RetrogeneDB ID: | retro_hsap_2180 | ||
Retrocopylocation | Organism: | Human (Homo sapiens) | |
Coordinates: | 2:175584635..175585043(+) | ||
Located in intron of: | ENSG00000236449 | ||
Retrocopyinformation | Ensembl ID: | ENSG00000235655 | |
Aliases: | H3F3AP4, p13 | ||
Status: | KNOWN_PSEUDOGENE | ||
Parental geneinformation | Parental gene summary: | ||
Parental gene symbol: | H3F3B | ||
Ensembl ID: | ENSG00000132475 | ||
Aliases: | H3F3B, H3.3B | ||
Description: | H3 histone, family 3B (H3.3B) [Source:HGNC Symbol;Acc:4765] |
Percent Identity: | 100. % |
Parental protein coverage: | 100. % |
Number of stop codons detected: | 0 |
Number of frameshifts detected | 0 |
Parental | MARTKQTARKSTGGKAPRKQLATKAARKSAPSTGGVKKPHRYRPGTVALREIRRYQKSTELLIRKLPFQR |
MARTKQTARKSTGGKAPRKQLATKAARKSAPSTGGVKKPHRYRPGTVALREIRRYQKSTELLIRKLPFQR | |
Retrocopy | MARTKQTARKSTGGKAPRKQLATKAARKSAPSTGGVKKPHRYRPGTVALREIRRYQKSTELLIRKLPFQR |
Parental | LVREIAQDFKTDLRFQSAAIGALQEASEAYLVGLFEDTNLCAIHAKRVTIMPKDIQLARRIRGERA |
LVREIAQDFKTDLRFQSAAIGALQEASEAYLVGLFEDTNLCAIHAKRVTIMPKDIQLARRIRGERA | |
Retrocopy | LVREIAQDFKTDLRFQSAAIGALQEASEAYLVGLFEDTNLCAIHAKRVTIMPKDIQLARRIRGERA |
* | Stop codon |
> | Forward frameshift by one nucleotide |
< | Reverse frameshift by one nucleotide |
Library | Retrocopy expression | Parental gene expression |
---|---|---|
bodymap2_adipose | 0 .87 RPM | 358 .42 RPM |
bodymap2_adrenal | 1 .04 RPM | 566 .78 RPM |
bodymap2_brain | 0 .54 RPM | 541 .14 RPM |
bodymap2_breast | 0 .82 RPM | 323 .45 RPM |
bodymap2_colon | 0 .85 RPM | 361 .41 RPM |
bodymap2_heart | 1 .27 RPM | 91 .05 RPM |
bodymap2_kidney | 0 .21 RPM | 326 .19 RPM |
bodymap2_liver | 0 .53 RPM | 114 .76 RPM |
bodymap2_lung | 3 .57 RPM | 619 .46 RPM |
bodymap2_lymph_node | 1 .28 RPM | 265 .57 RPM |
bodymap2_ovary | 0 .58 RPM | 1184 .97 RPM |
bodymap2_prostate | 1 .92 RPM | 568 .46 RPM |
bodymap2_skeletal_muscle | 0 .80 RPM | 113 .47 RPM |
bodymap2_testis | 0 .94 RPM | 496 .18 RPM |
bodymap2_thyroid | 1 .11 RPM | 1081 .08 RPM |
bodymap2_white_blood_cells | 7 .01 RPM | 627 .57 RPM |
TSS No. | TSS Name | TSS expression level (Expr) in TPM range: | ||||
---|---|---|---|---|---|---|
no expression | 0 < Expr ≤ 1 | 1 < Expr ≤ 5 | 5 < Expr ≤ 10 | Expr > 10 | ||
TSS #1 | TSS_114998 | 943 libraries | 759 libraries | 124 libraries | 3 libraries | 0 libraries |
Species | Parental gene accession | Retrocopies number | |
---|---|---|---|
Callithrix jacchus | ENSCJAG00000012702 | 10 retrocopies | |
Dasypus novemcinctus | ENSDNOG00000024843 | 2 retrocopies | |
Equus caballus | ENSECAG00000006904 | 1 retrocopy | |
Equus caballus | ENSECAG00000016948 | 1 retrocopy | |
Homo sapiens | ENSG00000132475 | 11 retrocopies |
retro_hsap_1212, retro_hsap_1552, retro_hsap_2180 , retro_hsap_24, retro_hsap_2971, retro_hsap_3231, retro_hsap_3294, retro_hsap_3299, retro_hsap_389, retro_hsap_4236, retro_hsap_911,
|
Homo sapiens | ENSG00000163041 | 5 retrocopies | |
Latimeria chalumnae | ENSLACG00000004118 | 1 retrocopy | |
Loxodonta africana | ENSLAFG00000008083 | 3 retrocopies | |
Microcebus murinus | ENSMICG00000002139 | 2 retrocopies | |
Mustela putorius furo | ENSMPUG00000004555 | 4 retrocopies | |
Pongo abelii | ENSPPYG00000008636 | 1 retrocopy |
Library | Retrogene expression |
---|---|
CEU_NA11831 | 5 .86 RPM |
CEU_NA11843 | 4 .15 RPM |
CEU_NA11930 | 4 .30 RPM |
CEU_NA12004 | 10 .83 RPM |
CEU_NA12400 | 2 .28 RPM |
CEU_NA12751 | 1 .63 RPM |
CEU_NA12760 | 2 .38 RPM |
CEU_NA12827 | 4 .39 RPM |
CEU_NA12872 | 4 .14 RPM |
CEU_NA12873 | 3 .73 RPM |
FIN_HG00183 | 2 .75 RPM |
FIN_HG00277 | 3 .14 RPM |
FIN_HG00315 | 3 .97 RPM |
FIN_HG00321 | 1 .96 RPM |
FIN_HG00328 | 5 .59 RPM |
FIN_HG00338 | 2 .34 RPM |
FIN_HG00349 | 3 .50 RPM |
FIN_HG00375 | 1 .54 RPM |
FIN_HG00377 | 1 .54 RPM |
FIN_HG00378 | 4 .59 RPM |
GBR_HG00099 | 6 .86 RPM |
GBR_HG00111 | 6 .56 RPM |
GBR_HG00114 | 5 .65 RPM |
GBR_HG00119 | 2 .66 RPM |
GBR_HG00131 | 2 .59 RPM |
GBR_HG00133 | 5 .96 RPM |
GBR_HG00134 | 4 .94 RPM |
GBR_HG00137 | 3 .66 RPM |
GBR_HG00142 | 4 .03 RPM |
GBR_HG00143 | 6 .89 RPM |
TSI_NA20512 | 5 .57 RPM |
TSI_NA20513 | 5 .56 RPM |
TSI_NA20518 | 6 .02 RPM |
TSI_NA20532 | 2 .21 RPM |
TSI_NA20538 | 2 .07 RPM |
TSI_NA20756 | 3 .78 RPM |
TSI_NA20765 | 2 .22 RPM |
TSI_NA20771 | 3 .97 RPM |
TSI_NA20786 | 4 .45 RPM |
TSI_NA20798 | 1 .37 RPM |
YRI_NA18870 | 3 .55 RPM |
YRI_NA18907 | 3 .57 RPM |
YRI_NA18916 | 0 .91 RPM |
YRI_NA19093 | 1 .02 RPM |
YRI_NA19099 | 3 .52 RPM |
YRI_NA19114 | 3 .38 RPM |
YRI_NA19118 | 1 .51 RPM |
YRI_NA19213 | 3 .09 RPM |
YRI_NA19214 | 3 .07 RPM |
YRI_NA19223 | 1 .65 RPM |