HsaINT0153405 @ hg38
Intron Retention
Gene
ENSG00000114923 | SLC4A3
Description
solute carrier family 4 member 3 [Source:HGNC Symbol;Acc:HGNC:11029]
Coordinates
chr2:219638164-219638869:+
Coord C1 exon
chr2:219638164-219638253
Coord A exon
chr2:219638254-219638702
Coord C2 exon
chr2:219638703-219638869
Length
449 bp
Sequences
Splice sites
5' ss Seq
CAGGTGAGG
5' ss Score
10.07
3' ss Seq
CCTGTTTTCCTGCCATGCAGAAG
3' ss Score
8.21
Exon sequences
Seq C1 exon
GCTCGTCGCATCATCGGGGACTTTGGCATCCCCATCTCCATCCTGGTGATGGTCCTGGTGGATTACTCCATCACAGACACCTACACGCAG
Seq A exon
GTGAGGGAGCCCCAGCCTGTGGCAGCTGCTGTCACCCCCAGGCCAGGAGAGGGAGCCCACAACACACTTCCATGGGCCCTGGGATTGGGATCAGGCCTGAACTCAACTTTCCCAGTGGAGTGGCCGCCCTGGGGGCTGAGGGCCTTCCCCAGGGAGCCTGAGTGATGAATCCGGGAGAAGCAGGTGTGGGGCTGGGAGCAGAATGACAGTATCCCACACAGGTCCCCTGAAGCTCTGGGGCTCAGGGAGGAGGCGCTTCATTTCCCTGCCCTCTATTGGATCCTTGAAAGGACAGTGACTTCTGGAGGATGCAAAACTAATTTTCCCCTGACCTGTTCACACCCCAGCTCCCTGAAGTCCTGGACTGGGGACGCAGCTTAGTGGGCTGCTTGGTGGGCTTTCTAGCATGGGGAGGCTGTGTCCCTGAACCCTGTTTTCCTGCCATGCAG
Seq C2 exon
AAGCTGACAGTGCCTACAGGGCTCTCAGTGACCTCTCCCGATAAGCGCTCGTGGTTCATCCCACCCCTGGGCAGTGCCCGTCCTTTCCCGCCGTGGATGATGGTGGCAGCCGCTGTTCCCGCCCTCCTCGTCCTCATCCTGATCTTCATGGAGACACAGATCACGGC
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000114923:ENST00000273063:18
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(5.9=100)
A:
NA
C2:
PF0095516=HCO3_cotransp=FE(11.3=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:
CGTCGCATCATCGGGGACTT
R:
GCCGTGATCTGTGTCTCCATG
Band lengths:
254-703
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- Autistic and control brains