RetrogeneDB ID: | retro_hsap_1339 | ||
Retrocopylocation | Organism: | Human (Homo sapiens) | |
Coordinates: | 14:55765367..55765987(+) | ||
Located in intron of: | ENSG00000178974 | ||
Retrocopyinformation | Ensembl ID: | ENSG00000258469 | |
Aliases: | None | ||
Status: | KNOWN_PSEUDOGENE | ||
Parental geneinformation | Parental gene summary: | ||
Parental gene symbol: | CHMP4B | ||
Ensembl ID: | ENSG00000101421 | ||
Aliases: | CHMP4B, C20orf178, CHMP4A, CTPP3, CTRCT31, SNF7, SNF7-2, Shax1, VPS32B, Vps32-2, dJ553F4.4 | ||
Description: | charged multivesicular body protein 4B [Source:HGNC Symbol;Acc:16171] |
Percent Identity: | 77.14 % |
Parental protein coverage: | 92.86 % |
Number of stop codons detected: | 0 |
Number of frameshifts detected | 1 |
Parental | GKGGPTPQEAIQRLRDTEEMLSKKQEFLEKKIE-QELTAAKKHGTKNKRAALQALKRKKRYEKQLAQIDG |
G.GG.........L......L....E.L.KK.E..E......HGTKNK.AALQALKRKKRYEKQLAQIDG | |
Retrocopy | GAGGGKAGKGGLTLQEAIQRLRDTEEMLSKKQEFLEKKIEQRHGTKNKPAALQALKRKKRYEKQLAQIDG |
Parental | TLSTIEFQREALENANTNTEVLKNMGYAAKAMKAAHDNMDIDKVDELMQDIADQQELAEEISTAISKPVG |
TLSTIEFQ..ALENANTNTEVLKNMG.AAKA.KAAHDNMDIDKVDELMQDIADQQEL.EEISTAISKPVG | |
Retrocopy | TLSTIEFQQQALENANTNTEVLKNMGSAAKAKKAAHDNMDIDKVDELMQDIADQQELGEEISTAISKPVG |
Parental | FGEEFDEDELMAELEELEQEELDKNLLEISGPETVPLPNVPSIALPSKPAKKK-EEEDDDMKELENWAGS |
FGE..DEDELMAELEELEQEE.DKNLLE.SGPETVPLPNVPSIALPSKPAKK..E..D..MK.LENWAGS | |
Retrocopy | FGEKSDEDELMAELEELEQEEPDKNLLEVSGPETVPLPNVPSIALPSKPAKKR<EDDD--MKDLENWAGS |
* | Stop codon |
> | Forward frameshift by one nucleotide |
< | Reverse frameshift by one nucleotide |
Library | Retrocopy expression | Parental gene expression |
---|---|---|
bodymap2_adipose | 0 .26 RPM | 119 .74 RPM |
bodymap2_adrenal | 1 .23 RPM | 100 .12 RPM |
bodymap2_brain | 0 .19 RPM | 123 .60 RPM |
bodymap2_breast | 0 .84 RPM | 78 .15 RPM |
bodymap2_colon | 0 .60 RPM | 178 .57 RPM |
bodymap2_heart | 0 .07 RPM | 63 .89 RPM |
bodymap2_kidney | 0 .02 RPM | 80 .57 RPM |
bodymap2_liver | 0 .00 RPM | 34 .62 RPM |
bodymap2_lung | 0 .77 RPM | 160 .99 RPM |
bodymap2_lymph_node | 0 .90 RPM | 76 .20 RPM |
bodymap2_ovary | 0 .12 RPM | 118 .49 RPM |
bodymap2_prostate | 0 .35 RPM | 188 .48 RPM |
bodymap2_skeletal_muscle | 0 .11 RPM | 98 .29 RPM |
bodymap2_testis | 0 .64 RPM | 99 .62 RPM |
bodymap2_thyroid | 1 .37 RPM | 142 .68 RPM |
bodymap2_white_blood_cells | 0 .00 RPM | 122 .12 RPM |
Species | RetrogeneDB ID |
