>retro_hsap_2337
ATGGCGGCCAACATGTACCAGGTAGGAGATTTTGTCTACTTTGAGAATTCCTCCAGCAATCCATAAATAATCAGGATAGA
AAATCTCGACAAGACTGCAAGTGGCAACATGGAAGCAAAAGTAGTATGCTTTTACAGATTACATGATATTTTTAACACAC
TGATAATGCTTGTGGAGAAGCATGCTAAAGAAATTGAGGAAGAATCTGAAACAATAGTTGACCCTTACTTGACCAATACT
CAGAAACATCAATCAAAACATAAGTTACTTTCTTTGTTACCCCAATATGAATCTTTGCCTTCAACACATATTAGGGGAAA
ATGCAGTGTTGGCTTATGAATGAGACAGAATCAGTATTGTCATATCTTCATAAAAAGGATACTTTCTTCTACTTATTGAT
CATGACCCCTCATCGAAAACACTATTAGCTGATGAAGGTGAATTCAGAATGGGACCTAGATATCAAGTAGATGTCCCAGA
AATGCTCATAGAAGGAGAATCAGATGAGAGGGAGCAGTGAAAATGGAAAGTTAAAGTTTGGGGATCCAAATAGCCCACTT
AAAGATTGATCAATTAACCAGTTTTTAATTGTAGCAAGTGCTATTGGGACACTCCCTAGACCTCTCGATTGCAGCAGTTC
TTTGAGGCAGCCTAGTTTGCATATGAGTGCTGCTGCAGCTTCCCAAGACATCACCTTCTTTCATGCTATCAATACATTGC
GTAGACATAGCTATGATTTGAGCAGTGCAATTAGTGTCTCAGTACCACTTGCAGAAGCTGTTTTATGCAGAGATAAATTG
GAAGAATGGTCAGCCTCTTAAGCTAGCTTATTCGAAGAGGTACTGGAAAAAATATGGCAAAGACTTCAACGACATATGCC
AAAACTTTTTCCCTTGGAAATCATTGACTAGCATCACTGAATGTTATTTCTTGTGGAGAACTACTGACAGATATGTGCAA
CAGAAATGGTTAAAAGCAGCAGAAACTGAGAGTAAGCTGAAACAAGTATATATCCCAATTTACAGGAAACCAAATCCCAA
CCAAATATCTACCAGCAATGGCAAGCCTGGTGCTATGAGTGAAACCATGAGGTTGACATTCCTGCCTCAGAATCCCCTTG
TAGTGCAAGCCTGGGAGGGCTGCTGTGCTACACAGTCTAACCAGTAGTATTCTTGGGGCCCACCTAATATGCAGTGCAAT
TTGTTGGCTTTATTGAGAAAAATATGGAGA
ORF - retro_hsap_2337 Open Reading Frame is not conserved.
