>retro_hsap_1538
GGTTATATCTTAAGTGTGGTGCTGCTAACATTGCCCAGGCAACATCTGGTTCAGCTTTATCTATATTTTTTGACTGCTCT
GCTTTTCTATACTGGACATCAAATTTCCAGGGACTACGTTCGGAGTGAACTGCGGTTTGCCTATGAGGGACCAATGTATT
TAGAACCTCTCTCTATGAATCGGTTTACCACAGCCTTAATAGGTCAGTTGGTGGTGTGTACTTTATGCTCCTGTGTCATG
AAAACAAAGCAGATTTGGCTGTTTTCAGCTCACGTGCTTCCTCTGCTAGCACGACTCTGCCTGGTTCCTTTGGAGACAAT
TGTTATCATCAATAAATTTGCTATGATTTTTACTGGATTGGAAGTTCTCTATTTTCTTGGGTCTAATCTTTTGCTACCTT
ATAACCTTGCTAAATCTGCATACAGAGAATTGGTTCAGGTAGTGGAGGTATATGGCCTTCTCACCTTGGGAATGTCCTTG
TGGAATCAACTGGTAGTCCCTGTTCTTTTCATGGTTTTCTGGCTCATCTTATTTGCTCTTCAGATTTACTCCTATTTCAG
TACTCGAGATCAGCCGGCATCACGTGAGAGGCTTCTTTTCCTTTTTCTGACAAGTATTGCAGAATGCTGCAGCACTCCTT
ACTCTCTTTTGGGTTTGGTCTTCACGGTTTCTTTTGTTGCCTTGGGTGTTCTCACACTCTGCGAGTTTTACTTGCAGGGT
TATCGAGCTTTCAGGAATGATCCTGCCATGAATTGGAGCATGACAGAAGGAGTAACGCTGTTAATCCTGGCAGTGCAGAC
TGGGCTGATAGAACTGCAGGTTGTTCATCGGGCATTCCTGCTCAGTATTATCCTTTTCATTGTTGCAGCTTCTATCCTAC
AGTCTATGTTAGAAATTGCAGATCCTATTGTTTTGGCACTGGGAGCATCCAGAGACAAGAGCTTGTGGAAACACTTCCGT
GCTGTGCGACTTTGTTTATTTTTATTGGTATTCCCTGCTCATATGGCTTATATGATTTGCCAGTTTTTCCACCTGGATTT
TTGGCTTCTTATCATTATTTCCAGCAGCATTCTTACCTCTCTTCAGGTTCTGGGAACACTTTTTATTTATGTCTGATTTA
TGGTTGAGGAATTCAGAAAAGAGCCGGTGGAAAACATGGATGATGTCATCTACTATGTGAATGGCACTTACCACCTGCTG
GAGTTTCTTGCGGCCGTCTGTATGGTGGCCTATTGCGTCTCAGAGACCATCTTTGGAGAATGGACAGTGATGGGCTCAAT
GATCATC
ORF - retro_hsap_1538 Open Reading Frame is not conserved.
Retrocopy - Parental Gene Alignment summary:
Percent Identity: |
95.1 % |
Parental protein coverage: |
62.08 % |
Number of stop codons detected: |
1 |
Number of frameshifts detected |
0 |
Retrocopy - Parental Gene Alignment:
Parental | GYILSVVLLTLPRQHLVQLYLYFLTALLLYAGHQISRDYVRSELEFAYEGPMYLEPLSMNRFTTALIGQL |
| GYILSVVLLTLPRQHLVQLYLYFLTALL.Y.GHQISRDYVRSEL.FAYEGPMYLEPLSMNRFTTALIGQL |
Retrocopy | GYILSVVLLTLPRQHLVQLYLYFLTALLFYTGHQISRDYVRSELRFAYEGPMYLEPLSMNRFTTALIGQL |
|
Parental | VVCTLCSCVMKTKQIWLFSAHMLPLLARLCLVPLETIVIINKFAMIFTGLEVLYFLGSNLLVPYNLAKSA |
| VVCTLCSCVMKTKQIWLFSAH.LPLLARLCLVPLETIVIINKFAMIFTGLEVLYFLGSNLL.PYNLAKSA |
Retrocopy | VVCTLCSCVMKTKQIWLFSAHVLPLLARLCLVPLETIVIINKFAMIFTGLEVLYFLGSNLLLPYNLAKSA |
|
Parental | YRELVQVVEVYGLLALGMSLWNQLVVPVLFMVFWLVLFALQIYSYFSTRDQPASRERLLFLFLTSIAECC |
| YRELVQVVEVYGLL.LGMSLWNQLVVPVLFMVFWL.LFALQIYSYFSTRDQPASRERLLFLFLTSIAECC |
Retrocopy | YRELVQVVEVYGLLTLGMSLWNQLVVPVLFMVFWLILFALQIYSYFSTRDQPASRERLLFLFLTSIAECC |
|
Parental | STPYSLLGLVFTVSFVALGVLTLCKFYLQGYRAFMNDPAMNRGMTEGVTLLILAVQTGLIELQVVHRAFL |
