RetrogeneDB ID: | retro_hsap_323 | ||
Retrocopylocation | Organism: | Human (Homo sapiens) | |
Coordinates: | 1:235901305..235902286(+) | ||
Located in intron of: | ENSG00000143669 | ||
Retrocopyinformation | Ensembl ID: | ENSG00000235674 | |
Aliases: | None | ||
Status: | KNOWN_PSEUDOGENE | ||
Parental geneinformation | Parental gene summary: | ||
Parental gene symbol: | LDHA | ||
Ensembl ID: | ENSG00000134333 | ||
Aliases: | LDHA, GSD11, HEL-S-133P, LDH1, LDHM | ||
Description: | lactate dehydrogenase A [Source:HGNC Symbol;Acc:6535] |
Percent Identity: | 86.83 % |
Parental protein coverage: | 99.4 % |
Number of stop codons detected: | 1 |
Number of frameshifts detected | 4 |
Parental | TLKDQLIYNLLKEEQTPQNKITVVGVGAVGMACAISILMKDLADELALVDVIEDKLKGEMMDLQHGSLFL |
TLKDQLI..LLKEEQ..QNKITVVGVGA.GMACAI.ILMKDLA.ELALVDV.EDKLKGEMMDL.HGSLFL | |
Retrocopy | TLKDQLIHSLLKEEQILQNKITVVGVGALGMACAIGILMKDLAGELALVDVMEDKLKGEMMDLHHGSLFL |
Parental | RTPKIVSGKDYNVTANSKLVIITAGARQ-QEGESRLNLVQRNVNIFKFIIPNVVKYSPNCKLLIVSNPVD |
RTPKIVSGKDY.VT.NSKLV.ITA.A...QEGES.LNLVQ.NVNIFKFIIPNVVKYSPNCKLLIVSNPVD | |
Retrocopy | RTPKIVSGKDYTVTVNSKLVTITAEAHR<QEGESHLNLVQCNVNIFKFIIPNVVKYSPNCKLLIVSNPVD |
Parental | I-LTY-VAWKI-SGFPKNRVIGSGCNLDSARFRYLMGERLGVHPLSCHGWVLGEHGDSSVPVWSGMNVAG |
I.LTY.VAWKI..GFPKN.VIGSGCNLDSA.FRY.MGERLGVH.LSCHG.VLGEHGDSSVPVWS..NV.G | |
Retrocopy | I>LTY>VAWKI<NGFPKNHVIGSGCNLDSAQFRYPMGERLGVHTLSCHG*VLGEHGDSSVPVWSKANVTG |
Parental | VSLKTLHPDLGTDKDKEQWKEVHKQVVESAYEVIKLKGYTSWAIGLSVADLAESIMKNLRRVHPVSTMIK |
VSLKTLHPDLGTD.DKEQWKEVHKQVVESAYEVIKLKGYTSWAIGLSVADLAESIMKNLRRVHP.STMI. | |
Retrocopy | VSLKTLHPDLGTDIDKEQWKEVHKQVVESAYEVIKLKGYTSWAIGLSVADLAESIMKNLRRVHPISTMIG |
Parental | GLYGIKDDVFLSVPCILGQNGISDLVKVTLTSEEEARLKKSADTLWGIQKELQF |
G...IKDDVFLS.PCILG.NGISD.VKVTLT.EE.A.LK.SAD.LWGIQKELQF | |
Retrocopy | G---IKDDVFLSIPCILGENGISDRVKVTLTPEEGAHLKNSADPLWGIQKELQF |
* | Stop codon |
> | Forward frameshift by one nucleotide |
< | Reverse frameshift by one nucleotide |
Library | Retrocopy expression | Parental gene expression |
---|---|---|
bodymap2_adipose | 0 .56 RPM | 677 .74 RPM |
bodymap2_adrenal | 1 .78 RPM | 652 .87 RPM |
