HsaINT0153410 @ hg19
Intron Retention
Gene
ENSG00000114923 | SLC4A3
Description
solute carrier family 4, anion exchanger, member 3 [Source:HGNC Symbol;Acc:11029]
Coordinates
chr2:220493127-220494143:+
Coord C1 exon
chr2:220493127-220493292
Coord A exon
chr2:220493293-220493865
Coord C2 exon
chr2:220493866-220494143
Length
573 bp
Sequences
Splice sites
5' ss Seq
AGTGTGGGT
5' ss Score
0.29
3' ss Seq
CGGATCTCCTGCACCCCCAGTTC
3' ss Score
6.01
Exon sequences
Seq C1 exon
GTCCGGGTGCCCTTGGAGGAGCCCCCTCTAAGTCCAGACGTGGAGGAGGAGGACGATGACTTGGGCAAGACCTTGGCTGTGAGCAGGTTTGGGGACCTCATCAGCAAGCCCCCGGCCTGGGACCCCGAGAAGCCCAGCCGCAGCTACAGCGAGCGGGACTTTGAGT
Seq A exon
GTGGGTAGCCTGGGGACCCCTAGTGCGGCCGCCCTCGCCACCATCACCTTCATCGCCACCATCACCGCGCTCACCTCCGGCTTGGTCACCCAGTGCCATCCTGTGCCGGACACTGTGCTGGACTCTGTGCTGGGCCACATGCCGTGTTCAGTCATCCTGCCTCCCCCACCCATCGCCTGTCCGCCTGCCTGGGGAGGTGGGCCCCAGACCAGGGGAGATCTAGGGAGCTGGGCCTGGGCCCTTCCACGGTGACCTTCCCCTTCCCCTTCGTCCCCACTCACTCCCTCCTTGTCCCACCTCGGCTAGTCCAACTCCGCCTTTCCCCTCCTTGCTGTATCACGTCTCCCCTCCCAGCCCCCTTCATGACCTTCCCTGTCCATCCACCCTCTCCTCCCACTCCACCAGACCTCATCAATGACAGGCACGTGGACACAGGTGTTGGGGGGTCATGGCCCTGGAGGAAGGACTAGGGTGCCCTTGTTTGCGGCCTTGAGCTGGAAGGTGTGTGCCCTCGGGTGGGGAGGGCCCCTGTTTCTGCTGTGGGGGCCTCAACCGGATCTCCTGCACCCCCAG
Seq C2 exon
TTCACCGGCACACATCCCACCACACCCACCACCCGCTCTCAGCGCGCCTGCCTCCACCCCACAAGCTGCGGCGGCTGCCCCCCACCTCTGCCCGGCACACCAGGAGAAAGAGGAAGAAGGAGAAAACCTCTGCTCCTCCCTCCGAGGGGACCCCTCCCATCCAGGAGGAGGGGGGAGCTGGAGTGGATGAGGAAGAGGAGGAAGAGGAGGAAGAGGAAGGAGAATCTGAGGCAGAACCTGTGGAGCCCCCCCACTCAGGGACCCCACAGAAGGCAAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000114923-SLC4A3:NM_005070:3
Average complexity
IR-S
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.969 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
Other assemblies
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
GAGCCCCCTCTAAGTCCAGAC
R:
TTCCTCATCCACTCCAGCTCC
Band lengths:
342-915
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- Genotype-Tissue Expression Project (GTEx)
- Autistic and control brains
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)