>retro_hsap_2292
ATGGTGCTGTCCCAGAGACAACGAGATGAACTAAATCAAGCTAAAGCAGATTATCTTCGTTCAAATGGCTACGAAGAGGC
ATATTCAGTTTTTAAAAAGGAAGCTGAATTAGATATGAATGAAGAAATAAAGTAGGCTGGTGTTTTGGGGAAAAAATGGA
CATCTGTTATTAGATTACAAAAGAAGTTTATGGAATTAGAATCAACGCTAAATGAAGCAAAAGAAGAATTTACGTCAGGT
GGACCTCTTGGTCAGAAACAAGACCCAAAAGAATGGGTATTTTCTGCCAGAAAAAATACACATTGAGTGGTCACAGGAGT
CCAATCATTCGAGTCATTTTCCATCCTGTGTTCAGTGTTATGGTCTCTGCTTCAGAGGATGCTACAGTTAAGGTGTGGGA
TTATGAGACTGGAGATTTTGAAAGAACTCTTAAAGGAAGGACATAGAGACTCTGTACAGGACATTTCATTTGACCACAGT
GGCAAGTTTCTGGCTTCCTGTTCTGCAGCTATGACCATTAAACCATGGGATTTTCAGGACTTTGAATGCATCAGAACCAT
GCATAGTCATGGTTCCCCATGACCATAATGTTTCCTCAGTAGTCATCATGGCCAGTGGAGATCATATAGTGTCCGCCTCA
AGGGATAAAACTATAAAAATGTGGGAAGTGCAAACTGGCTACTGTGTGAAGATGTTCACAGGACAGAGAGAATGGGTACA
TATTGTACAACCAAATCAAGATGGCACTCTGATAGCCAGCTGTTCCAATGACCAGACTGTGCGTGTATGGGTTGTAGCAA
CAATGCAATGCAAGGGTGAGCTCCGAGAACATGAGCATGTGGTAGAATGCATTTCCTGGGCTCCAGAAAGCTCATATTCC
TCCATCTCTGAAGCAACAGGCTCTGAGACTAAAAAATAGTGGTAAATCTGGGCCATTCTTGCTGTCTGGATCCAGGGACA
AGACTATTAAGATGTGGGATGTCAGTACCGGCATGTGCCTCATGACCCTCGTGGGTCATGGTAACTGGGTACGTGAAGTT
CTGTTCAGTTCTGGGGGGAAATTTATTTTGAGTTGTGCTGATGACAAGACCCTACACGTATGGGATTACAAGAACAGGCA
ATGCATGAAGACCCTCAATGCGTATGAACACTTTGTTACCTCATTGGATTTCCACAAGACAGCACCCTATGTGGTCACTG
GCAGCGTGGCTCAAACAGTAAAAGTGTGGGAGTGCCGT
ORF - retro_hsap_2292 Open Reading Frame is not conserved.
Retrocopy - Parental Gene Alignment summary:
Percent Identity: |
84.21 % |
Parental protein coverage: |
100. % |
Number of stop codons detected: |
1 |
Number of frameshifts detected |
4 |
Retrocopy - Parental Gene Alignment:
Parental | MVLSQRQRDELNRAIADYLRSNGYEEAYSVFKKEAELDVNEELDKKYAGLLEKKWTSVIRLQKKVMELES |
| MVLSQRQRDELN.A.ADYLRSNGYEEAYSVFKKEAELD.NEE...K.AG.L.KKWTSVIRLQKK.MELES |
Retrocopy | MVLSQRQRDELNQAKADYLRSNGYEEAYSVFKKEAELDMNEEI--K*AGVLGKKWTSVIRLQKKFMELES |
|
Parental | KLNEAKEEFTSGGPLGQKRD-PKEWIPRPPEKYALSGHRSPVTRVIFHPVFSVMVSASEDATIKVWDYET |
| .LNEAKEEFTSGGPLGQK.D.PK........KY.LSGHRSP..RVIFHPVFSVMVSASEDAT.KVWDYET |
Retrocopy | TLNEAKEEFTSGGPLGQKQD<PKRMGIFCQKKYTLSGHRSPIIRVIFHPVFSVMVSASEDATVKVWDYET |
|
Parental | GDFERT-LK-GHTDSVQDISFDHSGKLLASCSADMTIKLW---DFQGFECIRT-MHGHDHNVSSVAIMPN |
| GDFERT.LK.GH.DSVQDISFDHSGK.LASCSA.MTIK.W...DF.........M..HDHNVSSV.IM.. |
Retrocopy | GDFERT>LKEGHRDSVQDISFDHSGKFLASCSAAMTIKPWDFQDFECIRTMHS>MVPHDHNVSSVVIMAS |
|
Parental | GDHIVSASRDKTIKMWEVQTGYCVKTFTGHREWVRMVRPNQDGTLIASCSNDQTVRVWVVATKECKAELR |
