HsaINT0039523 @ hg19
Intron Retention
Gene
NA
Description
NA
Coordinates
chr3:129963134-129963336:+
Coord C1 exon
chr3:129963134-129963169
Coord A exon
chr3:129963170-129963273
Coord C2 exon
chr3:129963274-129963336
Length
104 bp
Sequences
Splice sites
5' ss Seq
CAAGTAAGA
5' ss Score
7.61
3' ss Seq
CTGCTTTTGATTCTATTAAGGGA
3' ss Score
6.88
Exon sequences
Seq C1 exon
GGTGAACATGGATTCCCTGGCTATCCTGGTGCACAA
Seq A exon
GTAAGAAGATATATTTCTGGGCCTGGCAACTGGTAGGCAGCATGTGTCATTTGTTTGTGCTTATTTTTCTTTACACTCAAAGTTCTGCTTTTGATTCTATTAAG
Seq C2 exon
GGAGAAGATGGTGACCCGGGCCATCAAGGAGAAAAGGGGGCAAAGGGAATAAGAGGGAAGAGG
VastDB Features
Vast-tools module Information
Secondary ID
-COL6A4P2:NR_027898:13
Average complexity
IR-S
Mappability confidence:
NA
Protein Impact
No protein impact description available
No structure available
Features
Disorder rate (Iupred):
C1=NA A=NA C2=NA
Domain overlap (PFAM):
C1:
NA
A:
NA
C2:
NA
Main Inclusion Isoform:
NA
Main Skipping Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Rat
(rn6)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
GGTGAACATGGATTCCCTGGC
R:
CTCTTCCCTCTTATTCCCTTTGCC
Band lengths:
98-202
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)