>retro_hsap_1996
CCCCACCACGAAGAGTGTCCATAAGGAGAGCTCCACCTTCTCTGACTGAGGCCGGAGGTGCACACAAAGGCGCAGATCCT
GGAGCTGCTGGTGCTGGAGCAGTTCCTGGCCATCCTCCCAGAAAAGCTGCAGCCCTGGGTGCAGAGGCATCATCCAGAAA
ATGGAGAGGAAGCTCTGACTATGCTGGAGGATGTGCAGAGAGCGCTTGATGGACCAAAGCAGATCTTCTTTTTTGGACGA
AGGAGGGACACGGTTGCAGAGAAGCTAGCACCTTCAGAAATCACTGAGCAATTGCCAACTAGCCAGCGCACGCCCGTGAA
GAAGCAGCTCCAGCGAGAATCATGGGAGCTGCAGTCCTTAAGACCACATGATGAAGACATCAAAACTATAAATGTGAAAT
CCGCTTCAAGGCAAAAGACTTCTTCAGGCATAGAACTGCATTGCGATGTTTCGAACATCCTCGGTATAAATGCCTCCCAG
AGTTCCACATATAGAGGAATGTATGAACAAGATGATTCAAAATATGAACATAGGATTGCAGAGTCCCAAAAGAATATGTA
CTTCAAGACTAGGCTGAAGTGT
ORF - retro_hsap_1996 Open Reading Frame is not conserved.
Retrocopy - Parental Gene Alignment summary:
Percent Identity: |
73.2 % |
Parental protein coverage: |
56.12 % |
Number of stop codons detected: |
2 |
Number of frameshifts detected |
0 |
Retrocopy - Parental Gene Alignment:
Parental | PHEALSRLWELCHLWLRPEVHTKEQILELLVLEQFLAILPKELQAWVQKHHPENGEETVTMLEDVERELD |
| PH.......EL..L.LRPEVHTK.QILELLVLEQFLAILP..LQ.WVQ.HHPENGEE..TMLEDV.R.LD |
Retrocopy | PHHEECP*GELHLL*LRPEVHTKAQILELLVLEQFLAILPEKLQPWVQRHHPENGEEALTMLEDVQRALD |
|
Parental | GPKQIFF-GRRKDMIAEKLAPSEITEELPSSQLMPVKKQLQGASWELQSLRPHDEDIKTTNVKSASRQKT |
| GPKQIFF.GRR.D..AEKLAPSEITE.LP.SQ..PVKKQLQ..SWELQSLRPHDEDIKT.NVKSASRQKT |
Retrocopy | GPKQIFFFGRRRDTVAEKLAPSEITEQLPTSQRTPVKKQLQRESWELQSLRPHDEDIKTINVKSASRQKT |
|
Parental | SLGIELHCNVSNILHMNGSQSSTYRGTYEQ-DGRFEKR----QGNPSWKKQQKC |
| S.GIELHC.VSNIL..N.SQSSTYRG.YEQ.D...E.R....Q.N...K...KC |
Retrocopy | SSGIELHCDVSNILGINASQSSTYRGMYEQDDSKYEHRIAESQKNMYFKTRLKC |
|
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 |
1 .19 RPM |
bodymap2_adrenal |
0 .00 RPM |
2 .27 RPM |
bodymap2_brain |
0 .00 RPM |
3 .38 RPM |
bodymap2_breast |
0 .00 RPM |
3 .00 RPM |
bodymap2_colon |
0 .00 RPM |
0 .99 RPM |
bodymap2_heart |
0 .00 RPM |
0 .35 RPM |
bodymap2_kidney |
0 .00 RPM |
4 .22 RPM |
bodymap2_liver |
0 .00 RPM |
0 .85 RPM |
bodymap2_lung |
0 .00 RPM |
2 .22 RPM |
bodymap2_lymph_node |
0 .00 RPM |
1 .35 RPM |
bodymap2_ovary |
0 .00 RPM |
2 .83 RPM |
bodymap2_prostate |
0 .00 RPM |
2 .55 RPM |
bodymap2_skeletal_muscle |
0 .00 RPM |
0 .24 RPM |
bodymap2_testis |
0 .00 RPM |
4 .64 RPM |
bodymap2_thyroid |
0 .00 RPM |
6 .36 RPM |
bodymap2_white_blood_cells |
0 .00 RPM |
3 .33 RPM |
RNA Polymerase II actvity near the 5' end of retro_hsap_1996 was not detected
No EST(s) were mapped for retro_hsap_1996 retrocopy.
No TSS is located nearby retro_hsap_1996 retrocopy 5' end.
retro_hsap_1996 was not experimentally validated.
Retrocopy orthology:
Retrocopy
retro_hsap_1996 has 2 orthologous retrocopies within
eutheria group
.
Parental genes homology:
Parental genes homology involve
4 parental genes, and
4 retrocopies.
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 .00 RPM |
FIN_HG00338 |
0 .00 RPM |
FIN_HG00349 |
0 .00 RPM |
FIN_HG00375 |
0 .00 RPM |
FIN_HG00377 |
0 .00 RPM |
FIN_HG00378 |
0 .00 RPM |
GBR_HG00099 |
0 .00 RPM |
GBR_HG00111 |
0 .00 RPM |
GBR_HG00114 |
0 .00 RPM |
GBR_HG00119 |
0 .00 RPM |
GBR_HG00131 |
0 .00 RPM |
GBR_HG00133 |
0 .00 RPM |
GBR_HG00134 |
0 .00 RPM |
GBR_HG00137 |
0 .00 RPM |
GBR_HG00142 |
0 .00 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 .00 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 .00 RPM |
YRI_NA19114 |
0 .00 RPM |
YRI_NA19118 |
0 .00 RPM |
YRI_NA19213 |
0 .00 RPM |
YRI_NA19214 |
0 .00 RPM |
YRI_NA19223 |
0 .00 RPM |
Indel association:
No indels were associated with its genomic coordinates. Based on Kabza et al. 2015 (
PubMed).