HsaINT0153433 @ hg19
Intron Retention
Gene
ENSG00000080493 | SLC4A4
Description
solute carrier family 4, sodium bicarbonate cotransporter, member 4 [Source:HGNC Symbol;Acc:11030]
Coordinates
chr4:72429510-72432800:+
Coord C1 exon
chr4:72429510-72429606
Coord A exon
chr4:72429607-72432720
Coord C2 exon
chr4:72432721-72432800
Length
3114 bp
Sequences
Splice sites
5' ss Seq
ACAGTGAGT
5' ss Score
8.34
3' ss Seq
TAAAAAATTTTATTTTCCAGGAG
3' ss Score
9.22
Exon sequences
Seq C1 exon
TCTGACTGCCCATACTCAGAAAAAGTTCCAAGTATTAAAATTCCAATGGACATCATGGAACAGCAACCTTTCCTAAGCGATAGCAAACCTTCTGACA
Seq A exon
GTGAGTAGAACTAACCTCTTGCATGCTTGCTTGAATATGATTTGCACTTACAGAGAAAACACTTTAGAATGGCCATCTGCATTAACTTTCCCTCAATTTTGTTTTTCCTTTTTCTATGAGAAGATTTACACTTAATTATAATAAAACTTTGTTTTTACATACCCTAAGCTTCATTCTTCCTTTTATCCATAAACTTTTAAATTTTTATTTGGTAGTCTTTTCTCTTACCCAAATCATCCCCAGTTTTTCCAATGGCTAAATTAATAACCATGTTTTTAATTGATTTTTCTTTTTTTTTCTGTTGGTATTGAGAATTGCAGCTTATAATACTACATCACTGTCACTGTTTGTCTTCCTTAGGTTTTAACTAGTGATCAAATCAGCTCAAAAGAGAAATTGCATCATTGGTCTCTCAGTGATCAATAAATCAATTGTTAATATTGAGAATTTGGAAAAATTTAATTTTGATTAAATTAGCAATCATGAAGTATTAGTACAACTTTCTAGATATAACTTATATGCATTTGCTTTCTAATCTCTTCATTCTCCCTTTTGCTATTTCAAAATTATTATTATAACTGCACTGATCTTTCTAGGGTGATAGCCTGGTGACTACGGTGCAATGGTTTGTGACATTTTTCTCTTCTGTAATTGAATTAACAGGCCACTTAGTAATATTAGTGACCATTTCAGACTTTCCCAATAGCAGGTAGCAATTGCCATCAAGCTACTTTCTACTTTGCGTTCTCATTGAAGAAAATGCATCCTTTTAGATTCAGATGCACTTCAGAGTACACTGATCTGTTACAGAAAAAGACAGTTAAGACACTTTTATTTCTATTTTACCATGCCACCTCAACTACAATAAGAGGTTACTGCTATCAAGAAAAGTTTGGAATGAATATCTATTGATAAAAAATAATGGGTATATTAGTTATCAATCATTGAGTAACAAATTACAATAAAACTCAGCAGCTTAAAAGAACAAACATGTTTTCTTACACAATTCCTCACATTCAGGAATGCAGGGGCAGCTGATTTTGGTTCTGGCTCAGAGTCTCTCATGAGATTGCCGTCAGAGCTGTCAAGCTGTCAGCTGGGGCTGAGTCTCTGAAGACTATTTTTTTTTTTTCCAGGAAGAAATGAAAGGATGATTTGAAAATTATAGTATACTCCACAGTGTGGGAGTGGGCCCAAGAATAGGGACTCAAGGGCCCCATTACAAAATTTTTGGGAGTTTAAATACCCTCTACTTGGGGTACGCCCTATGTAAATGGAGAGGATGAAGTAAAGTTACAAACTCATTTATTTGGCCCACGCCCCATGGAGAGGATATTTCCTGTCATAGCCGAAGTGTGAATTGGCCTTATGTTCCCTGCCTCCAGACACTGTTTTCCTGCCACATCTCCTCACTGAGAGATGTGATCTCCATACATCTTCATGGGAGGCAGAGGGACCGATGGTCTTTTTTCTGTAACTGCTTCATGCTGGCTTGGGGCATACTCCTACCTATTGGGGATCCCTGAACTCTCACCCTGCTCTGTCTAGTGGAGGCAGGGTAGCTTCTTGATGGCCAGGGTGTTGTCTTCACCTGGAACTGGCTGGAACCTTTGTTGTGTGATCATCTGAAGCTGATGGTCTCTAGGCAAGAGGAAATGAATTTGGTTAAAAAGGGGAAATTTTTTTAAACAAAAGTCTGGGAAGCCATTGTTTTGAACTAAGCTCATGCACTGGGCCCCAACAGACCAAACCAAAGCAAAATGAAGTCATTTGTGCTAAGACTGTAAGGAAACACGTGAATTCTAGAACAGAGCAGGTTTTGTTTCTTCTTCTGCAAATCTCTGTAACAAACATTCTTGACAGCATAGGTATCCACCCCCTGAGGTTCCCATTAAATATTTTAGTGTCTGAAGCTGGGTGTCTGCTTCCAAAAGCATACTCATGGGGCCCTTGGGATGACCTTTGTTTTTTACCTGTGGGTATCTCCGTAGGGCTCCCCATGATATGGCCTCCCTCAGAGCCAGTGATAAAAGAGAAAGAAACCAAGACAGAAGCTGCAGTCTTTTATAACTAAATCTCAGAAGTAACGGACCATTACTTCTGTCATATTCTGGTGGTTATGCAGCCCCACACTGTTAACACTGGGAAGGAATTACACAAAGTCATAAATACCAGGAGACAGGATCACTGAGAGCCATCTTGGAGGCTGGCTACCAGCCTGGATTTGAAGAACAAAGAACTAAAGCAGTCTTACCTTTGGTGTCCAGTTTGTAACCTATAACTTGTAACCGAGGCTAATTTCTGCTAACCCCTATTAATGGGGTTTGGTTATGAATTTCTTTTTGAGTTTAAACTCCTCAAACCATGTTCTGACTTCATTTTTCTCCATGGAGCATTAATAGCAAAAGCACAGTCTAACAGACATGTGCCTAGCATGTATGTCTTCTGTTGGCATCATAACCTGGTATAGCCCCTTATAAAGAAATGTAAAAGCTATTTTTTAAAAAAATTACTAGCCAGAATTTGAGGCTCATGGAAAAAGTTTATGTGCCATTTGCCCTTCATCCTCTCAAAACCCCTTTTAAAGGATAAATTGCAAGTTGATATGATATTAGAAGTTTACTTAAACAAAATACACTTGAGCATTTTGCCTGAAATGTTTCCTAATGTCATGTTTATCTTTATAATCCATGATGAAAGAACAAAACTGATAGAAGTAGTGTTGCAGTATGAGTAAGTGCCTCAAAAAAAAAAATCTTTTTTTCCTTATGAACAACAGCAGGCAAACCTAGGAATACTGAAGATGGAAGGAAATCCAAAAGCAAGCCTTAGGCATTAAGAGAATGCTATCACCCTCTAAAAATGATTTGCTTCTTATCCTTCTCACTGACAAGACAACAGTGATCCATCCCAGAAAACCTAAAGTAAAAGAGATGAAGTGATTTTGTCTTCATCACACTAGAGTCTTAGCTTAATACCTTGTTTATTGAAATGCCTAAACTTGTCTTTTTTACTCTTACCAGTTATGGAAGATGCATCAATTTTGTGAAGATTTTTGTTTTATACTTCACCAAAGATCTACCATTTATGTTTTTAAAAAATTTTATTTTCCAG
Seq C2 exon
GAGAAAGATCACCAACATTCCTTGAACGCCACACATCATGCTGATAAAATTCCTTTCCTTCAGTCACTCGGTATGCCAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000080493-SLC4A4:NM_001098484:24
Average complexity
IR-C
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.333 A=NA C2=0.663
Domain overlap (PFAM):
C1:
PF103594=Fmp27_WPPW=PD(33.3=84.8)
A:
NA
C2:
PF103594=Fmp27_WPPW=PD(25.3=70.4)
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:
No suggested primer sequences
R:
No suggested primer sequences
Band lengths:
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)