>retro_hsap_1103
ATGCCAGAATGAAAGAAGGCCAAGGGGAGGAAGGTGGCTCCAGACCCTGCTGTTGGGAAGAAGCAGGAGGCCAAGAAAGG
TGTGAATCTTTGGACAGGACATCCAGCCTCAAAGGCATGGGACAGGACATCCAGCCTAAAAGAGACCTCACCCCCTTTAT
CAAATGGCCCGGCTGTATCAGTTTGCAGTGGCAAAGAGCTATCCTCTATAACCCGCTAAAAGTGCCTCCTGTGATTAACC
AGTTCACCCAGGCCTTGGACTGCCAAACAGCTACACAACTGCTTAAGCTAGCCCACGGGTACAGACCAGAGGTGAAGCAA
GAGAAGAAACAGGGGCTGTTGGCCCAGGCTAAGAAGAAAGCTGCTGGCAAAGGGGACATCCCCATTAAGAGACCACCTGT
CCTTTGAGCAGGAGTTAAGACCATCACTACCTTGGTGGAGAACAAGAAGGCTCAGCTGGTGGTGACTGCAAACGACTTGG
ATCCCATCGAGCTGGTTGTCTTCTGGCCTGCTCTGTGTCATAAAATGGGGGTCCCTGACTGCATTATCAAGTGGAAGGCA
AGACTGGGATGTTTAGTCCACAGGAAGACCTGCACCACTGTCGCCTTCACACACGTTAACTCGGAAGACAAACGAGCTTT
GGCTCAGCTGGTGGAAGCTATCAGGACCAATTACAATGACAAATATGATGAA
ORF - retro_hsap_1103 Open Reading Frame is not conserved.
Retrocopy - Parental Gene Alignment summary:
Percent Identity: |
76.39 % |
Parental protein coverage: |
87.22 % |
Number of stop codons detected: |
2 |
Number of frameshifts detected |
1 |
Retrocopy - Parental Gene Alignment:
Parental | MPKGKKAKGKKVAPAPAVVKKQEAKKVVNPLFEKRPKNF-GIGQDIQPKRDLTRFVKWPRYIRLQRQRAI |
| MP..KKAKG.KVAP.PA.V.K....K....L....P....G.GQDIQPKRDLT.F.KWP..I.LQ.QRAI |
Retrocopy | MPE*KKAKGRKVAPDPA-VGKKQEAKKGVNLWTGHPASK<GMGQDIQPKRDLTPFIKWPGCISLQWQRAI |
|
Parental | LYKRLKVPPAINQFTQALDRQTATQLLKLAHKYRPETKQEKKQRLLARAEKKAAGKGDVPTKRPPVLRAG |
| LY..LKVPP.INQFTQALD.QTATQLLKLAH.YRPE.KQEKKQ.LLA.A.KKAAGKGD.P.KRPPVL.AG |
Retrocopy | LYNPLKVPPVINQFTQALDCQTATQLLKLAHGYRPEVKQEKKQGLLAQAKKKAAGKGDIPIKRPPVL*AG |
|
Parental | VNTVTTLVENKKAQLVVIAHDVDPIELVVFLPALCRKMGVPYCIIKGKARLGRLVHRKTCTTVAFTQVNS |
| V.T.TTLVENKKAQLVV.A.D.DPIELVVF.PALC.KMGVP.CIIK.KARLG.LVHRKTCTTVAFT.VNS |
Retrocopy | VKTITTLVENKKAQLVVTANDLDPIELVVFWPALCHKMGVPDCIIKWKARLGCLVHRKTCTTVAFTHVNS |
|
Parental | EDKGALAKLVEAIRTNYNDRYDE |
| EDK.ALA.LVEAIRTNYND.YDE |
Retrocopy | EDKRALAQLVEAIRTNYNDKYDE |
|
Legend:
* | Stop codon |
> | Forward frameshift by one nucleotide |
< | Reverse frameshift by one nucleotide |
(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 |
bodymap2_adipose |
0 .00 RPM |
0 .00 RPM |
bodymap2_adrenal |
0 .00 RPM |
0 .00 RPM |
bodymap2_brain |
0 .00 RPM |
0 .00 RPM |
bodymap2_breast |
0 .00 RPM |
0 .00 RPM |
bodymap2_colon |
0 .00 RPM |
0 .00 RPM |
bodymap2_heart |
0 .00 RPM |
0 .00 RPM |
bodymap2_kidney |
0 .00 RPM |
0 .00 RPM |
bodymap2_liver |
0 .00 RPM |
0 .00 RPM |
bodymap2_lung |
0 .00 RPM |
0 .00 RPM |
bodymap2_lymph_node |
0 .00 RPM |
0 .00 RPM |
bodymap2_ovary |
0 .00 RPM |
0 .00 RPM |
bodymap2_prostate |
0 .00 RPM |
0 .00 RPM |
bodymap2_skeletal_muscle |
0 .00 RPM |
0 .00 RPM |
bodymap2_testis |
0 .04 RPM |
0 .00 RPM |
bodymap2_thyroid |
0 .00 RPM |
0 .00 RPM |
bodymap2_white_blood_cells |
0 .00 RPM |
0 .00 RPM |
RNA Polymerase II actvity near the 5' end of retro_hsap_1103 was not detected
No EST(s) were mapped for retro_hsap_1103 retrocopy.
