>retro_hsap_1171
GGAGTGCGCCTGGATCGCGTCCGGGGTGGGCGGAAGAAGTACAAGCGGTGCCAGAGGTGGACCCGCTGCCCTTCCCGGGC
GCCTTCCCTGCTGGGCCCCTGGCAGTCGCTGGAGGCCCCCAGAAGACACCCCAGTGAATGCGCTGGTGTCTCATCTGCTG
GTGGTTGAGCCTGAGAAGCTCTATGCCATGCCCGACCCCGTGGGCCCTGATGGGCACCTTTAAGCCGTGGCTACCCTCTG
TGACCTCTTTGACCGAGAGATCGTATTTACCGTCAGCTGGGCCAAGAGCATCCCAGGCTTCTCATTGCTGTCGCTGTCTG
ACCAGATGTCAGTACTGCAGAGCGTGTGGATGGAGGTGCTGGTGCCCGGTGTGGCCCAGCGCTCACTGCCACTGCAGGAT
GAGCTGGCCTTCACTGAGGACAGAGTCCTGGATGAAGAGGGGGCACGGGCAGCTGGCCTGGGGGAACTGGGGACTGCCCT
GCTGCAACTGGTGCGGCGGCTGCAGTCCCTGCGGCTGGAGCGAGGGGAGTACGTTCTACTGAAGGCCCTGGCCCTTGCCA
ATTCAGACTCTGTGCCCATCGAAGATGCCGAGGCTGTGGAGCAGCTGCCAGAAGCTCCGCACGAGGCCCTGCTGGAGTAT
GAAGCCGGCCGGGCTGGCACCGGAGGGGGTGCTGAGCGGCGGCGGCCAGGCAGGCTGCTGTTCACGCTACCGCTCCTCCA
CCAGACAGCGGGCAAAGTGCTGGCCCATTTCTATGGGGTGAAGCTGGAGGGCAAGGTGCCCATGCACAAGCTGTTCTTGG
AGATGCTCGAGGCCATGATGGAC
ORF - retro_hsap_1171 Open Reading Frame is not conserved.
Retrocopy - Parental Gene Alignment summary:
Percent Identity: |
90.97 % |
Parental protein coverage: |
65.17 % |
Number of stop codons detected: |
1 |
Number of frameshifts detected |
2 |
Retrocopy - Parental Gene Alignment:
Parental | GVRLDRVRGGRQKYKRR-PEVDPLPFPGPFPAGPLAVAGGPRKT-APVNALVSHLLVVEPEKLYAMPDPA |
| GVRLDRVRGGR.KYKR..PEVDPLPFPG.FPAGPLAVAGGP.KT..PVNALVSHLLVVEPEKLYAMPDP. |
Retrocopy | GVRLDRVRGGRKKYKRC<PEVDPLPFPGAFPAGPLAVAGGPQKT<TPVNALVSHLLVVEPEKLYAMPDPV |
|
Parental | GPDGHLPAVATLCDLFDREIVVTISWAKSIPGFSSLSLSDQMSVLQSVWMEVLVLGVAQRSLPLQDELAF |
| GPDGHL.AVATLCDLFDREIV.T.SWAKSIPGFS.LSLSDQMSVLQSVWMEVLV.GVAQRSLPLQDELAF |
Retrocopy | GPDGHL*AVATLCDLFDREIVFTVSWAKSIPGFSLLSLSDQMSVLQSVWMEVLVPGVAQRSLPLQDELAF |
|
Parental | AEDLVLDEEGARAAGLGELGAALLQLVRRLQALRLEREEYVLLKALALANSDSVHIEDAEAVEQLREALH |
| .ED.VLDEEGARAAGLGELG.ALLQLVRRLQ.LRLER.EYVLLKALALANSDSV.IEDAEAVEQL.EA.H |
Retrocopy | TEDRVLDEEGARAAGLGELGTALLQLVRRLQSLRLERGEYVLLKALALANSDSVPIEDAEAVEQLPEAPH |
|
Parental | EALLEYEAGRAGPGGGAERRRAGRLLLTLPLLRQTAGKVLAHFYGVKLEGKVPMHKLFLEMLEAMMD |
| EALLEYEAGRAG.GGGAERRR.GRLL.TLPLL.QTAGKVLAHFYGVKLEGKVPMHKLFLEMLEAMMD |
Retrocopy | EALLEYEAGRAGTGGGAERRRPGRLLFTLPLLHQTAGKVLAHFYGVKLEGKVPMHKLFLEMLEAMMD |
|
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 |
15 .78 RPM |
bodymap2_adrenal |
0 .00 RPM |
22 .29 RPM |
bodymap2_brain |
0 .00 RPM |
6 .14 RPM |
bodymap2_breast |
0 .00 RPM |
19 .59 RPM |
bodymap2_colon |
0 .00 RPM |
25 .43 RPM |
bodymap2_heart |
0 .02 RPM |
50 .10 RPM |
bodymap2_kidney |
0 .04 RPM |
56 .52 RPM |
bodymap2_liver |
0 .00 RPM |
21 .21 RPM |
bodymap2_lung |
0 .00 RPM |
14 .21 RPM |
bodymap2_lymph_node |
0 .00 RPM |
16 .34 RPM |
bodymap2_ovary |
0 .00 RPM |
7 .81 RPM |
bodymap2_prostate |
0 .00 RPM |
16 .07 RPM |
bodymap2_skeletal_muscle |
0 .00 RPM |
42 .07 RPM |
bodymap2_testis |
0 .00 RPM |
8 .31 RPM |
bodymap2_thyroid |
0 .00 RPM |
32 .39 RPM |
bodymap2_white_blood_cells |
0 .00 RPM |
16 .10 RPM |
RNA Polymerase II actvity near the 5' end of retro_hsap_1171 was not detected
No EST(s) were mapped for retro_hsap_1171 retrocopy.
No TSS is located nearby retro_hsap_1171 retrocopy 5' end.
retro_hsap_1171 was not experimentally validated.
Retrocopy orthology:
Retrocopy retro_hsap_1171 has 0 orthologous retrocopies within eutheria group .
Parental genes homology:
Parental genes homology involve
8 parental genes, and
12 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 .03 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 .03 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).