RetrogeneDB ID: | retro_hsap_2611 | ||
Retrocopylocation | Organism: | Human (Homo sapiens) | |
Coordinates: | 3:18580164..18581388(+) | ||
Located in intron of: | ENSG00000228956 | ||
Retrocopyinformation | Ensembl ID: | ENSG00000236570 | |
Aliases: | None | ||
Status: | KNOWN_PSEUDOGENE | ||
Parental geneinformation | Parental gene summary: | ||
Parental gene symbol: | RAD23B | ||
Ensembl ID: | ENSG00000119318 | ||
Aliases: | RAD23B, HHR23B, HR23B, P58 | ||
Description: | RAD23 homolog B (S. cerevisiae) [Source:HGNC Symbol;Acc:9813] |
Percent Identity: | 85.51 % |
Parental protein coverage: | 100. % |
Number of stop codons detected: | 4 |
Number of frameshifts detected | 3 |
Parental | MQVTLKTLQQQTF--KIDIDPEETVKALKEKIESEKGKDAFPVAGQKLIYAGKILNDDTALKEYKIDEKN |
MQVTLKTLQ.QT...KIDIDPEETVKALKEK.ESEKGK.A..VAGQ.LIYAGKILNDDTALKEYKIDEKN | |
Retrocopy | MQVTLKTLQPQTLTCKIDIDPEETVKALKEKTESEKGKVASLVAGQTLIYAGKILNDDTALKEYKIDEKN |
Parental | FVVVMVTKPKAVSTPAPATTQQSAPASTTAVTSSTTTTVAQAPTPVPALAPTSTPASITPASATASSEPA |
FVVVMVT.PKAVSTPA.ATTQQSAPASTTAVTSSTTTTVAQAPTPVPALAP..TPA.ITP.S.T.SSEPA | |
Retrocopy | FVVVMVTEPKAVSTPALATTQQSAPASTTAVTSSTTTTVAQAPTPVPALAPPFTPAFITPVSVTVSSEPA |
Parental | PASAAKQEKPAEKPAETPVATSPTATDSTSGDSSRSNLFEDATSALVTGQSYENMVTEIMSMGYEREQVI |
.ASA.KQEKPAEKPAETPVATS.T.T.STSGDSS.SNLFEDATSALV.GQSY.NMVTEIMSMGYEREQVI | |
Retrocopy | TASATKQEKPAEKPAETPVATSLTSTHSTSGDSSWSNLFEDATSALVMGQSYDNMVTEIMSMGYEREQVI |
Parental | AALRASFNNPDRAVEYLLM-GIPGDRESQAVVDPPQAASTGAPQSSAVAAAAATTTATTTTTSSGGHP-L |
AA.RAS.NNPDRAVEYLLM.G.P..R.SQ.VVDP.QAASTGAPQSS.VAAAAATTTATTT..SSG..P.L | |
Retrocopy | AAPRASSNNPDRAVEYLLM<GNPW-R*SQVVVDPHQAASTGAPQSSTVAAAAATTTATTT-ASSGTSP<L |
Parental | EF-LRNQPQFQQMRQIIQQNPSLLPALLQQIGRENPQLLQQISQHQEHFIQMLNEPVQEAGGQGGGGGGG |
.F.L.NQPQFQQMRQIIQQ.PSLLP.LLQ.I..ENPQLLQQISQHQEHFIQMLNE.V.EAGGQ.G.GGG. | |
Retrocopy | NF<LWNQPQFQQMRQIIQQSPSLLPVLLQ*ID*ENPQLLQQISQHQEHFIQMLNETV*EAGGQRGRGGGV |
Parental | SGGIAEAGSGHMNYIQVTPQEKEAIERLKALGFPEGLVIQAYFACEKNENLAANFLLQQNFDED |
SGGIAEAG.G.MNYIQV.PQEKEA.ERLKALGFPEGLVIQAYFACEKN.NL.A.FLLQQNFDED | |
Retrocopy | SGGIAEAGNGLMNYIQVMPQEKEATERLKALGFPEGLVIQAYFACEKNKNLGADFLLQQNFDED |
* | Stop codon |
> | Forward frameshift by one nucleotide |
< | Reverse frameshift by one nucleotide |
Library | Retrocopy expression | Parental gene expression |
---|---|---|
bodymap2_adipose | 0 .00 RPM | 232 .53 RPM |
bodymap2_adrenal | 0 .14 RPM | 141 .61 RPM |
bodymap2_brain | 0 .07 RPM | 185 .60 RPM |
