulatta was not studied using FANTOM5 data.

Lab - click to see more details

retro_mmul_1052 was not experimentally validated.

Retrocopy orthology:
Retrocopy retro_mmul_1052 has 0 orthologous retrocopies within eutheria group .

Parental genes homology:
Parental genes homology involve 26 parental genes, and 72 retrocopies.

Species Parental gene accession Retrocopies number
Bos taurus ENSBTAG000000121842 retrocopies
retro_btau_122, retro_btau_53,
Canis familiaris ENSCAFG000000172641 retrocopy
retro_cfam_1586,
Choloepus hoffmanni ENSCHOG0000000946411 retrocopies
retro_chof_1246, retro_chof_1518, retro_chof_1679, retro_chof_2027, retro_chof_2161, retro_chof_2304, retro_chof_2459, retro_chof_2463, retro_chof_2690, retro_chof_426, retro_chof_526,
Callithrix jacchus ENSCJAG000000191654 retrocopies
retro_cjac_2184, retro_cjac_2293, retro_cjac_2530, retro_cjac_3062,
Cavia porcellus ENSCPOG000000119712 retrocopies
retro_cpor_1151, retro_cpor_820,
Dasypus novemcinctus ENSDNOG000000240804 retrocopies
retro_dnov_1400, retro_dnov_2553, retro_dnov_918, retro_dnov_949,
Dipodomys ordii ENSDORG000000079681 retrocopy
retro_dord_779,
Felis catus ENSFCAG000000240743 retrocopies
retro_fcat_1153, retro_fcat_846, retro_fcat_878,
Homo sapiens ENSG000001646114 retrocopies
retro_hsap_3823, retro_hsap_4068, retro_hsap_67, retro_hsap_881,
Gorilla gorilla ENSGGOG000000169375 retrocopies
retro_ggor_2022, retro_ggor_2572, retro_ggor_2573, retro_ggor_2731, retro_ggor_714,
Loxodonta africana ENSLAFG000000111351 retrocopy
retro_lafr_258,
Macropus eugenii ENSMEUG000000059931 retrocopy
retro_meug_577,
Microcebus murinus ENSMICG000000063631 retrocopy
retro_mmur_181,
Myotis lucifugus ENSMLUG000000023171 retrocopy
retro_mluc_1080,
Macaca mulatta ENSMMUG00000023077 3 retrocopies
retro_mmul_1052 , retro_mmul_1629, retro_mmul_2347,
Mustela putorius furoENSMPUG000000132413 retrocopies
retro_mputfur_1358, retro_mputfur_429, retro_mputfur_813,
Nomascus leucogenys ENSNLEG000000043965 retrocopies
retro_nleu_218, retro_nleu_2487, retro_nleu_2527, retro_nleu_2528, retro_nleu_830,
Oryctolagus cuniculus ENSOCUG000000148772 retrocopies
retro_ocun_150, retro_ocun_1565,
Otolemur garnettii ENSOGAG000000123072 retrocopies
retro_ogar_2802, retro_ogar_990,
Pongo abelii ENSPPYG000000160094 retrocopies
retro_pabe_2428, retro_pabe_3071, retro_pabe_3341, retro_pabe_674,
Pan troglodytes ENSPTRG000000174924 retrocopies
retro_ptro_1974, retro_ptro_2601, retro_ptro_2757, retro_ptro_610,
Pteropus vampyrus ENSPVAG000000159382 retrocopies
retro_pvam_431, retro_pvam_704,
Sarcophilus harrisii ENSSHAG000000102671 retrocopy
retro_shar_104,
Tupaia belangeri ENSTBEG000000159662 retrocopies
retro_tbel_2399, retro_tbel_771,
Tursiops truncatus ENSTTRG000000115701 retrocopy
retro_ttru_259,
Vicugna pacos ENSVPAG000000095942 retrocopies
retro_vpac_178, retro_vpac_33,


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