>retro_hsap_2532
TTGGCCCTGTTGCCCTATGAGGAGACCGTGGGATTGGGGTTGCAGAAATTCCATAAGCCTCTTGCCACCTTTGTGAACCA
CATGACACAGATCTGGCAGGACCGGAGACAACTGGGAATTGCCACAGTGGTTTGGGATGTGGCCATGGTTCTCTCCACAC
ATCTGGAGATGGGAGCTGTGGAGCTCTTGGGCTGCCCCGCAGTGAAACTGGGTGCTGGCATAGGGCTGATGGGCATAGTG
GCTGCCCTGCTGGGTGCTCATGTGACTGTCATAGATCGAAAAGTAGCATTAGAGTTTTGTAAATCAAATGTTCAAGGCAA
TTTACCTCCTTGTATCCAACCCAGAGCTTTTGTTAAGGAGCCGACTTGGGGAAAGAATTTGGGGAGTTTTTCTCCTAGAG
ATTTTGACCTGATACTTGGAGCCGATATCATATATTTAGAAGAAACATTCACAGATCTTCTCCAAACACTGGACCATCTC
TGTAGCAATCACTCCATGATTCTTTTACCTTGCTTAATTCACTATGAACGGAGTAACTTTTGAGCAATGCTGGAGAGGCA
GTTTACTGTA
ORF - retro_hsap_2532 Open Reading Frame is not conserved.
Retrocopy - Parental Gene Alignment summary:
Percent Identity: |
76.68 % |
Parental protein coverage: |
88.53 % |
Number of stop codons detected: |
1 |
Number of frameshifts detected |
0 |
Retrocopy - Parental Gene Alignment:
Parental | MALVPYEETTEFGLQKFHKPLATFSFANHTIQIRQDWRHLGVAAVVWDAAIVLSTYLEMGAVELRGRSAV |
| .AL.PYEET...GLQKFHKPLATF...NH..QI.QD.R.LG.A.VVWD.A.VLST.LEMGAVEL.G..AV |
Retrocopy | LALLPYEETVGLGLQKFHKPLATF--VNHMTQIWQDRRQLGIATVVWDVAMVLSTHLEMGAVELLGCPAV |
|
Parental | ELGAGTGLVGIVAALLGAHVTITDRKVALEFLKSNVQANLPPHIQTKTVVKELTWGQNLGSFSPGEFDLI |
| .LGAG.GL.GIVAALLGAHVT..DRKVALEF.KSNVQ.NLPP.IQ....VKE.TWG.NLGSFSP..FDLI |
Retrocopy | KLGAGIGLMGIVAALLGAHVTVIDRKVALEFCKSNVQGNLPPCIQPRAFVKEPTWGKNLGSFSPRDFDLI |
|
Parental | LGADIIYLEETFTDLLQTLEHLCSNHSVILLACRIRYERDNNFLAMLERQFTV |
| LGADIIYLEETFTDLLQTL.HLCSNHS.ILL.C.I.YER..NF.AMLERQFTV |
Retrocopy | LGADIIYLEETFTDLLQTLDHLCSNHSMILLPCLIHYER-SNF*AMLERQFTV |
|
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 .14 RPM |
7 .39 RPM |
bodymap2_adrenal |
0 .04 RPM |
11 .05 RPM |
bodymap2_brain |
0 .05 RPM |
12 .68 RPM |
bodymap2_breast |
0 .02 RPM |
8 .66 RPM |
bodymap2_colon |
0 .00 RPM |
12 .36 RPM |
bodymap2_heart |
0 .02 RPM |
5 .82 RPM |
bodymap2_kidney |
0 .00 RPM |
10 .40 RPM |
bodymap2_liver |
0 .00 RPM |
8 .01 RPM |
bodymap2_lung |
0 .00 RPM |
14 .29 RPM |
bodymap2_lymph_node |
0 .00 RPM |
20 .05 RPM |
bodymap2_ovary |
0 .00 RPM |
12 .84 RPM |
bodymap2_prostate |
0 .00 RPM |
9 .70 RPM |
bodymap2_skeletal_muscle |
0 .00 RPM |
4 .78 RPM |
bodymap2_testis |
0 .11 RPM |
9 .22 RPM |
bodymap2_thyroid |
0 .00 RPM |
8 .78 RPM |
bodymap2_white_blood_cells |
0 .00 RPM |
23 .15 RPM |
RNA Polymerase II actvity near the 5' end of retro_hsap_2532 was not detected
No EST(s) were mapped for retro_hsap_2532 retrocopy.
No TSS is located nearby retro_hsap_2532 retrocopy 5' end.
retro_hsap_2532 was not experimentally validated.
Retrocopy orthology:
Retrocopy
retro_hsap_2532 has 3 orthologous retrocopies within
eutheria group
.
Parental genes homology:
Parental genes homology involve
6 parental genes, and
7 retrocopies.
Expression level across human populations :
Library |
Retrogene expression |
CEU_NA11831 |
0 .00 RPM |
CEU_NA11843 |
0 .03 RPM |
CEU_NA11930 |
0 .16 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 .03 RPM |
FIN_HG00277 |
0 .00 RPM |
FIN_HG00315 |
0 .06 RPM |
FIN_HG00321 |
0 .03 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 .06 RPM |
GBR_HG00133 |
0 .02 RPM |
GBR_HG00134 |
0 .00 RPM |
GBR_HG00137 |
0 .03 RPM |
GBR_HG00142 |
0 .00 RPM |
GBR_HG00143 |
0 .00 RPM |
TSI_NA20512 |
0 .00 RPM |
TSI_NA20513 |
0 .02 RPM |
TSI_NA20518 |
0 .00 RPM |
TSI_NA20532 |
0 .03 RPM |
TSI_NA20538 |
0 .00 RPM |
TSI_NA20756 |
0 .00 RPM |
TSI_NA20765 |
0 .00 RPM |
TSI_NA20771 |
0 .03 RPM |
TSI_NA20786 |
0 .03 RPM |
TSI_NA20798 |
0 .00 RPM |
YRI_NA18870 |
0 .00 RPM |
YRI_NA18907 |
0 .07 RPM |
YRI_NA18916 |
0 .04 RPM |
YRI_NA19093 |
0 .03 RPM |
YRI_NA19099 |
0 .00 RPM |
YRI_NA19114 |
0 .00 RPM |
YRI_NA19118 |
0 .02 RPM |
YRI_NA19213 |
0 .00 RPM |
YRI_NA19214 |
0 .05 RPM |
YRI_NA19223 |
0 .02 RPM |
Indel association:
No indels were associated with its genomic coordinates. Based on Kabza et al. 2015 (
PubMed).