HsaINT0153375 @ hg38
Intron Retention
Gene
ENSG00000164889 | SLC4A2
Description
solute carrier family 4 member 2 [Source:HGNC Symbol;Acc:HGNC:11028]
Coordinates
chr7:151070181-151070571:+
Coord C1 exon
chr7:151070181-151070346
Coord A exon
chr7:151070347-151070456
Coord C2 exon
chr7:151070457-151070571
Length
110 bp
Sequences
Splice sites
5' ss Seq
GAGGTGAGG
5' ss Score
8.41
3' ss Seq
GCCCTGTCTGTGTCCCCCAGCGT
3' ss Score
9.04
Exon sequences
Seq C1 exon
CCACCCAAGTGATGAGAAGGACTTCTCCTTCCCCCGCAACATCTCAGCTGGCTCCCTGGGCTCCCTGCTGGGGCATCACCATGGTCAGGGGGCTGAGAGTGACCCCCACGTCACCGAGCCTCTCATGGGAGGTGTTCCTGAGACCCGGCTGGAGGTGGAGCGAGAG
Seq A exon
GTGAGGGGAGAACCAGCCCTGCCTGGGCTGGCGGCAGGGCTGAGGAAGCCTGGGTGTGGACTCAGAGTGGGAGGGGCCTGGCTGGGCTGAGCCCTGTCTGTGTCCCCCAG
Seq C2 exon
CGTGAGCTGCCGCCTCCAGCACCACCAGCTGGCATCACCCGCTCCAAGTCCAAGCACGAGCTGAAACTGCTGGAGAAGATTCCTGAGAATGCCGAGGCCACGGTGGTCCTTGTGG
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000164889:ENST00000413384:10
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.714 A=NA C2=0.462
Domain overlap (PFAM):
C1:
PF075658=Band_3_cyto=FE(20.4=100)
A:
NA
C2:
PF075658=Band_3_cyto=FE(14.1=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:
TTCTCCTTCCCCCGCAACATC
R:
GCCTCGGCATTCTCAGGAATC
Band lengths:
242-352
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- Autistic and control brains