>retro_hsap_2535
GCCTCATATAAACTTCACAACATGATAGTTGATCTGGATAATGTGGTCAAAAAGGTCCAAGCAGCTCAATTTGAGTCTAA
GCTTGTATCTCAGTATCATGAGCTGGTGGGCCAAGCTCAGGATGACTTTAAACGACAGCTGGACAGTATTACTCCAGAAG
TCCTTCCTGGGTGGAAAGGAATGAGCGTTTCGGACCCAGCTGACAAGCTCTCTACTGATGATCTGAACTCCCTGATTGCC
CGTGCACATCGTCACATCGATCAGCTGAACAGAGAGCTAGCAGAACAGAAGGCCACAGAAAAGCAGCACATCACATTAGC
CTTGGAGAAACAAACGCTGGAAGAAAAGTGGGCATTTGACTCTGTAGTAGCAAAAGCATTAGAACATCATGGAAGTAAAA
TGCAGGCTGAATAGGACAGAAACGTAGAGGAAGTCAGAGATGCCATGGAGAATGAAATGAGAACCTAGCTTCACTGACAG
GCAGCTGCCCACACTGATCACTTGTGAGATGTCCTTAGGGTTCAAGAACAGGAATTGAAGTATGAATTTGAGCAGAACCT
GTCTGAGAAACTCTCGGAACAAGAATTACAGTTTCATCATCTAAGTCAAGAGCAAGTTCACAACTTTACTCTGGATATAA
ATACCGCCTATGCCAGACTCAGAGGAATCGAACACGCTGTTCAGAGTCATGCAGTTGCTGAAGAGGAAGCCAGAAAAGCC
TACCAACTCTGGCTTTCAGTGGAGGCATTAAAGTACAGCATGAAGACCTCATCTGCAGAAATGCCTGCTGTCCCACTGGG
TAGTGCAGTTGAGGCCATCAAAGCCAACTGTTCTGATAATGAATTTACTAAAGCTTTAGCCACAGCTATCCCTCCAGAGT
CCCTGACCCATGGGGTGTACAGTGAAGAGACCCTTAGAGTCCGCTTTTATGCTGTTCAAAAACTGGCCCGAAGGGTAGCA
ATGATTGATTAAACCAGAAATAGCTTGTACCAGTACTTCTTCTCCTACCTGCAGTCCCTGCTTCTATTCCCGCCTCAGCA
ACTGAAGCTGCAGAGCTCTGATCTGAAGATATAAACACGTTTAAATTACTGTCATATGCCTCCTATTGCATTGAGCATGG
TGATCTGGAGCTAGTAGCAAAATTTGTCAATCAGCTGAAGGGAGAATCCAGATAAGTGGCACAAGACTGGCTGAAGGAAG
CCCGAATAACCCTAGAAACGAAACAGATAATGGAAATCCTGACAGCATATGCCAGCGCCGTAGGCACAAGAACCACTCAA
GTACAGCCAGAG
ORF - retro_hsap_2535 Open Reading Frame is not conserved.