| GDHIVSASRDKTIKMWEVQTGYCVK.FTG.REWV..V.PNQDGTLIASCSNDQTVRVWVVAT..CK.ELR |
Retrocopy | GDHIVSASRDKTIKMWEVQTGYCVKMFTGQREWVHIVQPNQDGTLIASCSNDQTVRVWVVATMQCKGELR |
|
Parental | EHEHVVECISWAPESSYSSISEATGSETKK-SGKPGPFLLSGSRDKTIKMWDVSTGMCLMTLVGHDNWVR |
| EHEHVVECISWAPESSYSSISEATGSETKK.SGK.GPFLLSGSRDKTIKMWDVSTGMCLMTLVGH.NWVR |
Retrocopy | EHEHVVECISWAPESSYSSISEATGSETKK>SGKSGPFLLSGSRDKTIKMWDVSTGMCLMTLVGHGNWVR |
|
Parental | GVLFHSGGKFILSCADDKTLRVWDYKNKRCMKTLNAHEHFVTSLDFHKTAPYVVTGSVDQTVKVWECR |
| .VLF.SGGKFILSCADDKTL.VWDYKN..CMKTLNA.EHFVTSLDFHKTAPYVVTGSV.QTVKVWECR |
Retrocopy | EVLFSSGGKFILSCADDKTLHVWDYKNRQCMKTLNAYEHFVTSLDFHKTAPYVVTGSVAQTVKVWECR |
|
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 |
150 .81 RPM |
bodymap2_adrenal |
0 .02 RPM |
169 .02 RPM |
bodymap2_brain |
0 .00 RPM |
472 .55 RPM |
bodymap2_breast |
0 .00 RPM |
189 .26 RPM |
bodymap2_colon |
0 .00 RPM |
181 .56 RPM |
bodymap2_heart |
0 .00 RPM |
203 .16 RPM |
bodymap2_kidney |
0 .02 RPM |
191 .62 RPM |
bodymap2_liver |
0 .00 RPM |
54 .77 RPM |
bodymap2_lung |
0 .05 RPM |
133 .00 RPM |
bodymap2_lymph_node |
0 .15 RPM |
136 .52 RPM |
bodymap2_ovary |
0 .00 RPM |
238 .63 RPM |
bodymap2_prostate |
0 .00 RPM |
180 .61 RPM |
bodymap2_skeletal_muscle |
0 .02 RPM |
232 .75 RPM |
bodymap2_testis |
0 .19 RPM |
270 .64 RPM |
bodymap2_thyroid |
0 .02 RPM |
335 .70 RPM |
bodymap2_white_blood_cells |
0 .00 RPM |
254 .48 RPM |
RNA Polymerase II actvity near the 5' end of retro_hsap_2292 was not detected
No EST(s) were mapped for retro_hsap_2292 retrocopy.
No TSS is located nearby retro_hsap_2292 retrocopy 5' end.
retro_hsap_2292 was not experimentally validated.
Retrocopy orthology:
Retrocopy
retro_hsap_2292 has 3 orthologous retrocopies within
eutheria group
.
Parental genes homology:
Parental genes homology involve
8 parental genes, and
13 retrocopies.
Expression level across human populations :
Library |
Retrogene expression |
CEU_NA11831 |
0 .00 RPM |
CEU_NA11843 |
0 .00 RPM |
CEU_NA11930 |
0 .03 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 .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 .02 RPM |
GBR_HG00134 |
0 .00 RPM |
GBR_HG00137 |
0 .00 RPM |
GBR_HG00142 |
0 .00 RPM |
GBR_HG00143 |
0 .03 RPM |
TSI_NA20512 |
0 .00 RPM |
TSI_NA20513 |
0 .02 RPM |
TSI_NA20518 |
0 .00 RPM |
TSI_NA20532 |
0 .00 RPM |
TSI_NA20538 |
0 .00 RPM |
TSI_NA20756 |
0 .03 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).