HsaINT0153409 @ hg19
Intron Retention
Gene
ENSG00000114923 | SLC4A3
Description
solute carrier family 4, anion exchanger, member 3 [Source:HGNC Symbol;Acc:11029]
Coordinates
chr2:220505511-220506702:+
Coord C1 exon
chr2:220505511-220505684
Coord A exon
chr2:220505685-220506372
Coord C2 exon
chr2:220506373-220506702
Length
688 bp
Sequences
Splice sites
5' ss Seq
GCGGTAAGG
5' ss Score
9.63
3' ss Seq
ACCTTCTGTTCCCTCTGCAGCTG
3' ss Score
12.77
Exon sequences
Seq C1 exon
GTGAAGACGTGGCGGATGCATCTGTTCACCTGCATCCAGCTGGGCTGCATCGCACTGCTCTGGGTGGTCAAGTCCACGGCGGCCTCACTCGCCTTTCCCTTCCTGCTGCTGCTCACGGTGCCTCTGAGGCATTGCCTTCTGCCCCGGCTCTTCCAGGACAGGGAGCTGCAGGCG
Seq A exon
GTAAGGGGGTGGTGGTCTGGGGAAACAGTGTTAGGGCAAATGGGCACTGGGTTCCAATCTCTGTTTGGCCACCCACTAGTTGTGTTAGTTGTGAAACTTGTGTAACTTGTGTTGCAAGTTATCTCACCTTCCGAAATCTTATTTTCACCTGTATAATAGGGGTGATCATAGACCCTACCTTATAGGACTGTTGGGAGGGTCAAGTGCTAGTCCAGGTAAAGGCCTTAGGATGGTGGTTTTGTAAGGGAGTTGGCACGGGGCTGCTGCACACAGCTGTGCAGGTGGTGCCTGACCAAAAACACCCGGCTGAGAGGCTACAGGGTTGATGTGGCACTGGTGTCCACCCTGAGCCCTGTTTTTGTCAACTAGAGGAAAAGACATCTTTTTGCAATTTATCCATACTCAAACATGGTGTACAAAGGTACCATAGCAACTAGAAGTGGCCTCAGGAAAGAGCTTCATAATAATAATCATTATTATTATCACCAGGAGGGGCCAGGTATCTGGTCTGGGAGGTGACCTGAAGGCTTTGGCCAAGGGCAGTGCTGCCACCCAGGGTCATGGTACTTGCAGAGAGGCCCAGGAAAGGTCAGGGAGCAGGGAGGGCTGCAGGTTGGAGGAGGAGCTGGAGAATGGGAGGGGACGAGCATGCTTCCCTGCCTTCCCCAACCTTCTGTTCCCTCTGCAG
Seq C2 exon
CTGGACTCGGAAGATGCTGAACCAAACTTCGATGAGGATGGCCAGGATGAGTACAATGAGCTGCACATGCCAGTGTGACCCTTGAAGACAGTGCCCCTCAGAGACCCCAAGACCTTAGGGATTGACACCTGGGCCTCAGGCAGAGCCCAGCCCTGGGCTGGGGGGCTCCTCAGGACCCAGAGATGTGCCTGGAACCACTCCTGATGCCATGGCTAGAGTGGCCCCCCTGACTTCTGCCCGGGGTGTTGACCTCGCCTCACCTTTCACAGACCAGACCGGCACAGGCTTTGAGCTCATTATAACCACACTCCTTGTCTCGTGTCTGCCTCA
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000114923-SLC4A3:NM_005070:22
Average complexity
IR-S
Mappability confidence:
NA
Protein Impact
Alternative protein isoforms
No structure available
Features
Disorder rate (Iupred):
C1=0.000 A=NA C2=0.440
Domain overlap (PFAM):
C1:
PF0095516=HCO3_cotransp=PD(2.3=19.0)
A:
NA
C2:
NO
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Other assemblies
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
GCATCTGTTCACCTGCATCCA
R:
GTGGTTCCAGGCACATCTCTG
Band lengths:
355-1043
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- 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)