HsaINT0153538 @ hg38
Intron Retention
Gene
ENSG00000113073 | SLC4A9
Description
solute carrier family 4 member 9 [Source:HGNC Symbol;Acc:HGNC:11035]
Coordinates
chr5:140362912-140363555:+
Coord C1 exon
chr5:140362912-140363066
Coord A exon
chr5:140363067-140363438
Coord C2 exon
chr5:140363439-140363555
Length
372 bp
Sequences
Splice sites
5' ss Seq
AAGGTACCT
5' ss Score
8.49
3' ss Seq
GGGGTTCCCCTCCTCCTCAGGCT
3' ss Score
7.65
Exon sequences
Seq C1 exon
CAATTCCAGTGGTCAGTTCGTCGGGCCAGCAACCTTCATGACCTTCTGGCAGCCCTGGATGCATTCCTAGAGGAGGTGACAGTGCTTCCCCCAGGTCGGTGGGACCCAACAGCCCGGATTCCCCCGCCCAAATGTCTGCCATCTCAGCACAAAAG
Seq A exon
GTACCTGGGAGCCATCATCCCATACAGATTCCTGCCCATATAGGCCCTGGGTCTAATTCCATTGTTGAGGAGGGGTGGTGTCCCAGGAAAGAGATAGGGACCTATCTTTGGATTTGGAGTCAGGCAGACCTAACTCTGAGTTCTGCTGGACTACTCTCTCGCTAAGAGACCTGAACAAAGACCTTCCCTGCCCGAGCCTGGCTTTCACAGGTCGCAATATGACCTGGACCTTCTAGAGGCCCAGGTGTCGCCATGGTTCCCTCGCCGGCAGAGACAAGAGCAGCCGCTAGGGGGCAGGGCGCCACGAGCTCTGGACCGAGTCGCAGACTGGTTGGAGATCCTCAGCCAACCTGGGGTTCCCCTCCTCCTCAG
Seq C2 exon
GCTTCCCTCGCAACAGCGGGAGATCAGAGGTCCCGCCGTCCCGCGCCTGACCTCGGCTGAGGACAGGCACCGCCATGGGCCACACGCACACAGCCCGGAGTTGCAGCGGACCGGCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000113073:ENST00000506757:7
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.250 A=NA C2=0.844
Domain overlap (PFAM):
C1:
PF075658=Band_3_cyto=PD(26.1=69.2)
A:
NA
C2:
PF0095516=HCO3_cotransp=PU(1.0=12.5)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Other assemblies
Conservation
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
ATTCCAGTGGTCAGTTCGTCG
R:
CTGCAACTCCGGGCTGTG
Band lengths:
259-631
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- Autistic and control brains