HsaINT0153498 @ hg19
Intron Retention
Gene
ENSG00000050438 | SLC4A8
Description
solute carrier family 4, sodium bicarbonate cotransporter, member 8 [Source:HGNC Symbol;Acc:11034]
Coordinates
chr12:51897813-51899714:+
Coord C1 exon
chr12:51897813-51897904
Coord A exon
chr12:51897905-51899618
Coord C2 exon
chr12:51899619-51899714
Length
1714 bp
Sequences
Splice sites
5' ss Seq
CAGGTAAAA
5' ss Score
8.59
3' ss Seq
GTCCTAATGATTGATTTCAGATG
3' ss Score
6.13
Exon sequences
Seq C1 exon
GAGGCTGAGAAAATGTTAGAAATTGGGGGAGACAAGTTTCCCTTAGAGAGCAGGAAGTTACTAAGTAGTCCTGGAAAGAACATCAGTTGCAG
Seq A exon
GTAAAACTTCCAAACACCAAGGAGTTTACTTTTGGGTTATTCTCTAAGTGTTCTGGCTTTGTGGTGGTGGTGGTGTCACAAGTGCAGCTGCTGGCATAAAGAGCTAAATATTCAGCCTCCCAGTTCCATCCTGTGAAAATACCTTTTCCATCTCATTGTTTATTGAATACCTGCTATGTACCAGGCACTGTATCAGGTTATGGGAATCACAAGAAGAGAGGTAAGAAAGCCAATGTACTGAGTGCCTCCTTTGTGCTGGGATTGTGCTAGAGGGTTTACTTATGTGTTGTCAGTTAACCTGTACTCATATGAATATCACTATCCACATTTGTATAAGTGAAGAAACTAAGTCTTAGAGAGTTTTAGGTAATTTATCCAAAGTTACAATGTTGCTGAATAGAAAGATTAGGATTCAAACCCTGGTCGTCTTCTATTCCTCAAACCAGTGCTCCTTCTGCCTTTCTTTGCCACCTTCCAAAGATGAAAAGGATGTGGTCTTTATTTCCAGAGAGTTCTCAGCCTAGTAGGCATGAAATCCAATGCTTGGGCAAGCTTTTGGGGATAGGCAGAAATAGTCAATGTTAGCCTGGCTTGTGGCATCTGTAGTTCTGGGAGCAAGGGGGAATTGAACTGGGATCATGAAAATTCCTTACTTCTGCCAATGATTTTAGCCCCTTTCTCTATCAAACCTATTGCTCACCACAAATGACAGGAAGCTAAATTGGTCCATTCATGGTTTTACTCCTAGCATCTTGTTTCTGAATTGGAAGAGATACACATAGCACTTGTGTACCTCTAGGTACCATAAGCTGAAAAACCTAGAGGTCAAGAGGGAGCAGAGCAAAGGAAAAGAGCAGGATATCTGGGTCATTGAGATTCTGAAGAATTTACTGCTGCATCACTGAGTTGGTTGTGGTTTATACTGTGGGGGAAATTAGGACAGTCTTTTTCGTAATAATAGTCTTGGTTCTTAATAAACTTTCTACGTGTTGTTGTGGAAGGAGCCGTGAGCTTGATTTATCTGGTGGCAAAGTAGGAACAATGTTTCCCCTGTAACAGGATGCTGCCTCCTCTCTTGGCATTTTAGAAGGAGATAATCTGGCTTGCAGCAAACATCAAACTATTCTGTTTCTAGGAAACCAAGGGCTGGGTTCAAGGTCTTGATTCTCTACTTGCTGTTGTTTGACCTTGGATAGTCACTTAGCTCTGAGAGCTTTCATTTCTGCACCTTCAAAATGAGGATGTTAATAATCTCTGTTGCTATGATAGTTAAGATACTAGGAAAGTCCTTTGTGAACTATGAATAGAAGAGATTTGGCTGTTTAAATGGGAAAATGAATGAAAAATGCCTGGCATGCAGCAAGTGCTCCGTAAGTGGTAGTTCCTGATGCTACACTGTTGATATCATAGTGTTGTCAGCAGCATCTCCAGTGAGGCCCTTCGGAGGAGTGCACAGTTGTGGGAGCAGGACTGGCTGCCACCTGGCACACCAGCCCAGCTTTCAGCACCACCTCATGGGCCACCTTGCCATTCTGACCTCAGTGGCTGCAGGAGAAAGATCAGACTCCATCTTGTTCCCCGAGTTCCTGAGAGCTGTTGGCTGCGTGGTCTCAAACCCCATCTTCTCCCTTCTATTGGGACAGTGATCATTATAGACTGTGGTATGTATTTTACTTGTATGTCTGACATTCACTGTCCTAATGATTGATTTCAG
Seq C2 exon
ATGTGACCCCTCTGAGATTAATATATCTGATGAAATGCCTAAAACTACAGTTTGGAAAGCTCTCAGTATGAATTCTGGAAATGCAAAGGAAAAGAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000050438-SLC4A8:NM_001039960:23
Average complexity
IR-S
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.065 A=NA C2=0.121
Domain overlap (PFAM):
C1:
NO
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:
GCTGAGAAAATGTTAGAAATTGGGGG
R:
CTCTTTTCCTTTGCATTTCCAGA
Band lengths:
185-1899
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)