HsaINT0120746 @ hg19
Intron Retention
Gene
ENSG00000106331 | PAX4
Description
paired box 4 [Source:HGNC Symbol;Acc:8618]
Coordinates
chr7:127253076-127253586:-
Coord C1 exon
chr7:127253504-127253586
Coord A exon
chr7:127253146-127253503
Coord C2 exon
chr7:127253076-127253145
Length
358 bp
Sequences
Splice sites
5' ss Seq
AGGGTGAGT
5' ss Score
9.25
3' ss Seq
TTGTCCCTGTCCTCGCTCAGGTC
3' ss Score
9.18
Exon sequences
Seq C1 exon
AGTTCCAGCGTGGGCAGTATCCTGATTCAGTGGCCCGTGGAAAGCTGGCTACTGCCACCTCTCTGCCTGAGGACACGGTGAGG
Seq A exon
GTGAGTGAGCTCTGCAACACTGTACAAACCACAAGGAGGAAGAGTCTGGGCCGGCCAGGGCTTTGGGTTCCAATGAGGTGGAGAGGGGAGGTGAGAAATTGGAAGCAAATTTGTTTGGAGCAACAATCAGAGATGAGATCCTCCTTGTTCACCTTCTGCTGACTGCTCTCCTCTCTTCCCCAACCCAAACCTTTGAGTTGAGGAAGGGGCCAGAGAGCAAAAGCTAGAGCAGGGAGGGAGGATGTCAGGCCCAAGGAAGGGTCAACATTCTGAGTTCAGGCTAGGAACATGTGGTGAGATCAGCAGGTGACAGGCAGCATAAAGTACAGCCAGCTGCATTGTCCCTGTCCTCGCTCAG
Seq C2 exon
GTCTGGTTTTCCAACAGAAGAGCCAAATGGCGTCGGCAAGAGAAGCTCAAGTGGGAAATGCAGCTGCCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000106331-PAX4:NM_006193:5
Average complexity
IR-S
Mappability confidence:
NA
Protein Impact
No protein impact description available
No structure available
Features
Disorder rate (disopred):
C1=0.750 A=NA C2=0.896
Domain overlap (PFAM):
C1:
PF0004624=Homeobox=FE(47.4=100)
A:
NA
C2:
PF0004624=Homeobox=PD(19.3=45.8)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Conservation
Rat
(rn6)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
No suggested primer sequences
R:
No suggested primer sequences
Band lengths:
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
Other AS DBs:
FasterDB (Includes CLIP-seq data)
AS-ALPS (AS-induced ALteration of Protein Structure, links to PINs)
APPRIS (Selection of principal isoform)
DEU primates (Only for human)