HsaINT0153461 @ hg19
Intron Retention
Gene
ENSG00000188687 | SLC4A5
Description
solute carrier family 4, sodium bicarbonate cotransporter, member 5 [Source:HGNC Symbol;Acc:18168]
Coordinates
chr2:74491274-74492391:-
Coord C1 exon
chr2:74492231-74492391
Coord A exon
chr2:74491427-74492230
Coord C2 exon
chr2:74491274-74491426
Length
804 bp
Sequences
Splice sites
5' ss Seq
TAGGTGAGG
5' ss Score
7.65
3' ss Seq
TGTGTATGTTTTCCACACAGATG
3' ss Score
9.91
Exon sequences
Seq C1 exon
GTGGATAAAGTTTGAAGAAAAGGTAGAGGAAGGCGGCGAACGCTGGAGCAAGCCCCACGTGTCCACACTATCCCTGCACAGCCTCTTCGAGCTCCGTACCTGCCTGCAGACGGGGACGGTGCTGCTGGATTTGGACAGTGGCTCCTTACCACAGATCATAG
Seq A exon
GTGAGGCAGGGGCCACTGTGTGCATCTCTCCTGTGGTCCCTGCAAACCAGGGCAGCTCCCCTGACCTCATGCCTGCCCTCAAGTCTGTGTGACGGCCCGTCTCTGACACCTGATTCTGCAGAGACCAGCTTTGACTCTGTTGCTCCCAGGGCAGGATCATAGTCACTCCAAGTTTCAGTACCATGTAGACCTCCAGTAGAGAGGAAAAGACCATCCTCCAAAATGCCATCCAGAAATGTGGTAAAAGGGGAGAGGGCCTCTTGCATAGTCAGAGATACCTCTTGCCATGACAACCTGTTTCTTTTCAGGGTAAAATGGGTCATCATTCATCTTTAGGAAATTAGCTGTCATTTAGTGGTGTGTCGAAGGGAGGAGTTGGCTTGCCTTAACACCCCTAAAAATTTTTGTGAGTTTTGTTCTAGCACATTGGATTTTGCCAGAAGTATTTTGCCCAAAATACTTTTCTAAAAAGAGTTCATTTTAGGACTAAAACCATTGAACACAGTACTTTTGTGCCTCCTGGGGCAGTTTCATATGTACTGTTTATTTCACTTTTCATAAGAACATTGACAGAAAGAGCAGACACACACACACACACACACACACACACACACGTGCCCTTGAACAGGAGGAGGCCAAGAGTTGGTGATGTGCCCAGTTTTCCACAGCTAGTGGCAAAGCCAGGAGTACTTCCACACCCCCTCTGCCACATTTAATCCCACTAATAACAGGTGAAACTGAAGACTTCCATACCCTGGAGCTGTTCTGTCCCACAGGGATGAGGTGTGTATGTTTTCCACACAG
Seq C2 exon
ATGATGTCATTGAGAAGCAGATTGAGGATGGTCTCCTGCGGCCAGAGCTCCGGGAGAGGGTCAGTTACGTCCTCCTGAGGAGGCACCGCCACCAAACCAAGAAGCCCATCCACCGCTCCTTAGCTGACATTGGGAAGTCAGTCTCCACCACAA
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000188687-SLC4A5:NM_021196:4
Average complexity
IR-S
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.100 A=NA C2=0.318
Domain overlap (PFAM):
C1:
PF075658=Band_3_cyto=PU(17.5=85.5)
A:
NA
C2:
PF075658=Band_3_cyto=FE(19.0=100)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
Associated events
Other assemblies
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
TTGAAGAAAAGGTAGAGGAAGGCG
R:
TGTGGTGGAGACTGACTTCCC
Band lengths:
302-1106
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- Autistic and control brains
Other AS DBs:
FasterDB (Includes CLIP-seq data)
AS-ALPS (AS-induced ALteration of Protein Structure, links to PINs)
APPRIS (Selection of principal isoform)
DEU primates (Only for human)