bodymap2_brain | 0 .70 RPM | 293 .75 RPM |
bodymap2_breast | 0 .58 RPM | 877 .38 RPM |
bodymap2_colon | 0 .12 RPM | 653 .53 RPM |
bodymap2_heart | 0 .20 RPM | 275 .86 RPM |
bodymap2_kidney | 0 .17 RPM | 797 .94 RPM |
bodymap2_liver | 0 .27 RPM | 1282 .88 RPM |
bodymap2_lung | 1 .35 RPM | 554 .06 RPM |
bodymap2_lymph_node | 1 .46 RPM | 571 .34 RPM |
bodymap2_ovary | 0 .19 RPM | 423 .80 RPM |
bodymap2_prostate | 0 .31 RPM | 470 .43 RPM |
bodymap2_skeletal_muscle | 0 .02 RPM | 208 .47 RPM |
bodymap2_testis | 0 .43 RPM | 412 .13 RPM |
bodymap2_thyroid | 0 .47 RPM | 621 .92 RPM |
bodymap2_white_blood_cells | 4 .88 RPM | 246 .29 RPM |
Species | RetrogeneDB ID |
---|---|
Pan troglodytes | retro_ptro_259 |
Pongo abelii | retro_pabe_364 |
Library | Retrogene expression |
---|---|
CEU_NA11831 | 0 .30 RPM |
CEU_NA11843 | 0 .17 RPM |
CEU_NA11930 | 0 .52 RPM |
CEU_NA12004 | 0 .08 RPM |
CEU_NA12400 | 0 .49 RPM |
CEU_NA12751 | 0 .32 RPM |
CEU_NA12760 | 0 .45 RPM |
CEU_NA12827 | 0 .38 RPM |
CEU_NA12872 | 0 .24 RPM |
CEU_NA12873 | 0 .06 RPM |
FIN_HG00183 | 0 .63 RPM |
FIN_HG00277 | 0 .41 RPM |
FIN_HG00315 | 0 .08 RPM |
FIN_HG00321 | 0 .18 RPM |
FIN_HG00328 | 0 .19 RPM |
FIN_HG00338 | 0 .23 RPM |
FIN_HG00349 | 0 .34 RPM |
FIN_HG00375 | 0 .20 RPM |
FIN_HG00377 | 0 .33 RPM |
FIN_HG00378 | 0 .30 RPM |
GBR_HG00099 | 0 .23 RPM |
GBR_HG00111 | 0 .28 RPM |
GBR_HG00114 | 0 .21 RPM |
GBR_HG00119 | 0 .26 RPM |
GBR_HG00131 | 0 .43 RPM |
GBR_HG00133 | 0 .22 RPM |
GBR_HG00134 | 0 .31 RPM |
GBR_HG00137 | 0 .41 RPM |
GBR_HG00142 | 0 .33 RPM |
GBR_HG00143 | 0 .35 RPM |
TSI_NA20512 | 0 .23 RPM |
TSI_NA20513 | 0 .46 RPM |
TSI_NA20518 | 0 .42 RPM |
TSI_NA20532 | 0 .37 RPM |
TSI_NA20538 | 0 .37 RPM |
TSI_NA20756 | 0 .35 RPM |
TSI_NA20765 | 0 .17 RPM |
TSI_NA20771 | 0 .28 RPM |
TSI_NA20786 | 0 .44 RPM |
TSI_NA20798 | 0 .22 RPM |
YRI_NA18870 | 0 .47 RPM |
YRI_NA18907 | 0 .24 RPM |
YRI_NA18916 | 0 .27 RPM |
YRI_NA19093 | 0 .18 RPM |
YRI_NA19099 | 0 .16 RPM |
YRI_NA19114 | 0 .05 RPM |
YRI_NA19118 | 0 .25 RPM |
YRI_NA19213 | 0 .53 RPM |
YRI_NA19214 | 0 .34 RPM |
YRI_NA19223 | 0 .20 RPM |