RetrogeneDB ID: | retro_hsap_2313 | ||
Retrocopylocation | Organism: | Human (Homo sapiens) | |
Coordinates: | 2:128897646..128898152(-) | ||
Located in intron of: | ENSG00000136731 | ||
Retrocopyinformation | Ensembl ID: | ENSG00000229173 | |
Aliases: | None | ||
Status: | KNOWN_PSEUDOGENE | ||
Parental geneinformation | Parental gene summary: | ||
Parental gene symbol: | SRM | ||
Ensembl ID: | ENSG00000116649 | ||
Aliases: | SRM, PAPT, SPDSY, SPS1, SRML1 | ||
Description: | spermidine synthase [Source:HGNC Symbol;Acc:11296] |
Percent Identity: | 66.28 % |
Parental protein coverage: | 56.62 % |
Number of stop codons detected: | 4 |
Number of frameshifts detected | 1 |
Parental | PAASGPAAIREGWFRETCSLWPG-QALSLQVEQLLHHRRSRYQDILVFRSKTYGNVLVLDGVIQCTERDE |
P...G.AAI.EGWF.E.CSL.PG..AL.LQ.EQLLH..RSR.QDILVF.SKT...VLVLDG.I.C..RD. | |
Retrocopy | PGFNGHAAI*EGWFHEICSLSPG<EALLLQMEQLLHCQRSRSQDILVFHSKTHSSVLVLDGIIPCMDRDK |
Parental | FSYQEMIANLPLCSHPNPRKVLIIGGGDGGVLREVVKHPSVESVVQCEIDEDVIQVSKKFLPGMAIGYSS |
FSY...I.NLP...HP.P.KVLI.G..DG..L..VVKHPSVESVV......D..QVSKKFLPGMAIG.SS | |
Retrocopy | FSY*MRI-NLPFSNHPIPQKVLIVGDKDG-ILHKVVKHPSVESVVR**TEKDGTQVSKKFLPGMAIGFSS |
Parental | SKLTLHVGDGFEFMKQNQDAFDVIITDSSDPM |
SKLTLH.GD.F.F.KQNQDAF...ITDS.DP. | |
Retrocopy | SKLTLHMGDDFDFVKQNQDAFNIMITDSWDPL |
* | Stop codon |
> | Forward frameshift by one nucleotide |
< | Reverse frameshift by one nucleotide |
Library | Retrocopy expression | Parental gene expression |
---|---|---|
bodymap2_adipose | 0 .04 RPM | 26 .46 RPM |
bodymap2_adrenal | 0 .10 RPM | 47 .43 RPM |
bodymap2_brain | 0 .00 RPM | 17 .18 RPM |
bodymap2_breast | 0 .00 RPM | 22 .24 RPM |
bodymap2_colon | 0 .00 RPM | 24 .63 RPM |
bodymap2_heart | 0 .00 RPM | 11 .17 RPM |
bodymap2_kidney | 0 .00 RPM | 20 .89 RPM |
bodymap2_liver | 0 .00 RPM | 22 .71 RPM |
bodymap2_lung | 0 .00 RPM | 13 .80 RPM |
bodymap2_lymph_node | 0 .00 RPM | 32 .38 RPM |
bodymap2_ovary | 0 .00 RPM | 38 .38 RPM |
bodymap2_prostate | 0 .00 RPM | 21 .25 RPM |
bodymap2_skeletal_muscle | 0 .00 RPM | 35 .52 RPM |
bodymap2_testis | 0 .00 RPM | 37 .29 RPM |
bodymap2_thyroid | 0 .00 RPM | 19 .21 RPM |
bodymap2_white_blood_cells | 0 .00 RPM | 18 .53 RPM |
Species | RetrogeneDB ID |
---|---|
Pan troglodytes | retro_ptro_1688 |
Gorilla gorilla | retro_ggor_1756 |
Species | Parental gene accession | Retrocopies number | |
---|---|---|---|
Callithrix jacchus | ENSCJAG00000002354 | 4 retrocopies | |
Homo sapiens | ENSG00000116649 | 2 retrocopies |
retro_hsap_1426, retro_hsap_2313 ,
|
Gorilla gorilla | ENSGGOG00000014385 | 1 retrocopy | |
Macropus eugenii | ENSMEUG00000007002 | 2 retrocopies | |
Macaca mulatta | ENSMMUG00000019321 | 2 retrocopies | |
Nomascus leucogenys | ENSNLEG00000009532 | 3 retrocopies | |
Pongo abelii | ENSPPYG00000001892 | 3 retrocopies | |
Pan troglodytes | ENSPTRG00000000138 | 3 retrocopies |
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 .05 RPM |
CEU_NA12873 | 0 .06 RPM |
FIN_HG00183 | 0 .03 RPM |
FIN_HG00277 | 0 .00 RPM |
FIN_HG00315 | 0 .03 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 .03 RPM |
GBR_HG00119 | 0 .02 RPM |
GBR_HG00131 | 0 .00 RPM |
GBR_HG00133 | 0 .00 RPM |
GBR_HG00134 | 0 .00 RPM |
GBR_HG00137 | 0 .03 RPM |
GBR_HG00142 | 0 .06 RPM |
GBR_HG00143 | 0 .00 RPM |
TSI_NA20512 | 0 .00 RPM |
TSI_NA20513 | 0 .05 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 .03 RPM |
YRI_NA18907 | 0 .00 RPM |
YRI_NA18916 | 0 .00 RPM |
YRI_NA19093 | 0 .03 RPM |
YRI_NA19099 | 0 .00 RPM |
YRI_NA19114 | 0 .03 RPM |
YRI_NA19118 | 0 .02 RPM |
YRI_NA19213 | 0 .00 RPM |
YRI_NA19214 | 0 .02 RPM |
YRI_NA19223 | 0 .04 RPM |