---|---|
Pan troglodytes | retro_ptro_915 |
Pongo abelii | retro_pabe_1111 |
Species | Parental gene accession | Retrocopies number | |
---|---|---|---|
Ailuropoda melanoleuca | ENSAMEG00000009038 | 1 retrocopy | |
Canis familiaris | ENSCAFG00000007478 | 1 retrocopy | |
Choloepus hoffmanni | ENSCHOG00000007288 | 1 retrocopy | |
Equus caballus | ENSECAG00000008311 | 1 retrocopy | |
Felis catus | ENSFCAG00000025893 | 1 retrocopy | |
Homo sapiens | ENSG00000101421 | 1 retrocopy |
retro_hsap_1339 ,
|
Homo sapiens | ENSG00000254505 | 1 retrocopy | |
Gorilla gorilla | ENSGGOG00000007775 | 1 retrocopy | |
Macaca mulatta | ENSMMUG00000008084 | 1 retrocopy | |
Mustela putorius furo | ENSMPUG00000017821 | 2 retrocopies | |
Nomascus leucogenys | ENSNLEG00000010020 | 1 retrocopy | |
Pongo abelii | ENSPPYG00000010931 | 1 retrocopy | |
Pan troglodytes | ENSPTRG00000013408 | 1 retrocopy | |
Pteropus vampyrus | ENSPVAG00000010293 | 1 retrocopy | |
Rattus norvegicus | ENSRNOG00000046585 | 1 retrocopy | |
Tarsius syrichta | ENSTSYG00000013212 | 1 retrocopy |
Library | Retrogene expression |
---|---|
CEU_NA11831 | 0 .11 RPM |
CEU_NA11843 | 0 .11 RPM |
CEU_NA11930 | 0 .16 RPM |
CEU_NA12004 | 0 .11 RPM |
CEU_NA12400 | 0 .28 RPM |
CEU_NA12751 | 0 .07 RPM |
CEU_NA12760 | 0 .09 RPM |
CEU_NA12827 | 0 .24 RPM |
CEU_NA12872 | 0 .11 RPM |
CEU_NA12873 | 0 .06 RPM |
FIN_HG00183 | 0 .11 RPM |
FIN_HG00277 | 0 .15 RPM |
FIN_HG00315 | 0 .41 RPM |
FIN_HG00321 | 0 .18 RPM |
FIN_HG00328 | 0 .28 RPM |
FIN_HG00338 | 0 .02 RPM |
FIN_HG00349 | 0 .17 RPM |
FIN_HG00375 | 0 .07 RPM |
FIN_HG00377 | 0 .08 RPM |
FIN_HG00378 | 0 .11 RPM |
GBR_HG00099 | 0 .06 RPM |
GBR_HG00111 | 0 .21 RPM |
GBR_HG00114 | 0 .08 RPM |
GBR_HG00119 | 0 .12 RPM |
GBR_HG00131 | 0 .32 RPM |
GBR_HG00133 | 0 .22 RPM |
GBR_HG00134 | 0 .15 RPM |
GBR_HG00137 | 0 .30 RPM |
GBR_HG00142 | 0 .03 RPM |
GBR_HG00143 | 0 .03 RPM |
TSI_NA20512 | 0 .23 RPM |
TSI_NA20513 | 0 .15 RPM |
TSI_NA20518 | 0 .19 RPM |
TSI_NA20532 | 0 .54 RPM |
TSI_NA20538 | 0 .14 RPM |
TSI_NA20756 | 0 .06 RPM |
TSI_NA20765 | 0 .15 RPM |
TSI_NA20771 | 0 .14 RPM |
TSI_NA20786 | 0 .05 RPM |
TSI_NA20798 | 0 .09 RPM |
YRI_NA18870 | 0 .07 RPM |
YRI_NA18907 | 0 .14 RPM |
YRI_NA18916 | 0 .13 RPM |
YRI_NA19093 | 0 .05 RPM |
YRI_NA19099 | 0 .11 RPM |
YRI_NA19114 | 0 .10 RPM |
YRI_NA19118 | 0 .21 RPM |
YRI_NA19213 | 0 .19 RPM |
YRI_NA19214 | 0 .05 RPM |
YRI_NA19223 | 0 .14 RPM |