>retro_hsap_778
GGGTGTCCACCCCCTCCTCCTGTCCTGGATGGTTAGGACGTGCTTCCCCACCTGGACCTCCTCCCACCCGCTTCACCGCC
CCCGCCGGTGCTCCTGCCTTGTGAAGACGAGGCTCCTGCTCCAATGGGGGCCTCACTTATTGCGGACTTAGAGCAGCTGC
ACCTGCCCCCGTCCCCACCCCCACCACAGGCCCCTGCGGAGAGACCTTCAGTCCAGCCTGGGCCGGATCCCCTCTGGCCC
GTGGAAAAAGAGCTGCCGCCTCCCCCAGCAGAGCCTGTTGAGAGAGAGGCGTCCACAGACATCCGTGCCTTCTGCCATAA
GACTGTGTCCCCCCAGGAGCTGGCTGTGGAGGCCATGAAGAGGCAGTACCATGTCCAGTTCTTCACGTGCCGTACCTGCC
GCCGCCAGCTGGCTGGGCAGAGCTTCTATCAGAAGGATATGCGACCCCTCTGCGAACCCTGCTGCCAGGACACGCTGCAG
AAGTGCAGCAAGTGTGGCGAGGTGGTCCGGGACCACATCATCAGGGCCCCGGGCCAGGCCTTCCACCCCGCCTGCTTCAC
GTGTGTGACCTGCGCCCGGTGCAGCGGGGATGAGAGCTTTGCCCCGGGCAGCCAGAAGGAGGTGTACTGCCTGGACGACT
TCTACAGGAAATTTGCCCCCGTCTGCAGCATCTGTGAGAATCCCATCATTCCTCGGGATGGGAAAGATGCCTTCAAAATC
GAGTGCACTGGAAGAAACTTCCATGAAAATTGCTACAGGTATGAGGACTGCAGGATCCTCCTGTCTATTGAGCCCACGGA
CCAAGGCTGCTACCCGCTCAACAACCATCTCTTCTGCAAGGCGTGCCACCTGAAGCAGAGTGCTGCGGGGTGCTGC
ORF - retro_hsap_778 Open Reading Frame is not conserved.
Retrocopy - Parental Gene Alignment summary:
Percent Identity: |
87.67 % |
Parental protein coverage: |
77.75 % |
Number of stop codons detected: |
1 |
Number of frameshifts detected |
0 |
Retrocopy - Parental Gene Alignment:
Parental | GCPPPPPVLDGEDVLPDLDLLPPPPPPPPVLLPSEEEAPAPMGASLIADLEQLHLSPPPPPPQAPAEGPS |
| GCPPPPPVLDG.DVLP.LDLLPP..PPPPVLLP.E.EAPAPMGASLIADLEQLHL.P.PPPPQAPAE.PS |
Retrocopy | GCPPPPPVLDG*DVLPHLDLLPPASPPPPVLLPCEDEAPAPMGASLIADLEQLHLPPSPPPPQAPAERPS |
|
Parental | VQPGP--LRPMEEELPPPPAEPVEKGASTDICAFCHKTVSPRELAVEAMKRQYHAQCFTCRTCRRQLAGQ |
| VQPGP..L.P.E.ELPPPPAEPVE..ASTDI.AFCHKTVSP.ELAVEAMKRQYH.Q.FTCRTCRRQLAGQ |
Retrocopy | VQPGPDPLWPVEKELPPPPAEPVEREASTDIRAFCHKTVSPQELAVEAMKRQYHVQFFTCRTCRRQLAGQ |
|
Parental | SFYQKDGRPLCEPCYQDTLERCGKCGEVVRDHIIRALGQAFHPSCFTCVTCARCIGDESFALGSQNEVYC |
| SFYQKD.RPLCEPC.QDTL..C.KCGEVVRDHIIRA.GQAFHP.CFTCVTCARC.GDESFA.GSQ.EVYC |
Retrocopy | SFYQKDMRPLCEPCCQDTLQKCSKCGEVVRDHIIRAPGQAFHPACFTCVTCARCSGDESFAPGSQKEVYC |
|
Parental | LDDFYRKFAPVCSICENPIIPRDGKDAFKIECMGRNFHENCYRCEDCRILLSVEPTDQGCYPLNNHLFCK |
| LDDFYRKFAPVCSICENPIIPRDGKDAFKIEC.GRNFHENCYR.EDCRILLS.EPTDQGCYPLNNHLFCK |
Retrocopy | LDDFYRKFAPVCSICENPIIPRDGKDAFKIECTGRNFHENCYRYEDCRILLSIEPTDQGCYPLNNHLFCK |
|
Parental | PCHVKRSAAGCC |
| .CH.K.SAAGCC |
Retrocopy | ACHLKQSAAGCC |
|
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 |
37 .23 RPM |
bodymap2_adrenal |
0 .00 RPM |
132 .36 RPM |
bodymap2_brain |
0 .00 RPM |
3 .94 RPM |
bodymap2_breast |
0 .00 RPM |
19 .90 RPM |
bodymap2_colon |
0 .00 RPM |
45 .92 RPM |
bodymap2_heart |
0 .00 RPM |
44 .97 RPM |
bodymap2_kidney |
0 .00 RPM |
38 .84 RPM |
bodymap2_liver |
0 .00 RPM |
1 .61 RPM |
bodymap2_lung |
0 .00 RPM |
64 .43 RPM |
bodymap2_lymph_node |
0 .00 RPM |
89 .50 RPM |
bodymap2_ovary |
0 .00 RPM |
106 .99 RPM |
bodymap2_prostate |
0 .00 RPM |
56 .03 RPM |
bodymap2_skeletal_muscle |
0 .00 RPM |
2 .53 RPM |
bodymap2_testis |
0 .00 RPM |
124 .56 RPM |
bodymap2_thyroid |
0 .00 RPM |
18 .91 RPM |
bodymap2_white_blood_cells |
0 .00 RPM |
0 .10 RPM |
RNA Polymerase II actvity near the 5' end of retro_hsap_778 was not detected
No EST(s) were mapped for retro_hsap_778 retrocopy.
No TSS is located nearby retro_hsap_778 retrocopy 5' end.
retro_hsap_778 was not experimentally validated.
Retrocopy orthology:
Retrocopy
retro_hsap_778 has 3 orthologous retrocopies within
eutheria group
.
Parental genes homology:
Parental genes homology involve
7 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 .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 .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 .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).