HsaINT0153390 @ hg38
Intron Retention
Gene
ENSG00000164889 | SLC4A2
Description
solute carrier family 4 member 2 [Source:HGNC Symbol;Acc:HGNC:11028]
Coordinates
chr7:151064526-151064966:+
Coord C1 exon
chr7:151064526-151064767
Coord A exon
chr7:151064768-151064847
Coord C2 exon
chr7:151064848-151064966
Length
80 bp
Sequences
Splice sites
5' ss Seq
CAGGTGCGC
5' ss Score
9.1
3' ss Seq
CATGTGGGTCCCTGTTACAGTTC
3' ss Score
7.95
Exon sequences
Seq C1 exon
ACCACCGCCAGTCCTCCCACCACATCCATCACCCACTGTCCACCCACCTGCCTCCGGATGCACGCCGCCGCAAGACACCCCAGGGCCCAGGACGGAAGCCTCGAAGGCGCCCGGGAGCCTCCCCGACTGGAGAAACCCCGACCATTGAGGAGGGGGAGGAAGATGAGGATGAGGCCAGCGAGGCTGAGGGGGCCCGGGCTCTCACTCAGCCGTCCCCTGTCTCCACACCCTCCTCGGTGCAG
Seq A exon
GTGCGCTGGGTGCGGGCTCCTAGGGCATGTCGGCAGGGCCCTGGCCTGGTCACTCCTGCCCATGTGGGTCCCTGTTACAG
Seq C2 exon
TTCTTTCTCCAAGAGGATGACAGTGCTGACCGGAAGGCAGAGAGGACCAGTCCATCTTCCCCTGCACCACTGCCCCACCAGGAGGCGACTCCTCGGGCCTCCAAAGGGGCCCAGGCTGG
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000164889:ENST00000413384:4
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=1.000 A=NA C2=1.000
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
NO
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
Associated events
Other assemblies
Conservation
Chicken
(galGal4)
No conservation detected
Chicken
(galGal3)
No conservation detected
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
CTGGAGAAACCCCGACCATTG
R:
GACTGGTCCTCTCTGCCTTCC
Band lengths:
168-248
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- Autistic and control brains