bodymap2_breast | 0 .00 RPM | 366 .37 RPM |
bodymap2_colon | 0 .14 RPM | 249 .14 RPM |
bodymap2_heart | 0 .02 RPM | 136 .45 RPM |
bodymap2_kidney | 0 .02 RPM | 157 .87 RPM |
bodymap2_liver | 0 .00 RPM | 201 .33 RPM |
bodymap2_lung | 0 .00 RPM | 188 .40 RPM |
bodymap2_lymph_node | 0 .00 RPM | 141 .95 RPM |
bodymap2_ovary | 0 .00 RPM | 221 .53 RPM |
bodymap2_prostate | 0 .00 RPM | 211 .79 RPM |
bodymap2_skeletal_muscle | 0 .02 RPM | 310 .28 RPM |
bodymap2_testis | 0 .00 RPM | 277 .89 RPM |
bodymap2_thyroid | 0 .00 RPM | 240 .53 RPM |
bodymap2_white_blood_cells | 0 .20 RPM | 178 .02 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_132593 | 755 libraries | 832 libraries | 235 libraries | 7 libraries | 0 libraries |
Species | RetrogeneDB ID |
---|---|
Pongo abelii | retro_pabe_2344 |
Species | Parental gene accession | Retrocopies number | |
---|---|---|---|
Bos taurus | ENSBTAG00000001926 | 1 retrocopy | |
Callithrix jacchus | ENSCJAG00000016908 | 2 retrocopies | |
Equus caballus | ENSECAG00000021928 | 1 retrocopy | |
Homo sapiens | ENSG00000119318 | 2 retrocopies |
retro_hsap_2611 , retro_hsap_3754,
|
Gorilla gorilla | ENSGGOG00000002511 | 1 retrocopy | |
Macaca mulatta | ENSMMUG00000014944 | 2 retrocopies | |
Nomascus leucogenys | ENSNLEG00000017319 | 1 retrocopy | |
Oryctolagus cuniculus | ENSOCUG00000007316 | 1 retrocopy | |
Otolemur garnettii | ENSOGAG00000014216 | 1 retrocopy | |
Pongo abelii | ENSPPYG00000019477 | 2 retrocopies | |
Pan troglodytes | ENSPTRG00000021229 | 1 retrocopy | |
Sarcophilus harrisii | ENSSHAG00000011925 | 1 retrocopy | |
Sus scrofa | ENSSSCG00000005436 | 1 retrocopy | |
Tursiops truncatus | ENSTTRG00000007597 | 1 retrocopy |
Library | Retrogene expression |
---|---|
CEU_NA11831 | 0 .00 RPM |
CEU_NA11843 | 0 .00 RPM |
CEU_NA11930 | 0 .07 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 .03 RPM |
FIN_HG00375 | 0 .02 RPM |
FIN_HG00377 | 0 .03 RPM |
FIN_HG00378 | 0 .02 RPM |
GBR_HG00099 | 0 .03 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 .08 RPM |
GBR_HG00143 | 0 .03 RPM |
TSI_NA20512 | 0 .00 RPM |
TSI_NA20513 | 0 .05 RPM |
TSI_NA20518 | 0 .06 RPM |
TSI_NA20532 | 0 .00 RPM |
TSI_NA20538 | 0 .00 RPM |
TSI_NA20756 | 0 .03 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 .06 RPM |
YRI_NA19093 | 0 .00 RPM |
YRI_NA19099 | 0 .00 RPM |
YRI_NA19114 | 0 .05 RPM |
YRI_NA19118 | 0 .00 RPM |
YRI_NA19213 | 0 .02 RPM |
YRI_NA19214 | 0 .02 RPM |
YRI_NA19223 | 0 .00 RPM |