SV2C

NameSynonymsFull NameRefSeq IDDescription (.pdf)IGV-img (humangenome)Sashimi-img (humangenome)UCSC-img (humangenome)IGV-img (batgenome)
SV2C synaptic vesicle glycoprotein 2C pdf

Download all snapshots for IGV, UCSC and Sashimi (zip archive)

Description

SV2C (synaptic vesicle glycoprotein 2C) is a protein-coding gene. Diseases associated with SV2C include botulism. GO annotations related to this gene include transmembrane transporter activity. An important paralog of this gene is SV2B.

This gene is very low in expression and is not differentially expressed.

Interestingly, two pseudogenes are located in introns of SV2C and are highly expressed. The first pseudogene (RP11-466P24.2-201) at position 75,465,911-75,470,171 on chromosome 5 is highly expressed and is slightly down-regulated in Ebola infected cells in human cells and not in bat cells cells. The second pseudogene is the High Mobility Group Nucleosomal Binding Domain 2 Pseudogene 4 (HMGN2P4). This pseudogene is highly expressed in all investigated cell lines and strongly downregulated in human ebola infected cells. This expression pattern is not observed for the paralog High Mobility Group Nucleosomal Binding Domain 2 (HMGN2P4) gene. %%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%

\igvfigure{ \beginfigure[H] \centering \includegraphics[width=\textwidth]../../input/holy_folders/hg19.goi.00429/snapshots//hg19.goi.00429_igv_1.eps % \includegraphics[width=\textwidth]../../input/holy_folders/hg19.goi.00429/snapshots//hg19.goi.00429_igv_2.eps % \includegraphics[width=\textwidth]../../input/holy_folders/hg19.goi.00429/snapshots//hg19.goi.00429_igv_3.eps % \includegraphics[width=\textwidth]../../input/holy_folders/hg19.goi.00429/snapshots//hg19.goi.00429_igv_4.eps % \includegraphics[width=\textwidth]../../input/holy_folders/hg19.goi.00429/snapshots//hg19.goi.00429_igv_5.eps % \includegraphics[width=\textwidth]../../input/holy_folders/hg19.goi.00429/snapshots//hg19.goi.00429_igv_6.eps % \includegraphics[width=\textwidth]../../input/holy_folders/hg19.goi.00429/snapshots//hg19.goi.00429_igv_7.eps %

\caption\igv of gene SV2C. % <- say something about the figure here \endfigure }

\sashimifigure{ \beginfigure[H] \centering \includegraphics[width=\textwidth]../../input/holy_folders/hg19.goi.00429/snapshots//hg19.goi.00429_sashimi_1.eps % \includegraphics[width=\textwidth]../../input/holy_folders/hg19.goi.00429/snapshots//hg19.goi.00429_sashimi_2.eps % \includegraphics[width=\textwidth]../../input/holy_folders/hg19.goi.00429/snapshots//hg19.goi.00429_sashimi_3.eps % \includegraphics[width=\textwidth]../../input/holy_folders/hg19.goi.00429/snapshots//hg19.goi.00429_sashimi_4.eps % \includegraphics[width=\textwidth]../../input/holy_folders/hg19.goi.00429/snapshots//hg19.goi.00429_sashimi_5.eps % \includegraphics[width=\textwidth]../../input/holy_folders/hg19.goi.00429/snapshots//hg19.goi.00429_sashimi_6.eps % \includegraphics[width=\textwidth]../../input/holy_folders/hg19.goi.00429/snapshots//hg19.goi.00429_sashimi_7.eps % \caption\sashimi of gene SV2C. % <- say something about the figure here \endfigure }

\ucscfigure{ \beginfigure[H] \centering \includegraphics[width=\textwidth]../../input/holy_folders/hg19.goi.00429/snapshots//hg19.goi.00429_ucsc.eps % \caption\ucsc of gene SV2C. % <- say something about the figure here \endfigure }

\beginfigure[H] \centering \includegraphics[width=\textwidth]../../input/holy_folders/hg19.goi.00429/snapshots//rae.goi.00429_pseudogene_1.eps % \includegraphics[width=\textwidth]../../input/holy_folders/hg19.goi.00429/snapshots//rae.goi.00429_pseudogene_2.eps % \captionExpression of both pseudogenes in bat cells. Left: RP11-466P24.2-201 and right: HMGN2P4 % <- say something about the figure here \endfigure

\setcounterfigure0\enddocument

Show legend

Maximum read counts and DESeq normalized read counts for human and bat cell lines

Source Species Mapping on Mock3h Mock7h Mock23h EBOV3h EBOV7h EBOV23h MARV3h MARV7h MARV23h
Read_Max
humanH. sapiensGenome1443 1256 1102 1301 1816 1342 1688 1426 908
Read_Max
batR. aegyptiacusTranscriptome NA NA NA NA NA NA NA NA NA
Read_Max
bat_genomeR. aegyptiacusGenome 1 0 2 2 2 2 2 3 2
DESeq
humanH. sapiensGenome 2869.8 2596.58 2741.2 2998.72 2880.47 3597.42 2795.77 2425.43 2489.94
DESeq
batR. aegyptiacusTranscriptome NA NA NA NA NA NA NA NA NA
DESeq
bat_genomeR. aegyptiacusGenome 2.58 0.0 2.23 4.94 4.46 2.61 3.37 3.96 5.14

Human Condition Comparisons

human Mock EBOV MARV FCMock_EBOV FCMock_MARV FCEBOV_MARV
3h 2869.8 2998.72 2795.77 0.06 -0.04 -0.1
7h 2596.58 2880.47 2425.43 0.15 -0.1 -0.25
23h 2741.2 3597.42 2489.94 0.39 -0.14 -0.53

Human Time Point Comparisons

human 3h 7h 23h FC3h_7h FC3h_23h FC7h_23h
Mock 2869.8 2596.58 2741.2 -0.14 -0.07 0.08
Ebov 2998.72 2880.47 3597.42 -0.06 0.26 0.32
Marv 2795.77 2425.43 2489.94 -0.21 -0.17 0.04

Bat Condition Comparisons

bat Mock EBOV MARV FCMock_EBOV FCMock_MARV FCEBOV_MARV
3h NA NA NA NA NA NA
7h NA NA NA NA NA NA
23h NA NA NA NA NA NA

Bat Time Point Comparisons

bat 3h 7h 23h FC3h_7h FC3h_23h FC7h_23h
Mock NA NA NA NA NA NA
Ebov NA NA NA NA NA NA
Marv NA NA NA NA NA NA