HsaINT0153446 @ hg38
Intron Retention
Gene
ENSG00000188687 | SLC4A5
Description
solute carrier family 4 member 5 [Source:HGNC Symbol;Acc:HGNC:18168]
Coordinates
chr2:74247036-74248486:-
Coord C1 exon
chr2:74248353-74248486
Coord A exon
chr2:74247308-74248352
Coord C2 exon
chr2:74247036-74247307
Length
1045 bp
Sequences
Splice sites
5' ss Seq
CAAGTAGGT
5' ss Score
7.33
3' ss Seq
ACCTCCCCTCTGCCTTCCAGAGG
3' ss Score
9.11
Exon sequences
Seq C1 exon
GGAGTGATGGAGAGCTTCCTGGGCACTGCCATGGCTGGCTCCTTGTTCTGCCTCTTCTCGGGACAGCCTCTCATCATTCTCAGCAGCACGGGGCCCATCCTCATCTTTGAGAAGCTCCTCTTCGACTTCAGCAA
Seq A exon
GTAGGTGTCCCTTGGTGGCCCCCAGTGCCTGCTCTCGCATTTGGGGCAGTATGCTGGGGCTAGGGCAGGGGAATAGGTCCCAAGGGTAGGTGGTGGTGCGGTGGTGCCAAAGCCATCTTTAACTATGGGAAGGGCTACCAGGTGGCCCCTCCTGACTCCTGCCAGCTACCTGCCTTTAAGACATCTTAGTGCATATTGGCACAGCCCATAGGGACCAGCCACGACAAGAGGAGAAAATTCACACCACTCAGTTTGTGAGCAATGGTGACTTGATAGGCAGTATAGTGTATGAAGTCTTGGGCTGAAGGTCAGAAGGTTACACCCAGACCCAGGCAGCTCCCATCACTACTCCAGGCTCAGTTGCCTCCTCTACAACATGAGGGTTTGGACCAGACCATTTCCAAGGGCTGCTCCAACCCTGTTCTTCCAAAATTCCCTGTTTTTCACTCACTCTGGTGTCTGTTACCAACTGTGAGCACTGAGATGTCTTGGCACCTTCCTGCCTCCTCCATAAGATCTTTAAAAAAAATTTTTTTTTGGCCGGGCGTGGTGGCTCACACCTGCAATCCCAGCACTTTGGGAGGCTGGGGCGGGCGGATCACCTGAGGTCAGGAATTTGAGACCAGCCTGGCCAACATGGTAAAACCCCGTCTCTACTAAAAATACAAAAATCAGCCAGGCGTGGCGGCGGGTGCCTGTAATCCCAGCTACTTAGGAGGCTGAGGCAGGAGAATCACTTGAACCAGGGAGGCAGAGGTTGCAGTGAGCCAAGATCACGCCATTGCAGTCCAGACTGGGTGACAGAGAGAGACTCTTTCTCAAAAAAAAAAAAAAGTTCTTATAAAGATGAACACTGGACCCCCATGAAATCTCAAAGATCAGACAACTCTGCCCAAGAATTGTCCCTGTCCCCAGTCTTTCACAGTCCCTGGGAGGGCATCAGTGCCACAGGAGGACAGATAAGCCACTTAAGGATGAGTCTGAGGAGTCAAGCACAGCCAGGAGCCCTGGGCTGGAGGCCCCTCACCTCCCCTCTGCCTTCCAG
Seq C2 exon
AGGCAATGGCCTGGACTACATGGAGTTCCGCCTCTGGATTGGCCTACACTCAGCTGTCCAGTGCCTTATCCTAGTGGCCACAGATGCCAGCTTTATCATCAAATATATCACCCGCTTCACCGAGGAGGGCTTCTCCACCCTTATCAGCTTCATCTTCATCTACGATGCCATCAAGAAGATGATCGGTGCCTTCAAGTACTACCCTATCAATATGGACTTCAAGCCAAACTTCATCACTACCTACAAGTGCGAGTGTGTCGCCCCTGACACAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000188687:ENST00000377634:18
Average complexity
IR
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(15.2=100)
A:
NA
C2:
PF0095516=HCO3_cotransp=FE(16.9=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:
GGCTCCTTGTTCTGCCTCTTC
R:
CGACACACTCGCACTTGTAGG
Band lengths:
358-1403
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- Autistic and control brains