HsaINT0153466 @ hg38
Intron Retention
Gene
ENSG00000188687 | SLC4A5
Description
solute carrier family 4 member 5 [Source:HGNC Symbol;Acc:HGNC:18168]
Coordinates
chr2:74252974-74254706:-
Coord C1 exon
chr2:74254619-74254706
Coord A exon
chr2:74253129-74254618
Coord C2 exon
chr2:74252974-74253128
Length
1490 bp
Sequences
Splice sites
5' ss Seq
GATGTAAGT
5' ss Score
9.11
3' ss Seq
CCCTCCTCTCTCCTCGCCAGCTC
3' ss Score
9.1
Exon sequences
Seq C1 exon
ATTTCTGTTTATACTACTGGGACCTTCTGGGAGAGCAAAATCCTACAATGAAATTGGCCGTGCCATTGCAACCCTCATGGTAGATGAT
Seq A exon
GTAAGTGGTAACCAGAAGCTTGTACTCCTGAATTTTACAGCTCCTGCACCAAGCACTGCACCTTCATTCATTAACTTATCCAGCCAGCACATTTGAGCACCTACTGTGTACCAGGCACTACATAGGATGCTAAAGATTATGAGAATCAGGGAATAGTCATTGTCCTTTAGGAGAACCAATCAAGTGTGAGGGACAGATTGATAATTGTAAAACTAACCATGTGCTAGCTGCCCAGGGGGTCAAGGAGGGCTTCACAGATGAGGGGGCTTTAAAGCTAAGGAGGAGCAGGAGGAAGGTAGACCCAGCACCAGGCTGTGAGGCAAGCATTCCAAACAAAGGAAATGGATCAGGCTCAGAGAAGCTGGATGGAGGTGGTTTGATATAGGCTCAGTGTAAGAGCTTCAAGGGCAGGAGGTAATACTGGAGAGGTGAGCCAGAGACTACACAGAGCCTGTAAGCAGAGCTGAGTCACACTCTGTCCCCAGAGTGATGGGGAGCCTAGAGGACTTTAACTCTTTTTCCGTTTGTGCCAAGAATACTCACTGGCGGTGCTTGCGGCTGCAGGCTTTACCCTGAGATAACTTTTCCCCACGAAATGTCTCACTTTTATTATTATTTTTGCATTGCTCTTATATGTTGACTTTGGAAACAAAAGACATCATTCTACTTAAAGCATTCTGTTTTTAGTTGTGGCATTTCCATTTACAAAATACACTAACTCTCAATCATTGAAAATATCAAATCCTAGAAAACTAGCATTCCTACGAGTGATGCTAACATCATTCTCGAACAGTTTTTGGCCTAAGATTCATTTGATGAATCCAGTGTTTCCAAAATAGATGATTCTGATCATTCCAATGATTCCAATGTTAGTTCTTTTTAGAAATAATTCTAAGAATAATTTTTATATTGCATTTTCACATTGAAAATCAGTCAGATTTGCTTCGGCCTCAAAGAGTGTGTTTATGTAAAATTAAATGAGTGCTGGCAGTGAGCTGCACTTTTTTTTTTTGCCTAAATGGGAAAGGGTTAAATGTGAGCATAGTCCCATCGAATCTGTAAGTCAGAAAGCACACTCTGGAGACAGTGTGAAGAACACGGCCTGAGCCTCCAAGGGCGAAGGGCTGGAAGTAAAAAATGGTTATGAAATATCTGAGCTCCTTGGACTGGGCTCTACAAAGGTTTTCTAATATGTATGATGTGTGGAAAACTGAAAACAGAAAGGTTAAGTAACTTAACCGAAGTCCTACAAGCAAGAATATGGAGACCTGGCCTTCAGATCCAAGAGAGGCTGTCTTCCCCCAGTGCCTGCTGTGTCCCATTGTGCCATATTTTACCAATGTACTATAGTCTCATTCCAAAAACTGAGAGTGAGTTGGCAGTGGGAGATGTGGTTCAAAGGGATTCCTTTAAAAACTAGATGTGATATGCTCCCAGGCATTTCAGAAACAGACCCGATCTTTCTTTTCTCCCTCCTCTCTCCTCGCCAG
Seq C2 exon
CTCTTCAGTGACGTGGCCTACAAAGCCCGCAATCGGGAAGATCTGATCGCAGGAATTGATGAATTTCTGGATGAGGTCATCGTCCTTCCTCCTGGAGAATGGGACCCAAATATCCGGATTGAGCCCCCCAAGAAGGTGCCCTCTGCTGACAAGAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000188687:ENST00000377634:14
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=0.173
Domain overlap (PFAM):
C1:
PF075658=Band_3_cyto=FE(10.8=100)
A:
NA
C2:
PF075658=Band_3_cyto=PD(13.4=69.2)
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:
TGTTTATACTACTGGGACCTTCTGG
R:
CTCTTGTCAGCAGAGGGC
Band lengths:
238-1728
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- Autistic and control brains