Retrocopy - Parental Gene Alignment summary:
Percent Identity: |
74.22 % |
Parental protein coverage: |
69.19 % |
Number of stop codons detected: |
5 |
Number of frameshifts detected |
4 |
Retrocopy - Parental Gene Alignment:
Parental | MAANMYRVGDYVYFENSSSNPYLIRRIEELNKTASGNVEAKVVCFYRRRDISNTLIMLADKHAKEIEEES |
| MAANMY.VGD.VYFENSSSNP..IR.IE.L.KTASGN.EAKVVCFYR..DI.NTLIML..KHAKEIEEES |
Retrocopy | MAANMYQVGDFVYFENSSSNP*IIR-IENLDKTASGNMEAKVVCFYRLHDIFNTLIMLVEKHAKEIEEES |
|
Parental | ETTVEADLTDKQKHQLKHRELFLSRQYESLPATHIRGKCSVAL-LNETESVLSYLDKEDTFFYSLV-YDP |
| ET.V...LT..QKHQ.KH..L.L..QYESLP.THIRGKCSV.L..NETESVLSYL.K.DTFFY.L...DP |
Retrocopy | ETIVDPYLTNTQKHQSKHKLLSLLPQYESLPSTHIRGKCSVGL<MNETESVLSYLHKKDTFFYLLI<HDP |
|
Parental | SLKTLLADKGEIRVGPRYQADIPEMLLEGESDEREQSKLEVKVW-DPNSPLTDRQIDQFLVVARAVGTFA |
| S.KTLLAD.GE.R.GPRYQ.D.PEML.EGESDEREQ.K..VKVW.DPNSPL.D..I.QFL.VA.A.GT.. |
Retrocopy | SSKTLLADEGEFRMGPRYQVDVPEMLIEGESDEREQ*KWKVKVW>DPNSPLKD*SINQFLIVASAIGTLP |
|
Parental | RALDCSSSVRQPSLHMSAAAASRDITLFHAMDTLYRHSYDLSSAISVLVPLGGPVLCRDEMEEWSASEAS |
| R.LDCSSS.RQPSLHMSAAAAS.DIT.FHA..TL.RHSYDLSSAISV.VPL...VLCRD..EEWSAS.AS |
Retrocopy | RPLDCSSSLRQPSLHMSAAAASQDITFFHAINTLRRHSYDLSSAISVSVPLAEAVLCRDKLEEWSAS*AS |
|
Parental | LFEEALEK-YGKDFNDIRQDFLPWKSLTSIIEYYYMWKTTDRYVQQKRLKAAEAESKLKQVYIPTYSKPN |
| LFEE.LEK.YGKDFNDI.Q.F.PWKSLTSI.E.Y..W.TTDRYVQQK.LKAAE.ESKLKQVYIP.Y.KPN |
Retrocopy | LFEEVLEK>YGKDFNDICQNFFPWKSLTSITECYFLWRTTDRYVQQKWLKAAETESKLKQVYIPIYRKPN |
|
Parental | PNQISTSNGKPGAVNGAVGTTFQPQNPLLGRACESCYATQSHQWYSWGPPNMQCRLCAICWLYWK |
| PNQISTSNGKPGA.......TF.PQNPL...A.E.C.ATQS.Q.YSWGPPNMQC.L.A.....W. |
Retrocopy | PNQISTSNGKPGAMSETMRLTFLPQNPLVVQAWEGCCATQSNQ*YSWGPPNMQCNLLALLRKIWR |
|
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 .04 RPM |
21 .95 RPM |
bodymap2_adrenal |
0 .00 RPM |
22 .95 RPM |
bodymap2_brain |
0 .00 RPM |
56 .09 RPM |
bodymap2_breast |
0 .08 RPM |
31 .83 RPM |
bodymap2_colon |
0 .00 RPM |
35 .33 RPM |
bodymap2_heart |
0 .00 RPM |
13 .81 RPM |
bodymap2_kidney |
0 .00 RPM |
24 .26 RPM |
bodymap2_liver |
0 .00 RPM |
8 .01 RPM |
bodymap2_lung |
0 .00 RPM |
23 .01 RPM |
bodymap2_lymph_node |
0 .00 RPM |
31 .45 RPM |
bodymap2_ovary |
0 .00 RPM |
69 .67 RPM |
bodymap2_prostate |
0 .00 RPM |
52 .20 RPM |
bodymap2_skeletal_muscle |
0 .00 RPM |
8 .42 RPM |
bodymap2_testis |
0 .00 RPM |
73 .49 RPM |
bodymap2_thyroid |
0 .00 RPM |
32 .24 RPM |
bodymap2_white_blood_cells |
0 .00 RPM |
11 .40 RPM |
RNA Polymerase II actvity near the 5' end of retro_hsap_2337 was not detected
No EST(s) were mapped for retro_hsap_2337 retrocopy.
No TSS is located nearby retro_hsap_2337 retrocopy 5' end.
retro_hsap_2337 was not experimentally validated.
Retrocopy orthology:
Retrocopy
retro_hsap_2337 has 3 orthologous retrocopies within
eutheria group
.
Parental genes homology:
Parental genes homology involve
5 parental genes, and
5 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 .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 .03 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).