HsaINT0153445 @ hg19
Intron Retention
Gene
ENSG00000188687 | SLC4A5
Description
solute carrier family 4, sodium bicarbonate cotransporter, member 5 [Source:HGNC Symbol;Acc:18168]
Coordinates
chr2:74475480-74477644:-
Coord C1 exon
chr2:74477470-74477644
Coord A exon
chr2:74475614-74477469
Coord C2 exon
chr2:74475480-74475613
Length
1856 bp
Sequences
Splice sites
5' ss Seq
CAGGTGTGT
5' ss Score
6.99
3' ss Seq
CACATTCCTTGTGCCCCCAGGGA
3' ss Score
10.37
Exon sequences
Seq C1 exon
GTTCTTCGGTGGCCTGTGTCTGGATATCAAGAGGAAGTTGCCCTGGTTCCCAAGTGACTTCTATGATGGCTTCCACATTCAGTCCATCTCTGCCATCCTATTCATCTACCTCGGCTGTATCACCAACGCGATCACCTTTGGTGGGCTTCTGGGGGATGCCACCGACAATTATCAG
Seq A exon
GTGTGTGCGAGCCGGTGCCCTGAGTGTAAAAGTAAGATCTGCCGCCACCTGGTGGCAGCAGGAAGCTTCATCCTGTAATCCCAAAACCAAGGTTTCATCTACCATCCAGGTTGAGGCCATCACTATTTGTAATCCTTTACGCTTCAAGTAATAATAATATAATAAGACAATATTAAAAGATCTGAAGCTAAATCTCATTACTAAAGACCAAACTTAATGATTATTTAAATAGGTCAAACCGTTAAGGGGAATCATCTGCTGTGTTATTTGGTACTTTTCCCACTGATGCTGGAGTGAATTTAATCAGCACAATTAATGGAGTGCTAATTGTGGCCTTCTCCCCACACTTTTTAAAAACTAACCTTGAATTCTTAGTTTGGAGTTAAGACATTTTTAGAAGGATGGTAAGCTGTTGCCATGACAACAACTCAGGCCTCCCTGGGGAAAACAGCTCAGCAGACACCTGCCAATCTCCTAGGCAAGGGTCTTCTCCAATGGAGGCCTTCAAAGTAGAGCCATTGGAAAGCTCAGTACCCCAAGGAGAAGACCCATTTGTCAAGCTGCCTTTTGGGCATGTCCACATGGCTGCCCCTCAGGATTCCCCATGGCTGCCCCTCAGGATCCCCCAGTTCACACAGCTGACATTGCGTCCCTTATCTTCCCTCCTGACGTGCTGCTCCCTGCCCTTCCCCAGCACAGCAGGTGATACCGTGGTTCACCCAGCTGTCTACACCGGAAACTAAGCATTATCCTTGACTCATAAGTCCCAGCTGCCCCATGTGGCCCTCACCACATGGCCCTACCTGGCTCTCACGCCTCATCTCCCAGCATTCTCTTTCTCAGCATTCCTACCCTCCCCAACCATTCTACATTCTGTTTTCCATCAATCCTGATCATCTTTTGGTTCTTCAAGTACATGCTGTTTTTCAGCTCCAGACCTTTTAGACACTATTCCCTCTTCCTGGGACACTGTTTCTTATCACTCCACTTAACCCTATTCCCCTGGCCAATTCTCTGCTCATTTTTTGGATCTCAGCTTCCACTTATCTACTTCTAGGGAGGCCTTCCTGACTACATCTTTACCTCTACTGCGTGCTCCTGTGGCACCCTAAACCTATCCCAGCACACCTCTTGGCAGTGGCTCTCAACCAGGGACAATTTTCACCCCAGGAGACATTTAACAATATCTAGAGACAGTTTTCATTGTTATAACTGGGAGGAGGGTTCCTACTGGTATCTAATGTGTAGAGGCTGTGGATGCTACTAAACACACTACAATACACAGGACAGACCCTCCACAGCAAAGAATCATCTAGCCCAAAATGTCCATTGTGCCGAGGTTGAGAAACCCTGCTATATGGGAATTGCCTGGTTACTTACCTGTGTCTCCCACTGGAATGAAGATATGTTATCTTGTTCAGTGATGGGTTCTCAATACCTTTCACAATGCCTGGTACACAGCAGACACTCAGCGGACTTTGAATAAATGAATGATCTGACCTCTAAAAGCACCAAACAGATGTTTAGATGAATGAATAATCAGATGGATAAATGGGCTGTCCTCTGGGAGTAGAATGGACACAGAGAAAAGCACATCCACTGTTTTCTAGGCCCTGGGTGCCAGAAGGAAGTCACATGGTACCTTTATCTAGATGGAATTAAACAGAGTGACAATGGCCATGGTGGCAAGTTGTGGAGGGTGTAGGAGATGGAGAACAGGATTTAGGGAGGAAAGGGCCCAGAACGAAGGATAAACACTGTGGCCTGGGCCCGTGGAGAGATCGCTGGGGCTGCAGCCTGTGTGGAGAGACCGCTTCTCCTTCCTATGCTGAACCACACATTCCTTGTGCCCCCAG
Seq C2 exon
GGAGTGATGGAGAGCTTCCTGGGCACTGCCATGGCTGGCTCCTTGTTCTGCCTCTTCTCGGGACAGCCTCTCATCATTCTCAGCAGCACGGGGCCCATCCTCATCTTTGAGAAGCTCCTCTTCGACTTCAGCAA
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000188687-SLC4A5:NM_021196:12
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(12.3=100)
A:
NA
C2:
PF0095516=HCO3_cotransp=FE(15.2=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:
CGGTGGCCTGTGTCTGGATAT
R:
TGCTGAAGTCGAAGAGGAGCT
Band lengths:
302-2158
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)