Retrocopy - Parental Gene Alignment summary:
Percent Identity: |
86.61 % |
Parental protein coverage: |
60.76 % |
Number of stop codons detected: |
7 |
Number of frameshifts detected |
1 |
Retrocopy - Parental Gene Alignment:
Parental | AEGKLHNMIVDLDNVVKKVQAAQSEAKVVSQYHELVVQARDDFKRELDSITPEVLPGWKGMSVSDLADKL |
| A..KLHNMIVDLDNVVKKVQAAQ.E.K.VSQYHELV.QA.DDFKR.LDSITPEVLPGWKGMSVSD.ADKL |
Retrocopy | ASYKLHNMIVDLDNVVKKVQAAQFESKLVSQYHELVGQAQDDFKRQLDSITPEVLPGWKGMSVSDPADKL |
|
Parental | STDDLNSLIAHAHRRIDQLNRELAEQKATEKQHITLALEKQKLEEKRAFDSAVAKALEHHRSEIQAEQDR |
| STDDLNSLIA.AHR.IDQLNRELAEQKATEKQHITLALEKQ.LEEK.AFDS.VAKALEHH.S..QAE.DR |
Retrocopy | STDDLNSLIARAHRHIDQLNRELAEQKATEKQHITLALEKQTLEEKWAFDSVVAKALEHHGSKMQAE*DR |
|
Parental | KIEEVRDAMENEMRTQLRRQAAAHTDHLRDVLRVQEQELKSEFEQNLSEKLSEQELQFRRLSQEQVDNFT |
| ..EEVRDAMENEMRT.L..QAAAHTDHL.DVLRVQEQELK.EFEQNLSEKLSEQELQF..LSQEQV.NFT |
Retrocopy | NVEEVRDAMENEMRT*LH*QAAAHTDHL*DVLRVQEQELKYEFEQNLSEKLSEQELQFHHLSQEQVHNFT |
|
Parental | LDINTAYARLRGIEQAVQSHAVAEEEARKAHQLWLSVEALKYSMKTSSAETPTIPLGSAVEAIKANCSDN |
| LDINTAYARLRGIE.AVQSHAVAEEEARKA.QLWLSVEALKYSMKTSSAE.P..PLGSAVEAIKANCSDN |
Retrocopy | LDINTAYARLRGIEHAVQSHAVAEEEARKAYQLWLSVEALKYSMKTSSAEMPAVPLGSAVEAIKANCSDN |
|
Parental | EFTQALTAAIPPESLTRGVYSEETLRARFYAVQKLARRVAMIDETRNSLYQYFLSYLQSLLLFPPQQ-LK |
| EFT.AL..AIPPESLT.GVYSEETLR.RFYAVQKLARRVAMID.TRNSLYQYF.SYLQS.LL..P.Q... |
Retrocopy | EFTKALATAIPPESLTHGVYSEETLRVRFYAVQKLARRVAMID*TRNSLYQYFFSYLQS-LLLFPPQ<AT |
|
Parental | PPPELCPEDINTFKLLSYASYCIEHGDLELAAKFVNQLKGESRRVAQDWLKEARMTLETKQIVEILTAYA |
| ...EL..EDINTFKLLSYASYCIEHGDLEL.AKFVNQLKGESR.VAQDWLKEAR.TLETKQI.EILTAYA |
Retrocopy | EAAEL*SEDINTFKLLSYASYCIEHGDLELVAKFVNQLKGESR*VAQDWLKEARITLETKQIMEILTAYA |
|
Parental | SAVGIGTTQVQPE |
| SAVG..TTQVQPE |
Retrocopy | SAVGTRTTQVQPE |
|
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 |
73 .07 RPM |
bodymap2_adrenal |
0 .00 RPM |
70 .80 RPM |
bodymap2_brain |
0 .00 RPM |
82 .81 RPM |
bodymap2_breast |
0 .00 RPM |
78 .17 RPM |
bodymap2_colon |
0 .00 RPM |
66 .59 RPM |
bodymap2_heart |
0 .00 RPM |
176 .73 RPM |
bodymap2_kidney |
0 .00 RPM |
126 .03 RPM |
bodymap2_liver |
0 .00 RPM |
54 .94 RPM |
bodymap2_lung |
0 .00 RPM |
45 .53 RPM |
bodymap2_lymph_node |
0 .00 RPM |
56 .10 RPM |
bodymap2_ovary |
0 .00 RPM |
75 .80 RPM |
bodymap2_prostate |
0 .02 RPM |
82 .46 RPM |
bodymap2_skeletal_muscle |
0 .00 RPM |
144 .18 RPM |
bodymap2_testis |
0 .00 RPM |
126 .54 RPM |
bodymap2_thyroid |
0 .00 RPM |
94 .78 RPM |
bodymap2_white_blood_cells |
0 .00 RPM |
92 .59 RPM |
RNA Polymerase II actvity near the 5' end of retro_hsap_2535 was not detected
No EST(s) were mapped for retro_hsap_2535 retrocopy.
No TSS is located nearby retro_hsap_2535 retrocopy 5' end.
retro_hsap_2535 was not experimentally validated.
Retrocopy orthology:
Retrocopy
retro_hsap_2535 has 2 orthologous retrocopies within
eutheria group
.
Parental genes homology:
Parental genes homology involve
3 parental genes, and
3 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 .03 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 .03 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 .02 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 .02 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 .02 RPM |
YRI_NA19223 |
0 .00 RPM |
Indel association:
No indels were associated with its genomic coordinates. Based on Kabza et al. 2015 (
PubMed).