HsaINT0153328 @ hg19
Intron Retention
Gene
ENSG00000144290 | SLC4A10
Description
solute carrier family 4, sodium bicarbonate transporter, member 10 [Source:HGNC Symbol;Acc:13811]
Coordinates
chr2:162813499-162815065:+
Coord C1 exon
chr2:162813499-162813750
Coord A exon
chr2:162813751-162814996
Coord C2 exon
chr2:162814997-162815065
Length
1246 bp
Sequences
Splice sites
5' ss Seq
AAGGTAACA
5' ss Score
8.92
3' ss Seq
CTCCAATTGTTCTTTTACAGTTT
3' ss Score
8.24
Exon sequences
Seq C1 exon
AAAGGTTGTGGGTACCATCTGGACCTATTAATGGTGGCTGTCATGCTCGGTGTATGCTCCATCATGGGCCTGCCATGGTTTGTGGCTGCCACAGTCCTCTCCATCACTCATGTCAATAGCCTAAAACTGGAATCAGAATGCTCAGCTCCAGGAGAACAACCCAAATTTCTCGGCATTCGGGAGCAAAGGGTTACTGGGCTTATGATTTTTATTCTTATGGGTTCATCAGTCTTTATGACCAGTATTCTGAAG
Seq A exon
GTAACAAAATCTGTCTTTATGAACTTGAGAGAAAGAATACATTTATCATCATTTAAAATTTTCATTTGAATCTGAGCCATAAATTTGCAAATATTGTGTGGCATGTGATGAAAGTGATGAATTTCTGAACCATGTTTATATAATTCTTCATAACCTAAGGGAGGGAAATTACGTCCTATATTTTAAAACCCTTAAATACATAAAAATTTAGTCTGGCAAAGTAAAATTTGATGAGTAAATTATTGTAACAATTTTGAATCGGTGATCAAGCTATGGGAAAAAGTCACTCATTGTTTCTGACTGACTTGTGACCCGAATCCATTACAGGCATTCATAAAGATTCTATTTTCTTGTCAGTGGATAAATATATTAGCAGTTAATATTACTTACTATTAATAAGAGATAGAGGTGAAGGGATGAGCCTGGTTATAGTCACATACGCAGTTTTCCATTTTAAGTGCTCTGTAAAACCACTGTCTGGACATCATCATTGCATATAGTGATTTTTTTTTCACACAAAACTTGAAATCTATTTTTAAGAGGATTAACTAGTAATTATTTTGTCATGTAATTTTGTCAGATATTTCCAAGGTGTGTCAATTGCGCTATAAATTACAACACATTTTATTTGCCTATAATTTGACATTTTAATTAAATTATTTAATGATTTACACTAGTTTACTTGTATTTGATCATTAACACAAGTACCTTTGCAAGAATTAATCTCTGTTATATAAGTAATTATGTTATAGACATAAGATGATGTGAACTATTCCAATAAAAAGAGAAAATCTGAATTATCCATATATTTACAAATACCTGGTATAATACAGGAAACACATCTAAATGTTAGCTTCATTTTTAATCCACCTTTAATCCAAATATCTTATCTTTGTAAAGCAAAATTCAAGTTGTCTCCAAAGTAGCATAATAATAATATTATTGTTCATTATATACTACATGGTTTTTAAAAATAGATTTTGACCTATTAAATAATTATAACAACCCTATTGTTATCATCTCCTTTTAGATATTGGGAAACTAAGGCACAGAGAGCTTAAGTAACTTACCTAAGGTTACACAGCTAAAAATGCTAGAGCTGGAACTTGAATCCTTGTCTTCTGAATCTGTACTATACTGTTTCTATTCAAAAATGCCTTTTTTCCCTGTTTTTTTCTTTGATAAATGCAAAACCACAATCTATTTGAAAATGATTTCTGCCTTTTCTCCAATTGTTCTTTTACAG
Seq C2 exon
TTTATTCCCATGCCAGTGCTATATGGAGTGTTTCTTTATATGGGTGCTTCATCTCTAAAGGGAATTCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000144290-SLC4A10:NM_001178016:20
Average complexity
IR-S
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.000 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF0095516=HCO3_cotransp=FE(16.1=100)
A:
NA
C2:
PF0095516=HCO3_cotransp=FE(4.3=100)
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:
GGTACCATCTGGACCTATTAATGGTG
R:
TGAATTCCCTTTAGAGATGAAGCACC
Band lengths:
310-1556
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)