HsaINT0153529 @ hg38
Intron Retention
Gene
ENSG00000113073 | SLC4A9
Description
solute carrier family 4 member 9 [Source:HGNC Symbol;Acc:HGNC:11035]
Coordinates
chr5:140371095-140371624:+
Coord C1 exon
chr5:140371095-140371163
Coord A exon
chr5:140371164-140371450
Coord C2 exon
chr5:140371451-140371624
Length
287 bp
Sequences
Splice sites
5' ss Seq
CAGGTGAGC
5' ss Score
9.6
3' ss Seq
TCTTCCTCTTGTTCCCCTAGTTC
3' ss Score
10.69
Exon sequences
Seq C1 exon
TTCATTCCAATGCCTGTGCTCTATGGCATCTTCCTGTATATGGGGGTGGCAGCGCTCAGCAGCATTCAG
Seq A exon
GTGAGCCCATTAAAATCACCTAACAAAAGAAAAAAGAAGAATAAAAAGACAAACAAAAAAGAACAAAATTACCTAGCAACCCTACTCCTTTTTTCTTTTCTGCTGGCATCTCCTGCTTACACTTGCCAATTTCCCTCTTACTCTCTTTTTCCTGTCTCTCCTGGACTCAGGGACTCGGCTGCCATGCTCTCTGCCTGCTCCCAGTGCTGGGCTATGATAGCTATCAGTGACACCCTCCTATCAGGCTACCTGAGTGCCCTGCTTTCCTCTTCCTCTTGTTCCCCTAG
Seq C2 exon
TTCACTAATAGGGTGAAGCTGTTGTTGATGCCAGCAAAACACCAGCCAGACCTGCTACTCTTGCGGCATGTGCCTCTGACCAGGGTCCACCTCTTCACAGCCATCCAGCTTGCCTGTCTGGGGCTGCTTTGGATAATCAAGTCTACCCCTGCAGCCATCATCTTCCCCCTCATG
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000113073:ENST00000506757:18
Average complexity
IR
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(4.4=100)
A:
NA
C2:
PF0095516=HCO3_cotransp=PD(13.9=58.6)
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:
CAATGCCTGTGCTCTATGGCA
R:
CATGAGGGGGAAGATGATGGC
Band lengths:
236-523
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- Autistic and control brains