RetrogeneDB ID: | retro_mmus_80 | ||
Retrocopylocation | Organism: | Mouse (Mus musculus) | |
Coordinates: | 8:92901484..92902228(+) | ||
Located in intron of: | ENSMUSG00000033192 | ||
Retrocopyinformation | Ensembl ID: | ENSMUSG00000078144 | |
Aliases: | Capns2, 2310005G05Rik, 30K-2 | ||
Status: | KNOWN_PROTEIN_CODING | ||
Parental geneinformation | Parental gene summary: | ||
Parental gene symbol: | Capns1 | ||
Ensembl ID: | ENSMUSG00000001794 | ||
Aliases: | Capns1, Capa-4, Capa4, Capn4, D7Ertd146e | ||
Description: | calpain, small subunit 1 [Source:MGI Symbol;Acc:MGI:88266] |
Percent Identity: | 67.77 % |
Parental protein coverage: | 88.81 % |
Number of stop codons detected: | 0 |
Number of frameshifts detected | 0 |
Parental | LISGAAGGGGGGGGGMGLGGGG---GGGGTAMRILGGVISAISEAAA-QYNPEPPPPRSHYSNIEANESE |
...GA..G.GG..GG..LGGGG....GGG....ILGG....ISEAAA.QY.PEPPP...H....EA.ESE | |
Retrocopy | ILEGADRGLGGALGGL-LGGGGQARAGGGNIGGILGGIVNFISEAAAAQYTPEPPPQQQHFTVVEASESE |
Parental | EVRQFRKLFVQLAGDDMEVSATELMNILNKVVTRHPDLKTDGFGIDTCRSMVAVMDSDTTGKLGFEEFKY |
EVR.FR..F.QLAG.DMEV.AT.LMNILNKV...H..LKT.GF..DTCRS.V.VMDSDTTGKLGFEEFKY | |
Retrocopy | EVRRFRQQFTQLAGPDMEVGATDLMNILNKVLSKHKELKTEGFSLDTCRSIVSVMDSDTTGKLGFEEFKY |
Parental | LWNNIKKWQAIYKRFDTDRSGTIGSHELPGAFEAAGFHLNEHLYSMIIRRYADESGNMDFDNFISCLVRL |
LWNNIKKWQ...K..D.D.SG..GS..L.GA..AAGF.LNE.LY.MI.RRYADE.G.MDF.NFISCLVRL | |
Retrocopy | LWNNIKKWQCVFKQYDSDHSGSLGSSQLHGAMQAAGFQLNEQLYLMIVRRYADEDGGMDFNNFISCLVRL |
Parental | DAMFRAFKSLDKNGTGQIQVNIQEWLQLTMYS |
DAMFRAFK.LD....G.IQV.I.EWLQLTMYS | |
Retrocopy | DAMFRAFKALDRDRDGLIQVSIREWLQLTMYS |
* | Stop codon |
> | Forward frameshift by one nucleotide |
< | Reverse frameshift by one nucleotide |
Library | Retrocopy expression | Parental gene expression |
---|---|---|
SRP007412_brain | 0 .40 RPM | 111 .60 RPM |
SRP007412_cerebellum | 0 .04 RPM | 161 .31 RPM |
SRP007412_heart | 0 .00 RPM | 265 .70 RPM |
SRP007412_kidney | 0 .06 RPM | 196 .98 RPM |
SRP007412_liver | 0 .03 RPM | 77 .75 RPM |
SRP007412_testis | 0 .91 RPM | 188 .17 RPM |
EST ID | Start | End | Identity | Match | Mis-match | Score |
---|---|---|---|---|---|---|
EH109772 | 92901645 | 92901921 | 100 | 276 | 0 | 276 |
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_145333 | 1022 libraries | 39 libraries | 8 libraries | 2 libraries | 1 library |
TSS #2 | TSS_145334 | 959 libraries | 43 libraries | 43 libraries | 7 libraries | 20 libraries |
TSS #3 | TSS_145335 | 996 libraries | 43 libraries | 20 libraries | 5 libraries | 8 libraries |
TSS #4 | TSS_145336 | 1033 libraries | 25 libraries | 14 libraries | 0 libraries | 0 libraries |
TSS #5 | TSS_145337 | 984 libraries | 26 libraries | 37 libraries | 8 libraries | 17 libraries |