>retro_hsap_2841
ATGGTGCAGCCTGTGAGATGTAAGAAACCAATCAATTACTCACAGTTTGGCGACTCTGACAGTGATGATGATTTTGTTTC
TGCAACTGTACCTTTAAACAAGCAATCCAGAACATCAAAGGAGTTAAAACAAGATAAACCAAAACCTAATTTGAACAATC
TCCAGAAAGAAGAAATCCCACTAGAAGAGAAAACCCCTAAAAAAAAAAGGATGGCTTTAGATGATAAGCTCTACCAGAGA
GACTTAGAAGTTGCACTAGCTTTATCAGTGAAGGAACTTTCAACAGTCACCACTAATGTGCAGAAGTCTCAAGATAAAAG
AGTTGAAAAACATGGCAATAGTAGAACAGAAACAGTGAGTAAGTCTCCTCGTATCTCTAATTGCAGTGTAGCCAGTGATT
ATTTAGATTTGGATAAGATTACTAAGAAAGACAATGGTGGTATTCAAGGGAAAAGAAAAGCAGCATCTAAAGCTGCGGTA
CAACAGAGGAAAATTTTTCTGGAAGGCAGTGATGGCAATAGTGCTAATAACACCAAACCAGACTTGGCAACTGGTGAAGA
TTCTGAGGATGATTCTGATTTTGGTGAGAGTGAGGATAATGACAAAGACTCCTCTATG
ORF - retro_hsap_2841 Open Reading Frame is conserved.
Retrocopy - Parental Gene Alignment summary:
Percent Identity: |
80.77 % |
Parental protein coverage: |
61.79 % |
Number of stop codons detected: |
0 |
Number of frameshifts detected |
0 |
Retrocopy - Parental Gene Alignment:
Parental | MVRPVRHKKPVNYSQFDHSDSDDDFVSATVPLNKKSRTAPKELKQDKPKPNLNNLRKEEIPVQEKTPKKR |
| MV.PVR.KKP.NYSQF..SDSDDDFVSATVPLNK.SRT..KELKQDKPKPNLNNL.KEEIP..EKTP... |
Retrocopy | MVQPVRCKKPINYSQFGDSDSDDDFVSATVPLNKQSRTS-KELKQDKPKPNLNNLQKEEIPLEEKTPXXX |
|
Parental | -MALDDKLYQRDLEVALALSVKELPTVTTNVQNSQDKSIEKHGSSKIETMNKSPHISNCSVASDYLDLDK |
| .MALDDKLYQRDLEVALALSVKEL.TVTTNVQ.SQDK..EKHG.S..ET..KSP.ISNCSVASDYLDLDK |
Retrocopy | XMALDDKLYQRDLEVALALSVKELSTVTTNVQKSQDKRVEKHGNSRTETVSKSPRISNCSVASDYLDLDK |
|
Parental | ITVEDDVGGVQGKRKAASKAAAQQRKILLEGSDGDSANDTEPDFAPGEDSEDDSDFCESEDNDEDFSM |
| IT..D..GG.QGKRKAASKAA.QQRKI.LEGSDG.SAN.T.PD.A.GEDSEDDSDF.ESEDND.D.SM |
Retrocopy | ITKKDN-GGIQGKRKAASKAAVQQRKIFLEGSDGNSANNTKPDLATGEDSEDDSDFGESEDNDKDSSM |
|
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 |
0 .78 RPM |
bodymap2_adrenal |
0 .16 RPM |
1 .74 RPM |
bodymap2_brain |
0 .00 RPM |
0 .73 RPM |
bodymap2_breast |
0 .00 RPM |
1 .85 RPM |
bodymap2_colon |
0 .00 RPM |
0 .62 RPM |
bodymap2_heart |
0 .06 RPM |
1 .11 RPM |
bodymap2_kidney |
0 .00 RPM |
1 .18 RPM |
bodymap2_liver |
0 .00 RPM |
0 .21 RPM |
bodymap2_lung |
0 .00 RPM |
0 .49 RPM |
bodymap2_lymph_node |
0 .00 RPM |
1 .37 RPM |
bodymap2_ovary |
0 .00 RPM |
0 .56 RPM |
bodymap2_prostate |
0 .00 RPM |
1 .39 RPM |
bodymap2_skeletal_muscle |
0 .00 RPM |
0 .42 RPM |
bodymap2_testis |
0 .06 RPM |
7 .32 RPM |
bodymap2_thyroid |
0 .00 RPM |
1 .36 RPM |
bodymap2_white_blood_cells |
0 .00 RPM |
1 .83 RPM |
RNA Polymerase II actvity near the 5' end of retro_hsap_2841 was not detected
No EST(s) were mapped for retro_hsap_2841 retrocopy.
No TSS is located nearby retro_hsap_2841 retrocopy 5' end.
retro_hsap_2841 was not experimentally validated.
Retrocopy orthology:
Retrocopy retro_hsap_2841 has 0 orthologous retrocopies within eutheria group .
Parental genes homology:
Parental genes homology involve
4 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 .07 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 .05 RPM |
CEU_NA12873 |
0 .06 RPM |
FIN_HG00183 |
0 .00 RPM |
FIN_HG00277 |
0 .04 RPM |
FIN_HG00315 |
0 .03 RPM |
FIN_HG00321 |
0 .03 RPM |
FIN_HG00328 |
0 .00 RPM |
FIN_HG00338 |
0 .00 RPM |
FIN_HG00349 |
0 .00 RPM |
FIN_HG00375 |
0 .02 RPM |
FIN_HG00377 |
0 .00 RPM |
FIN_HG00378 |
0 .00 RPM |
GBR_HG00099 |
0 .00 RPM |
GBR_HG00111 |
0 .00 RPM |
GBR_HG00114 |
0 .05 RPM |
GBR_HG00119 |
0 .00 RPM |
GBR_HG00131 |
0 .00 RPM |
GBR_HG00133 |
0 .00 RPM |
GBR_HG00134 |
0 .02 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 .14 RPM |
TSI_NA20538 |
0 .00 RPM |
TSI_NA20756 |
0 .00 RPM |
TSI_NA20765 |
0 .02 RPM |
TSI_NA20771 |
0 .06 RPM |
TSI_NA20786 |
0 .00 RPM |
TSI_NA20798 |
0 .03 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 .03 RPM |
YRI_NA19118 |
0 .04 RPM |
YRI_NA19213 |
0 .00 RPM |
YRI_NA19214 |
0 .00 RPM |
YRI_NA19223 |
0 .04 RPM |
Indel association:
No indels were associated with its genomic coordinates. Based on Kabza et al. 2015 (
PubMed).