>retro_hsap_4732
GATAAAGGCATGCAGTATGAACTCTTTTTTAAGAAAGCAGATTTTATGGAATATAGACATGTGACCCTCTTCCGCCCTTT
TGGACCTCTCATGAAAGTGAAGAGCAAGATGATTGACATCATTAGATCAATTATTATTAATATCATTATGCCACTTGCTG
AAAGAACTGAAGCACTTGTACAGTTTATGCAGAACTTCAGGGAGGTTTGTATTCATCAAGACAAGATTCATCTCACAGTA
GTGTATTTTGGTAACGAAGGACTGTCTAAAGTCAAGTCTAGCCTAGAATTTGTCACAAGTGAGTCTAATTTTCACAATTA
CACTGTGGTCCATTGAATGAAGAATTTAATCGTGGATGAGGACTAAATGTGGGTGCCCGAGCTTGGGACAAGGGAGAGGT
CTTTATGTTTTTCTGTGATGTTGATATCTATTTCTCAGCCGAATTCCTTAACAGCTGACAGTTAAATGCTGAGCCTGGTA
AGAAGGTGTTTTACCCTGTGGTGTTCAGTCTTTACAATCCTGCCATTGTTTATGCCAACGAGGAAGTGCCATCACCTGTG
GAGCAGCAGCTGGTTCACAAAAAGGATTCTGGCTTTTGGAGAGATTTTGGCTTTGGAATGACTTGTCAGTATCGATCTGA
TTTCCTGATCATTGGTAGATTTGACATGGAAGTGAAAGGTTGGGGTGGAGAAGATGTTCATCTTTGTCAAAAATACTTAC
ATGGTGACCTCATTGTGATTTGGACTCCGGTTACTGGTCTTTTCCACCTCTGGCCTGAAAAACGCTGTGCTGATGAGCTG
ACCCCCGAGCAGTACCGCATGTGCATCCAGTCTAAAGCCATAAATGAGGCCTCTCGCTCCCACCTGGGAATGCTGGTCTT
CAGGGAGGAAATAGAGACGCATCTTCATAAACAGGCATACAGGACAAACAGCGAAGCTGTTGGT
ORF - retro_hsap_4732 Open Reading Frame is not conserved.
Retrocopy - Parental Gene Alignment summary:
Percent Identity: |
90.22 % |
Parental protein coverage: |
58.12 % |
Number of stop codons detected: |
2 |
Number of frameshifts detected |
1 |
Retrocopy - Parental Gene Alignment:
Parental | DKGTQYELFFKKADLTEYRHVTLFRPFGPLMKVKSEMIDITRSII-NIIVPLAERTEAFVQFMQNFRDVC |
| DKG.QYELFFKKAD..EYRHVTLFRPFGPLMKVKS.MIDI.RSII.NII.PLAERTEA.VQFMQNFR.VC |
Retrocopy | DKGMQYELFFKKADFMEYRHVTLFRPFGPLMKVKSKMIDIIRSIIINIIMPLAERTEALVQFMQNFREVC |
|
Parental | IHQDKKIHLTVVYFGKEGLSKVKSILESVTSESNFHNYTLVS-LNEEFNRGRGLNVGARAWDKGEVLMFF |
| IHQDK.IHLTVVYFG.EGLSKVKS.LE.VTSESNFHNYT.V..LNEEFNRG.GLNVGARAWDKGEV.MFF |
Retrocopy | IHQDK-IHLTVVYFGNEGLSKVKSSLEFVTSESNFHNYTVVH<LNEEFNRG*GLNVGARAWDKGEVFMFF |
|
Parental | CDVDIYFSAEFLNSCRLNAEPGKKVFYPVVFSLYNPAIVYANQEVPPPVEQQLVHKKDSGFWRDFGFGMT |
| CDVDIYFSAEFLNS..LNAEPGKKVFYPVVFSLYNPAIVYAN.EVP.PVEQQLVHKKDSGFWRDFGFGMT |
Retrocopy | CDVDIYFSAEFLNS*QLNAEPGKKVFYPVVFSLYNPAIVYANEEVPSPVEQQLVHKKDSGFWRDFGFGMT |
|
Parental | CQYRSDFLTIGGFDMEVKGWGGEDVHLYRKYLHGDLIVIRTPVPGLFHLWHEKRCADELTPEQYRMCIQS |
| CQYRSDFL.IG.FDMEVKGWGGEDVHL..KYLHGDLIVI.TPV.GLFHLW.EKRCADELTPEQYRMCIQS |
Retrocopy | CQYRSDFLIIGRFDMEVKGWGGEDVHLCQKYLHGDLIVIWTPVTGLFHLWPEKRCADELTPEQYRMCIQS |
|
Parental | KAMNEASHSHLGMLVFREEIETHLHKQAYRTNSEAVG |
| KA.NEAS.SHLGMLVFREEIETHLHKQAYRTNSEAVG |
Retrocopy | KAINEASRSHLGMLVFREEIETHLHKQAYRTNSEAVG |
|
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 .06 RPM |
53 .53 RPM |
bodymap2_adrenal |
0 .20 RPM |
38 .71 RPM |
bodymap2_brain |
0 .09 RPM |
32 .53 RPM |
bodymap2_breast |
0 .19 RPM |
35 .93 RPM |
bodymap2_colon |
0 .00 RPM |
34 .61 RPM |
bodymap2_heart |
0 .00 RPM |
17 .93 RPM |
bodymap2_kidney |
0 .06 RPM |
32 .06 RPM |
bodymap2_liver |
0 .00 RPM |
16 .16 RPM |
bodymap2_lung |
0 .00 RPM |
101 .56 RPM |
bodymap2_lymph_node |
0 .00 RPM |
58 .86 RPM |
bodymap2_ovary |
0 .04 RPM |
47 .98 RPM |
bodymap2_prostate |
0 .07 RPM |
44 .46 RPM |
bodymap2_skeletal_muscle |
0 .00 RPM |
20 .63 RPM |
bodymap2_testis |
0 .04 RPM |
32 .33 RPM |
bodymap2_thyroid |
0 .11 RPM |
31 .22 RPM |
bodymap2_white_blood_cells |
0 .00 RPM |
102 .57 RPM |
RNA Polymerase II actvity near the 5' end of retro_hsap_4732 was not detected
No EST(s) were mapped for retro_hsap_4732 retrocopy.
No TSS is located nearby retro_hsap_4732 retrocopy 5' end.
retro_hsap_4732 was not experimentally validated.
Retrocopy orthology:
Retrocopy
retro_hsap_4732 has 1 orthologous retrocopies within
eutheria group
.
Parental genes homology:
Parental genes homology involve
3 parental genes, and
4 retrocopies.
Expression level across human populations :
Library |
Retrogene expression |
CEU_NA11831 |
0 .02 RPM |
CEU_NA11843 |
0 .09 RPM |
CEU_NA11930 |
0 .00 RPM |
CEU_NA12004 |
0 .00 RPM |
CEU_NA12400 |
0 .04 RPM |
CEU_NA12751 |
0 .00 RPM |
CEU_NA12760 |
0 .00 RPM |
CEU_NA12827 |
0 .00 RPM |
CEU_NA12872 |
0 .03 RPM |
CEU_NA12873 |
0 .00 RPM |
FIN_HG00183 |
0 .05 RPM |
FIN_HG00277 |
0 .00 RPM |
FIN_HG00315 |
0 .06 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 .02 RPM |
GBR_HG00099 |
0 .00 RPM |
GBR_HG00111 |
0 .04 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 .04 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 .05 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).