>retro_hsap_1877
GAACCCTGCTGTGACTGAGTGGGAGATGAGGGAGCAGGCCACTTTGTGAAGATGGCGCACAACAGGATAGAGTATGGGGA
CATGCAGCTGATCTGTGAGGCATACCACCTGATGAAAGACGTGCTGGGCATGGCACAGGACAAGATGGCCCAGGCCTTTG
AGGATTGGAATAAGACAGAGCTAGACTCATTCCTGATTGAAATCACAGCCAATATTCTCAAGTTCCAAGGTGCTGATGGC
AAACACTTGCTGCCAAAGATCAGGGACAGTGCAGGGCAGAAGGGCATGGGGAAGTGGACCACCATCTCTGCCCTGGAGTA
TGGCATACCCGTCACCCTCATTGGAGAAGCCGTCTTTGCTTGGTGCCTGTCATCTCTGAAGGATGGGAGAATTCAAGCTA
GCAAAAAGCTGAAGGGTCCCCAAAAGTTCCAGTTTGATGGTGATAAGAAATCATTCCTGGAGGATATTCAGAATGTCCCT
CTATGCTTCCAAGATCATCTCTTATGCTCAAGGCTTTATGCTGCTAAGGCAGGGAGCCACCGAGTTTGGCTGGACCCTCA
ATTATGGTGATATTGCCCTGATGTGGAGAGGGGGCTGCATTATTAGAAGTGTATTCCTAGGAAAGATAAAGGATGCGTTT
GATCGAAACCCAGAACCTCAGAACCTCCTACTGGACGACTTCTTAAGTCAGCTGTTGAAAACCACTAGGACTCTTGGTGG
TGGGCAGTCAGCACTGGGGTCCAGGCTGGCATTCCCATGCCCTGTTTTGTCACTGCCCTCTCCTTCTATGACAAGTACAG
ACACGAGATGCTTCCAGCCAACCTCATCCAGGCTCAGCGGGATTCCTTTGGGGCTCACACCTATGAACTCTTGGCCAAAC
CAGGGCAGTTTATCCACACCAACTGGACAGGCCACGGTGGCAGTGTATCATCCTCGTCATACAATGCC
ORF - retro_hsap_1877 Open Reading Frame is not conserved.
Retrocopy - Parental Gene Alignment summary:
Percent Identity: |
91.19 % |
Parental protein coverage: |
67.23 % |
Number of stop codons detected: |
2 |
Number of frameshifts detected |
2 |
Retrocopy - Parental Gene Alignment:
Parental | EPCCDWVGDEGAGHFVKMVHNGIEYGDMQLICEAYHLMKDVLGMAQDEMAQAFEDWNKTELDSFLIEITA |
| EPCCD.VGDEGAGHFVKM.HN.IEYGDMQLICEAYHLMKDVLGMAQD.MAQAFEDWNKTELDSFLIEITA |
Retrocopy | EPCCD*VGDEGAGHFVKMAHNRIEYGDMQLICEAYHLMKDVLGMAQDKMAQAFEDWNKTELDSFLIEITA |
|
Parental | NILKFQDTDGKHLLPKIRDSAGQKGTGKWTAISALEYGVPVTLIGEAVFARCLSSLKDERIQASKKLKGP |
| NILKFQ..DGKHLLPKIRDSAGQKG.GKWT.ISALEYG.PVTLIGEAVFA.CLSSLKD.RIQASKKLKGP |
Retrocopy | NILKFQGADGKHLLPKIRDSAGQKGMGKWTTISALEYGIPVTLIGEAVFAWCLSSLKDGRIQASKKLKGP |
|
Parental | QKFQFDGDKKSFLEDI-RKALYASKIISYAQGFMLLRQAATEFGWTLNYGGIALMWRGGCIIRSVFLGKI |
| QKFQFDGDKKSFLEDI.R..LYASKIISYAQGFMLLRQ.ATEFGWTLNYG.IALMWRGGCIIRSVFLGKI |
Retrocopy | QKFQFDGDKKSFLEDI>RMSLYASKIISYAQGFMLLRQGATEFGWTLNYGDIALMWRGGCIIRSVFLGKI |
|
Parental | KDAFDRNPELQNLLLDDF-FKSAVENCQDSWRRAVSTGVQAGIPMPCFTTALSFYDGYRHEMLPASLIQA |
| KDAFDRNPE.QNLLLDDF..KSAVEN..DSW..AVSTGVQAGIPMPCF.TALSFYD.YRHEMLPA.LIQA |
Retrocopy | KDAFDRNPEPQNLLLDDF<LKSAVENH*DSWWWAVSTGVQAGIPMPCFVTALSFYDKYRHEMLPANLIQA |
|
Parental | QRDYFGAHTYELLAKPGQFIHTNWTGHGGTVSSSSYNA |
| QRD.FGAHTYELLAKPGQFIHTNWTGHGG.VSSSSYNA |
Retrocopy | QRDSFGAHTYELLAKPGQFIHTNWTGHGGSVSSSSYNA |
|
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 |
275 .55 RPM |
bodymap2_adrenal |
0 .00 RPM |
50 .93 RPM |
bodymap2_brain |
0 .00 RPM |
58 .53 RPM |
bodymap2_breast |
0 .00 RPM |
246 .58 RPM |
bodymap2_colon |
0 .00 RPM |
25 .95 RPM |
bodymap2_heart |
0 .00 RPM |
20 .25 RPM |
bodymap2_kidney |
0 .00 RPM |
80 .49 RPM |
bodymap2_liver |
0 .00 RPM |
65 .06 RPM |
bodymap2_lung |
0 .00 RPM |
80 .38 RPM |
bodymap2_lymph_node |
0 .00 RPM |
72 .44 RPM |
bodymap2_ovary |
0 .00 RPM |
77 .32 RPM |
bodymap2_prostate |
0 .00 RPM |
35 .45 RPM |
bodymap2_skeletal_muscle |
0 .00 RPM |
27 .26 RPM |
bodymap2_testis |
0 .08 RPM |
105 .52 RPM |
bodymap2_thyroid |
0 .00 RPM |
96 .40 RPM |
bodymap2_white_blood_cells |
0 .00 RPM |
277 .89 RPM |
RNA Polymerase II actvity near the 5' end of retro_hsap_1877 was not detected
No EST(s) were mapped for retro_hsap_1877 retrocopy.
No TSS is located nearby retro_hsap_1877 retrocopy 5' end.
retro_hsap_1877 was not experimentally validated.
Retrocopy orthology:
Retrocopy
retro_hsap_1877 has 2 orthologous retrocopies within
eutheria group
.
Parental genes homology:
Parental genes homology involve
5 parental genes, and
7 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 .02 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 .03 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 .03 RPM |
YRI_NA19099 |
0 .00 RPM |
YRI_NA19114 |
0 .00 RPM |
YRI_NA19118 |
0 .00 RPM |
YRI_NA19213 |
0 .02 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).