HsaINT0153466 @ hg19
Intron Retention
Gene
ENSG00000188687 | SLC4A5
Description
solute carrier family 4, sodium bicarbonate cotransporter, member 5 [Source:HGNC Symbol;Acc:18168]
Coordinates
chr2:74480101-74481833:-
Coord C1 exon
chr2:74481746-74481833
Coord A exon
chr2:74480256-74481745
Coord C2 exon
chr2:74480101-74480255
Length
1490 bp
Sequences
Splice sites
5' ss Seq
GATGTAAGT
5' ss Score
9.11
3' ss Seq
CCCTCCTCTCTCCTCGCCAGCTC
3' ss Score
9.1
Exon sequences
Seq C1 exon
ATTTCTGTTTATACTACTGGGACCTTCTGGGAGAGCAAAATCCTACAATGAAATTGGCCGTGCCATTGCAACCCTCATGGTAGATGAT
Seq A exon
GTAAGTGGTAACCAGAAGCTTGTACTCCTGAATTTTACAGCTCCTGCACCAAGCACTGCACCTTCATTCATTAACTTATCCAGCCAGCACATTTGAGCACCTACTGTGTACCAGGCACTACATAGGATGCTAAAGATTATGAGAATCAGGGAATAGTCATTGTCCTTTAGGAGAACCAATCAAGTGTGAGGGACAGATTGATAATTGTAAAACTAACCATGTGCTAGCTGCCCAGGGGGTCAAGGAGGGCTTCACAGATGAGGGGGCTTTAAAGCTAAGGAGGAGCAGGAGGAAGGTAGACCCAGCACCAGGCTGTGAGGCAAGCATTCCAAACAAAGGAAATGGATCAGGCTCAGAGAAGCTGGATGGAGGTGGTTTGATATAGGCTCAGTGTAAGAGCTTCAAGGGCAGGAGGTAATACTGGAGAGGTGAGCCAGAGACTACACAGAGCCTGTAAGCAGAGCTGAGTCACACTCTGTCCCCAGAGTGATGGGGAGCCTAGAGGACTTTAACTCTTTTTCCGTTTGTGCCAAGAATACTCACTGGCGGTGCTTGCGGCTGCAGGCTTTACCCTGAGATAACTTTTCCCCACGAAATGTCTCACTTTTATTATTATTTTTGCATTGCTCTTATATGTTGACTTTGGAAACAAAAGACATCATTCTACTTAAAGCATTCTGTTTTTAGTTGTGGCATTTCCATTTACAAAATACACTAACTCTCAATCATTGAAAATATCAAATCCTAGAAAACTAGCATTCCTACGAGTGATGCTAACATCATTCTCGAACAGTTTTTGGCCTAAGATTCATTTGATGAATCCAGTGTTTCCAAAATAGATGATTCTGATCATTCCAATGATTCCAATGTTAGTTCTTTTTAGAAATAATTCTAAGAATAATTTTTATATTGCATTTTCACATTGAAAATCAGTCAGATTTGCTTCGGCCTCAAAGAGTGTGTTTATGTAAAATTAAATGAGTGCTGGCAGTGAGCTGCACTTTTTTTTTTTGCCTAAATGGGAAAGGGTTAAATGTGAGCATAGTCCCATCGAATCTGTAAGTCAGAAAGCACACTCTGGAGACAGTGTGAAGAACACGGCCTGAGCCTCCAAGGGCGAAGGGCTGGAAGTAAAAAATGGTTATGAAATATCTGAGCTCCTTGGACTGGGCTCTACAAAGGTTTTCTAATATGTATGATGTGTGGAAAACTGAAAACAGAAAGGTTAAGTAACTTAACCGAAGTCCTACAAGCAAGAATATGGAGACCTGGCCTTCAGATCCAAGAGAGGCTGTCTTCCCCCAGTGCCTGCTGTGTCCCATTGTGCCATATTTTACCAATGTACTATAGTCTCATTCCAAAAACTGAGAGTGAGTTGGCAGTGGGAGATGTGGTTCAAAGGGATTCCTTTAAAAACTAGATGTGATATGCTCCCAGGCATTTCAGAAACAGACCCGATCTTTCTTTTCTCCCTCCTCTCTCCTCGCCAG
Seq C2 exon
CTCTTCAGTGACGTGGCCTACAAAGCCCGCAATCGGGAAGATCTGATCGCAGGAATTGATGAATTTCTGGATGAGGTCATCGTCCTTCCTCCTGGAGAATGGGACCCAAATATCCGGATTGAGCCCCCCAAGAAGGTGCCCTCTGCTGACAAGAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000188687-SLC4A5:NM_021196:9
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=0.173
Domain overlap (PFAM):
C1:
PF075658=Band_3_cyto=FE(10.8=100)
A:
NA
C2:
PF075658=Band_3_cyto=PD(13.4=69.2)
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:
TGTTTATACTACTGGGACCTTCTGG
R:
CTCTTGTCAGCAGAGGGC
Band lengths:
238-1728
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)