HsaINT0153506 @ hg19
Intron Retention
Gene
ENSG00000050438 | SLC4A8
Description
solute carrier family 4, sodium bicarbonate cotransporter, member 8 [Source:HGNC Symbol;Acc:11034]
Coordinates
chr12:51868126-51868990:+
Coord C1 exon
chr12:51868126-51868231
Coord A exon
chr12:51868232-51868828
Coord C2 exon
chr12:51868829-51868990
Length
597 bp
Sequences
Splice sites
5' ss Seq
AGTGTAAGT
5' ss Score
8.46
3' ss Seq
CAGAATGCTTATTCCTCCAGGAA
3' ss Score
6.63
Exon sequences
Seq C1 exon
CTGCAGGTGTACTCTGCCAGAGAATCCAAACAATCACACCCTCCAGTACTGGAAGGACCACAACATCGTGACAGCAGAAGTCCACTGGGCTAACCTGACTGTCAGT
Seq A exon
GTAAGTCTGGGAGCTGCCAGATGTCCTAGCATTGTGACCACAGGTTTAGGAGGGACTTCTAAGTGAAGGGGAGGAGTAGCCCTTTGGCCAAACTCTGGCATTTACCGAAATAAAGCTTTTTAAAAAACAATTCTTACTCACTTTCTTTTATCCTTTCAGAATTTTTCTTGTATGTTAAGGGAGAAGATTACCCTTCTCTTTTCTCCCCCCTACATCCTACCCAGTGACCCTGCACTAAGGATAGGTGGGGATGAAACCATGCAGGACAGGGGGCAGATCCAGACATGTAGGGTTGAAGAATGTTCAAGTTTGGAGGTCCTCTGTGATAAGAAAAATATAAGTTGCCAGGGTCCTTCCAGAGCCTTGGAAGTAGTATTGTTCAGAACAGTTCTATGTCTTAGGACCATAAGTAACCACCCTACTTGAAAGTGGCCTGTGCAAGACAGCACCCCGCAACTGCATAAAGGTCAAGGGGATGCTGCTTGCAGCCTCTGCTCCCAACAACCATGGGATGACAATGAGTGGTGGACTCAGTAGGAAACAGCTATTTATTTGGTTGTGTCTGCCTTTCATCACCCAGAATGCTTATTCCTCCAG
Seq C2 exon
GAATGCCAGGAGATGCATGGAGAGTTCATGGGATCTGCGTGCGGCCATCATGGACCCTACACTCCTGATGTCCTCTTTTGGTCCTGTATTCTCTTTTTCACCACCTTCATCCTCTCAAGCACCTTAAAGACGTTTAAGACGAGCCGTTATTTCCCAACCAGA
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000050438-SLC4A8:NM_004858:15
Average complexity
IR-C
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=PD(19.3=79.3)
A:
NA
C2:
PF0095516=HCO3_cotransp=FE(10.3=100)
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:
CTGCAGGTGTACTCTGCCAGA
R:
GGTTGGGAAATAACGGCTCGT
Band lengths:
265-862
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)