HsaINT0153378 @ hg38
Intron Retention
Gene
ENSG00000164889 | SLC4A2
Description
solute carrier family 4 member 2 [Source:HGNC Symbol;Acc:HGNC:11028]
Coordinates
chr7:151071072-151071605:+
Coord C1 exon
chr7:151071072-151071297
Coord A exon
chr7:151071298-151071389
Coord C2 exon
chr7:151071390-151071605
Length
92 bp
Sequences
Splice sites
5' ss Seq
AGGGTACGG
5' ss Score
7.86
3' ss Seq
GACGGAGGCCTGGGTTGCAGCGC
3' ss Score
0.53
Exon sequences
Seq C1 exon
CAATTCCACGAGGCAGCCTACCTGGCTGACGAGCGGGAGGACCTGCTGACGGCCATCAACGCCTTCCTGGACTGCAGCGTGGTGCTGCCGCCTTCAGAAGTGCAGGGCGAGGAGCTGCTGCGCTCTGTGGCCCACTTCCAGCGCCAGATGCTCAAGAAGCGAGAGGAGCAGGGCCGGCTGCTACCTACAGGGGCTGGGCTGGAGCCCAAATCTGCCCAAGATAAGG
Seq A exon
GTACGGCCAGGGCGGGCTGGGGCCAGGGCTGCCTCGAGGGGGTGAGGTGGGCAAGAGGGGCTGGGGCGCCCTGACGGAGGCCTGGGTTGCAG
Seq C2 exon
CGCTCCTGCAGATGGTAGAGGCGGCAGGGGCAGCTGAAGATGATCCCCTTCGGCGGACGGGGCGGCCCTTTGGGGGGCTGATCCGAGATGTGCGGCGCCGCTATCCCCACTACCTGAGTGACTTCCGAGATGCACTTGACCCTCAGTGCCTGGCCGCAGTCATCTTCATCTACTTTGCCGCCCTGTCTCCTGCCATCACCTTTGGGGGGCTGCTGG
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000164889:ENST00000413384:13
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.079 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF075658=Band_3_cyto=PD(13.4=47.4)
A:
NA
C2:
PF0095516=HCO3_cotransp=PU(11.5=78.1)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Other assemblies
Conservation
Chicken
(galGal3)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
CTTCAGAAGTGCAGGGCGAG
R:
GATCATCTTCAGCTGCCCCTG
Band lengths:
180-272
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- Autistic and control brains