Introducing ProtAnnot - Araport workshop at PAG 2016
1. ProtAnnot - visualizing
effects
of
alterna2ve
splicing
and
transcrip2on
on
protein
sequence
and
func2on
in
a
genome
browser
An Integrated Genome Browser
plug-in App
available from BioViz.org
Ann Loraine, UNC Charlotte
North Carolina Research Campus, Kannapolis
10. ProtAnnot
window
opens
exon
summary
change
in
height
signals
alterna2vely
spliced
region
5'
UTR
in
black
3'
UTR
in
black
coding
exons
colored
by
frame
12. Select
InterPro
signature
databases
• HMMSmart
-‐
domains
• SignalPHMM
-‐
signal
pep2des
• TMM-‐HMM
-‐
membrane
• or
others...
select
Run
enter
email
13. Search
is
running…in
background
Can
keep
using
ProtAnnot
and
IGB
while
search
runs
separate
from
GUI
event
loop.
14. Search
finished,
results
added
Can
click
links
to
see
Interpro
XML-‐format
results
hosted
for
a
short
2me
on
EBI
Web
site
15. Click
domain
to
select
it
Click
link
to
visit
Web
page
for
RRM
domain
Both
variants
contain
RNA-‐binding
domain
Exon-‐included
form
lacks
RS
repeat
region
–
splicing
ac2va2on,
PP
interac2on
RS
repeat
region
16. mutant
fused
stems
abnormal
floral
structures
ragged
cauline
leaves
Expression
and
rela2ve
abundance
of
splice
variants
disrupted.
Allele
is
dominant.
SR45a
dominant
negaBve