HsaINT0153482 @ hg19
Intron Retention
Gene
ENSG00000033867 | SLC4A7
Description
solute carrier family 4, sodium bicarbonate cotransporter, member 7 [Source:HGNC Symbol;Acc:11033]
Coordinates
chr3:27439175-27439844:-
Coord C1 exon
chr3:27439683-27439844
Coord A exon
chr3:27439289-27439682
Coord C2 exon
chr3:27439175-27439288
Length
394 bp
Sequences
Splice sites
5' ss Seq
AAGGTAACT
5' ss Score
9.01
3' ss Seq
ACATAATCCCTTTAACATAGGTG
3' ss Score
5.25
Exon sequences
Seq C1 exon
GAATGTAAAAAACTTCGTGGTGTATTCTTGGGGTCAGCTTGTGGTCATCATGGACCTTATATTCCAGATGTGCTCTTTTGGTGTGTCATCTTGTTTTTCACAACATTTTTTCTGTCTTCATTCCTCAAGCAATTTAAGACCAAGCGTTACTTTCCTACCAAG
Seq A exon
GTAACTGTGATATAATTTTGGAATTCTGGTAATATTCATATTTTTGGTTTTTATTTCCTTGGTTTATTTCAAAACAGTAATATATTTTTTGAGGTTAATACTCCATGCCAACTGGTTAATAAAGAAATTATTCGTAGTGAAAAATGTATATTACGTGCCTGAGCTCACAGTAGGAAGATGATGGTACCATAAGAGTTGCTAGGTTAGTTGCGAAATGTGTTTCTTATATTTTTGGAAAGAATTAAATATAAATGTGTTTCACTGTTAACATTGTCACTAGTTAAAAGCTCCATTTGTACGTTGTAGTGACAATTTTATCAATAAAAGATGTGAATTATTTAGAAAGAACACATAGTATTTCTGTGTTTATATTAACATAATCCCTTTAACATAG
Seq C2 exon
GTGCGATCGACAATCAGTGATTTTGCTGTATTTCTCACAATAGTAATAATGGTTACAATTGACTACCTTGTAGGAGTTCCATCTCCTAAACTTCATGTTCCTGAAAAATTTGAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000033867-SLC4A7:NM_003615:17
Average complexity
IR-S
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.000 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF0095516=HCO3_cotransp=FE(10.3=100)
A:
NA
C2:
PF0095516=HCO3_cotransp=FE(7.2=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:
TCGTGGTGTATTCTTGGGGTC
R:
CTCAAATTTTTCAGGAACATGAAGTT
Band lengths:
262-656
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)