HsaINT0129487 @ hg19
Intron Retention
Gene
ENSG00000196313 | POM121
Description
POM121 transmembrane nucleoporin [Source:HGNC Symbol;Acc:19702]
Coordinates
chr7:72410953-72411532:+
Coord C1 exon
chr7:72410953-72411055
Coord A exon
chr7:72411056-72411355
Coord C2 exon
chr7:72411356-72411532
Length
300 bp
Sequences
Splice sites
5' ss Seq
GCGGTAAGG
5' ss Score
9.63
3' ss Seq
CACCTTTCTTTCTTTCTTAGATG
3' ss Score
10.85
Exon sequences
Seq C1 exon
CCTCCACCTCCCCAGCTTGGCTATTCGATCACTGCCGAGGACCTAGACTTAGAGAAGAAGGCTTCATTACAGTGGTTCAACCAGGCCTTGGAGGACAAGAGCG
Seq A exon
GTAAGGAGCACAGATTGTTGCACACTGGAGAGGTTTCAGGTGTCTGTTTTCTTTGGTTTTATTTTGGTGTTTGAAAAAATGGGTTTCTCTGGGAAAATCCCAAGTAGGGTTCCATGTTTTCTTGTGGTCTTTCTCACCTGAGATATCCGTGTTGGTCTTCACGGGAACTGGACAGCAGGGACCACTGCAATTGAGGGCAGGCATTCCTCCATGAGCTGTGCTGAGAGCCTGCTCTCCGACAGGCATGTGGAAAGAAGTCCCAGACAAGCCAGGACTGCTTCACCTTTCTTTCTTTCTTAG
Seq C2 exon
ATGCTGCCTCGAACTCTGTCACTGAGACCCCACCTATCACTCAGCCTTCATTTACCTTTACCCTGCCTGCTGCTGCACCTGCCTCCCCACCCACCTCCCTCCTGGCCCCAAGCACCAACCCACTGTTAGAGAGCTTGAAGAAGATGCAGACTCCCCCGAGCCTGCCACCCTGCCCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000196313-POM121:NM_172020:11
Average complexity
IR-S
Mappability confidence:
NA
Protein Impact
No protein impact description available
No structure available
Features
Disorder rate (Iupred):
C1=0.886 A=NA C2=1.000
Domain overlap (PFAM):
C1:
PF152291=POM121=PD(13.0=88.6)
A:
NA
C2:
NO
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:
CTCCACCTCCCCAGCTTGG
R:
CTCGGGGGAGTCTGCATCTTC
Band lengths:
262-562
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)