HsaINT0147122 @ hg38
Intron Retention
Gene
ENSG00000007908 | SELE
Description
selectin E [Source:HGNC Symbol;Acc:HGNC:10718]
Coordinates
chr1:169726699-169727525:-
Coord C1 exon
chr1:169727349-169727525
Coord A exon
chr1:169726807-169727348
Coord C2 exon
chr1:169726699-169726806
Length
542 bp
Sequences
Splice sites
5' ss Seq
AAGGTGATG
5' ss Score
5.22
3' ss Seq
TTCGTCTCTTACTTCCTTAGCTC
3' ss Score
7.94
Exon sequences
Seq C1 exon
TGGTAAAATGTTCAAGCCTGGCAGTTCCGGGAAAGATCAACATGAGCTGCAGTGGGGAGCCCGTGTTTGGCACTGTGTGCAAGTTCGCCTGTCCTGAAGGATGGACGCTCAATGGCTCTGCAGCTCGGACATGTGGAGCCACAGGACACTGGTCTGGCCTGCTACCTACCTGTGAAG
Seq A exon
GTGATGCATTGATTGATGGTGGTTGTCTGGTGATTAAAAAGAAAAAGGGGGAGCTATCTTGTTACAGTAATCAACTATTCATTATATCCAAACCAGAAAGTTCGCCCAGGTTGACAAGTTGTGAATATTAAGTTGTATGGGGATAGAGAAAAAACAGAAGTTGCATGTTGATGGAAAGGGTAGAATTCTGACAACTGGAAAAAGGAGACAGAGAGAGGAGAGGAGAAAGGGGAAATGGAAAACAAGAGGGAGTGAGAGCAAGAGAGCAAGCAAGTGCAGTGTTTATTAACCAAGGTGTGGTGTGGTATTGTGAACGAGCTTGGCAAGTTAGAGTTCTGCCTGCCAATGGTGGAAATAGCTTCAAAGGTGGCTTGGAGCAGATCTCAAAGGCCTGTAATGCCACATCTCTGCTTCTTGTATTAAACTAGATAGCTCTTCTGCTCCTAGTAATGAATGTACAGAAAAAAGGCCAAAGGGACAGGACGGAGAGACTTTAACATCAATTCTTCCTCATGACCTTTCTTCGTCTCTTACTTCCTTAG
Seq C2 exon
CTCCCACTGAGTCCAACATTCCCTTGGTAGCTGGACTTTCTGCTGCTGGACTCTCCCTCCTGACATTAGCACCATTTCTCCTCTGGCTTCGGAAATGCTTACGGAAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000007908:ENST00000333360:10
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:
PF0008415=Sushi=WD(100=91.7)
A:
NA
C2:
NO
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Other assemblies
Conservation
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
AAAATGTTCAAGCCTGGCAGT
R:
TCCGTAAGCATTTCCGAAGCC
Band lengths:
278-820
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- Autistic and control brains
- Pre-implantation embryo development