HsaINT0153416 @ hg19
Intron Retention
Gene
ENSG00000114923 | SLC4A3
Description
solute carrier family 4, anion exchanger, member 3 [Source:HGNC Symbol;Acc:11029]
Coordinates
chr2:220494302-220495074:+
Coord C1 exon
chr2:220494302-220494417
Coord A exon
chr2:220494418-220494793
Coord C2 exon
chr2:220494794-220495074
Length
376 bp
Sequences
Splice sites
5' ss Seq
CAGGTACTG
5' ss Score
9.04
3' ss Seq
ATGCTCAGGGTCTACTCCAGGCC
3' ss Score
2.16
Exon sequences
Seq C1 exon
TTCTCCATTGGAAGTGACGAGGATGACAGTCCAGGCCTCCCTGGGAGGGCTGCTGTCACCAAGCCCCTGCCCTCGGTGGGCCCACACACTGACAAGAGCCCCCAGCACTCCAGCAG
Seq A exon
GTACTGGCTGCAGCCTCTACTCAGCAGGGCCCAGCCCAGAGCCACAGGGTCCAGAGCTCCTGGCAGTCACCTCCTTCCTGACCCTGGGGAGTGTCCCCAGCTCTGACCCTGAGAAAAGAGGAGCAGGGTGTGGGAGGGGGGTGGGGATCCTTCTCTGTCCTCATGATTTACAAGGAGGAGAGAACAAGGGGGGGGGGAGAAAAACAGAGAAGAGCAGAGTGAAGAGGTTAGGAGTTCCCCAGGAGAGAGTGACAGAGTAGAGAGGGTGAGGAGAAAGGTGGAGGAAAGGGGGAGCCACGGGATGGGGAGGGGGCCTGGGTCAGCATCCTTTGCTGCCCAGGAGGGGCCTGGGTCTCATGCTCAGGGTCTACTCCAG
Seq C2 exon
GCCGTGCTCTGAGCTGAGGGACGGTGATGGAACCACCGACCTGGCCCTGTCAAGTCCAAGGCTGCTGTGTTGCCTCCCCAGCTCCCCCAGCCCCCGGGCCCGGGCCTCCCGACTCGCTGGGGAGAAAAGCCGGCCCTGGAGCCCATCGGCCAGTTATGACCTGCGGGAGCGACTGTGCCCAGGCAGTGCCCTGGGCAACCCAGGTGGTCCAGAGCAGCAGGTGCCCACAGATGAGGCGGAGGCCCAGATGCTGGGTTCTGCAGACCTGGACGACATGAAGA
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000114923-SLC4A3:NM_201574:5
Average complexity
IR-C
Mappability confidence:
NA
Protein Impact
No protein impact description available
No structure available
Features
Disorder rate (Iupred):
C1=1.000 A=NA C2=1.000
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
NO
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
Associated events
Conservation
Rat
(rn6)
No conservation detected
Chicken
(galGal3)
No conservation detected
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
GAGGGCTGCTGTCACCAAG
R:
CTTCATGTCGTCCAGGTCTGC
Band lengths:
352-728
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)