| STPYSLLGLVFTVSFVALGVLTLC.FYLQGYRAF.NDPAMN..MTEGVTLLILAVQTGLIELQVVHRAFL |
Retrocopy | STPYSLLGLVFTVSFVALGVLTLCEFYLQGYRAFRNDPAMNWSMTEGVTLLILAVQTGLIELQVVHRAFL |
|
Parental | LSIILFIVVASILQSMLEIADPIVLALGASRDKSLWKHFRAVSLCLFLLVFPAYMAYMICQFFHMDFWLL |
| LSIILFIV.ASILQSMLEIADPIVLALGASRDKSLWKHFRAV.LCLFLLVFPA.MAYMICQFFH.DFWLL |
Retrocopy | LSIILFIVAASILQSMLEIADPIVLALGASRDKSLWKHFRAVRLCLFLLVFPAHMAYMICQFFHLDFWLL |
|
Parental | IIISSSILTSLQVLGTLFIYVLFMVEEFRKEPVENMDDVIYYVNGTYRLLEFLVALCVVAYGVSETIFGE |
| IIISSSILTSLQVLGTLFIYV.FMVEEFRKEPVENMDDVIYYVNGTY.LLEFL.A.C.VAY.VSETIFGE |
Retrocopy | IIISSSILTSLQVLGTLFIYV*FMVEEFRKEPVENMDDVIYYVNGTYHLLEFLAAVCMVAYCVSETIFGE |
|
Parental | WTVMGSMII |
| WTVMGSMII |
Retrocopy | WTVMGSMII |
|
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 |
70 .35 RPM |
bodymap2_adrenal |
0 .00 RPM |
103 .90 RPM |
bodymap2_brain |
0 .00 RPM |
55 .27 RPM |
bodymap2_breast |
0 .02 RPM |
77 .45 RPM |
bodymap2_colon |
0 .00 RPM |
79 .74 RPM |
bodymap2_heart |
0 .00 RPM |
26 .68 RPM |
bodymap2_kidney |
0 .00 RPM |
60 .90 RPM |
bodymap2_liver |
0 .00 RPM |
15 .51 RPM |
bodymap2_lung |
0 .00 RPM |
170 .22 RPM |
bodymap2_lymph_node |
0 .00 RPM |
120 .31 RPM |
bodymap2_ovary |
0 .00 RPM |
119 .13 RPM |
bodymap2_prostate |
0 .00 RPM |
92 .28 RPM |
bodymap2_skeletal_muscle |
0 .00 RPM |
23 .63 RPM |
bodymap2_testis |
0 .00 RPM |
66 .36 RPM |
bodymap2_thyroid |
0 .00 RPM |
82 .82 RPM |
bodymap2_white_blood_cells |
0 .00 RPM |
132 .07 RPM |
RNA Polymerase II actvity near the 5' end of retro_hsap_1538 was not detected
No EST(s) were mapped for retro_hsap_1538 retrocopy.
No TSS is located nearby retro_hsap_1538 retrocopy 5' end.
retro_hsap_1538 was not experimentally validated.
Retrocopy orthology:
Retrocopy retro_hsap_1538 has 0 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 .04 RPM |
CEU_NA11843 |
0 .00 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 .00 RPM |
CEU_NA12873 |
0 .00 RPM |
FIN_HG00183 |
0 .00 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 .03 RPM |
FIN_HG00378 |
0 .02 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 .06 RPM |
TSI_NA20532 |
0 .00 RPM |
TSI_NA20538 |
0 .00 RPM |
TSI_NA20756 |
0 .03 RPM |
TSI_NA20765 |
0 .00 RPM |
TSI_NA20771 |
0 .03 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 .00 RPM |
Indel association:
No indels were associated with its genomic coordinates. Based on Kabza et al. 2015 (
PubMed).