HsaINT0153537 @ hg38
Intron Retention
Gene
ENSG00000113073 | SLC4A9
Description
solute carrier family 4 member 9 [Source:HGNC Symbol;Acc:HGNC:11035]
Coordinates
chr5:140362445-140363066:+
Coord C1 exon
chr5:140362445-140362532
Coord A exon
chr5:140362533-140362911
Coord C2 exon
chr5:140362912-140363066
Length
379 bp
Sequences
Splice sites
5' ss Seq
CCGGTGAGC
5' ss Score
8.69
3' ss Seq
TTCTGTGCCCCCATTCCCAGCAA
3' ss Score
6.63
Exon sequences
Seq C1 exon
GTTTTTCTGCCTTCTCCTGGGCCCCTGTATGCTGGGAAAGGGCTACCATGAGATGGGACGGGCAGCAGCTGTCCTCCTCAGTGACCCG
Seq A exon
GTGAGCTGAGCAGGTGTGTGTGTGTGCGCGCGCACGCGTGCATGCCTGTGTGTGTGTGCACACATGCATACATGCATGGGCTCATGTGAGTGTGTGTGTGTGGACTCTGTATGTGTCCCTAAATACAGCAATGAGGCACAGTGAGCACTGAGACTGAAGTTTCCTCGTCTCCTAGTGCAGCCCCATTACTGGATGAGTGCTGGCACACTGTAGGCACTCAATAGATACCCACTGAATGAATGAATTAATGCATGCATAAAGGAATGTGTGAATGACTTGTCTGCCTCTGTGACTTGTGTCTGTCTAGTTTTGAGACTATGAAAATGCATGTAAGAGACCAGGTTTGCACTTACCACCCATTCTGTGCCCCCATTCCCAG
Seq C2 exon
CAATTCCAGTGGTCAGTTCGTCGGGCCAGCAACCTTCATGACCTTCTGGCAGCCCTGGATGCATTCCTAGAGGAGGTGACAGTGCTTCCCCCAGGTCGGTGGGACCCAACAGCCCGGATTCCCCCGCCCAAATGTCTGCCATCTCAGCACAAAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000113073:ENST00000506757:6
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=0.250
Domain overlap (PFAM):
C1:
PF075658=Band_3_cyto=FE(21.0=100)
A:
NA
C2:
PF075658=Band_3_cyto=PD(26.1=69.2)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Other assemblies
Conservation
Rat
(rn6)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
GTTTTTCTGCCTTCTCCTGGG
R:
TTTGTGCTGAGATGGCAGACA
Band lengths:
241-620
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- Autistic and control brains