No TSS is located nearby retro_hsap_1103 retrocopy 5' end.
retro_hsap_1103 was not experimentally validated.
Retrocopy orthology:
Retrocopy
retro_hsap_1103 has 2 orthologous retrocopies within
eutheria group
.
Parental genes homology:
Parental genes homology involve
1 parental gene, and
36 retrocopies.
Species |
Parental gene accession |
Retrocopies number |
|
Homo sapiens | ENSG00000260501 | 36 retrocopies |
retro_hsap_1031, retro_hsap_1103 , retro_hsap_1157, retro_hsap_1327, retro_hsap_1340, retro_hsap_1402, retro_hsap_1435, retro_hsap_1565, retro_hsap_1656, retro_hsap_1936, retro_hsap_1937, retro_hsap_2016, retro_hsap_2172, retro_hsap_218, retro_hsap_2476, retro_hsap_261, retro_hsap_2697, retro_hsap_2806, retro_hsap_2893, retro_hsap_2931, retro_hsap_297, retro_hsap_3060, retro_hsap_3572, retro_hsap_3603, retro_hsap_3749, retro_hsap_3766, retro_hsap_377, retro_hsap_3873, retro_hsap_3877, retro_hsap_4135, retro_hsap_4141, retro_hsap_612, retro_hsap_660, retro_hsap_750, retro_hsap_767, retro_hsap_771,
|
Expression level across human populations :
Library |
Retrogene expression |
CEU_NA11831 |
0 .00 RPM |
CEU_NA11843 |
0 .00 RPM |
CEU_NA11930 |
0 .00 RPM |
CEU_NA12004 |
0 .00 RPM |
CEU_NA12400 |
0 .00 RPM |
CEU_NA12751 |
0 .00 RPM |
CEU_NA12760 |
0 .00 RPM |
CEU_NA12827 |
0 .00 RPM |
CEU_NA12872 |
0 .00 RPM |
CEU_NA12873 |
0 .00 RPM |
FIN_HG00183 |
0 .00 RPM |
FIN_HG00277 |
0 .00 RPM |
FIN_HG00315 |
0 .00 RPM |
FIN_HG00321 |
0 .00 RPM |
FIN_HG00328 |
0 .02 RPM |
FIN_HG00338 |
0 .00 RPM |
FIN_HG00349 |
0 .00 RPM |
FIN_HG00375 |
0 .00 RPM |
FIN_HG00377 |
0 .03 RPM |
FIN_HG00378 |
0 .00 RPM |
GBR_HG00099 |
0 .00 RPM |
GBR_HG00111 |
0 .00 RPM |
GBR_HG00114 |
0 .05 RPM |
GBR_HG00119 |
0 .00 RPM |
GBR_HG00131 |
0 .06 RPM |
GBR_HG00133 |
0 .00 RPM |
GBR_HG00134 |
0 .02 RPM |
GBR_HG00137 |
0 .00 RPM |
GBR_HG00142 |
0 .06 RPM |
GBR_HG00143 |
0 .00 RPM |
TSI_NA20512 |
0 .00 RPM |
TSI_NA20513 |
0 .00 RPM |
TSI_NA20518 |
0 .00 RPM |
TSI_NA20532 |
0 .00 RPM |
TSI_NA20538 |
0 .00 RPM |
TSI_NA20756 |
0 .00 RPM |
TSI_NA20765 |
0 .02 RPM |
TSI_NA20771 |
0 .00 RPM |
TSI_NA20786 |
0 .00 RPM |
TSI_NA20798 |
0 .00 RPM |
YRI_NA18870 |
0 .00 RPM |
YRI_NA18907 |
0 .00 RPM |
YRI_NA18916 |
0 .00 RPM |
YRI_NA19093 |
0 .00 RPM |
YRI_NA19099 |
0 .03 RPM |
YRI_NA19114 |
0 .00 RPM |
YRI_NA19118 |
0 .00 RPM |
YRI_NA19213 |
0 .00 RPM |
YRI_NA19214 |
0 .00 RPM |
YRI_NA19223 |
0 .02 RPM |
Indel association:
No indels were associated with its genomic coordinates. Based on Kabza et al. 2015 (
PubMed).