HsaINT0153497 @ hg19
Intron Retention
Gene
ENSG00000033867 | SLC4A7
Description
solute carrier family 4, sodium bicarbonate cotransporter, member 7 [Source:HGNC Symbol;Acc:11033]
Coordinates
chr3:27462191-27463270:-
Coord C1 exon
chr3:27463113-27463270
Coord A exon
chr3:27462279-27463112
Coord C2 exon
chr3:27462191-27462278
Length
834 bp
Sequences
Splice sites
5' ss Seq
CAGGTAAAG
5' ss Score
9.65
3' ss Seq
GTATTTTCATATTTCCTTAGGTT
3' ss Score
9.97
Exon sequences
Seq C1 exon
GTTGATATGAATTTCATGAGAAAAATTCCTACGGGTGCTGAGGCATCCAACGTCCTGGTGGGCGAAGTAGACTTTTTGGAAAGGCCAATAATTGCATTTGTGAGACTGGCTCCTGCTGTCCTCCTTACAGGGTTGACTGAGGTCCCTGTTCCAACCAG
Seq A exon
GTAAAGAGTTAGTTCCAAGTAACATTCTCTAAGCATTTTCAAAATCTACAAGTTTTTAATCCAGCGAATGAACAAGCATGTTGATTTATGTAATAAAAGCTTATTTTATTTAATTTTATCTTATTTTTGAGACAATCTCACTTTGTCATCCAGGCTGGAGTGCAGTGGCACAATTTCAGCTCACTGCAACCTCCACCTCCCAGGTTCATGCGATTTTCCTGCCTTAGCCTCCCTAGTAGTCTGGATCACAGGTGTGCAGCACCATGCCTAGCTAAGTTTTATATTTGTAGTAGATATGGTGTTTTGCCATTGTCCCATCTGGTCTCGAACTCCTACTTAAGTGATCTGCCTGTCTTGGCCTCCCAAAGTATTGGGATTACAGACGTGAGCCACTGTGCCCAGCCAAAATCTCATTTTAATAGTTAATATTCAGCCACTGTACCAAATACTTTGAATATAAGACTCCTGTGAATAGGGCATAAAATCATTTTCTTCCTGGAACTAAAAAGTACAATAAAATAAATATCGGCTGGGCACAGTGGCTCACTGCTGTAATTCCAGCACTTTGGGAGGCCAAGGTGGGTGGATCACCTGAGGTCAGGAGTTTGGTAGAAGGTTGATTTGGTAGTTAATTATGGTTGCTTTTCCTAGTTTTCTGATTTCCTTTAGTCCGGGTGGAGTTGCCATCTTTTTTCAGTGATTGGTGTGGGGGAGTAGAAAAGATGTCTGAGTGTTGTTTCTTTGTTTATATTTGAATGGTTTCTTTTTTATGATTGCCTAGCTTTGTGGGTGTATGATGTTTATTTTAAAATCTGTATTTTCATATTTCCTTAG
Seq C2 exon
GTTTTTGTTTTTGTTATTGGGTCCAGCGGGCAAGGCACCACAGTACCATGAAATTGGACGATCAATAGCCACTCTCATGACAGATGAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000033867-SLC4A7:NM_003615:9
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=0.004
Domain overlap (PFAM):
C1:
PF075658=Band_3_cyto=FE(13.3=100)
A:
NA
C2:
PF075658=Band_3_cyto=FE(36.7=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:
ATGAGAAAAATTCCTACGGGTGCT
R:
TCATCTGTCATGAGAGTGGCT
Band lengths:
230-1064
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)