HsaINT0147127 @ hg19
Intron Retention
Gene
ENSG00000007908 | SELE
Description
selectin E [Source:HGNC Symbol;Acc:10718]
Coordinates
chr1:169700976-169702139:-
Coord C1 exon
chr1:169701756-169702139
Coord A exon
chr1:169701084-169701755
Coord C2 exon
chr1:169700976-169701083
Length
672 bp
Sequences
Splice sites
5' ss Seq
CAGGTAGGG
5' ss Score
9.46
3' ss Seq
ATGCTTTGTATTTTCCGTAGCTG
3' ss Score
7.65
Exon sequences
Seq C1 exon
TGCTTCTCATTAAAGAGAGTGGAGCCTGGTCTTACAACACCTCCACGGAAGCTATGACTTATGATGAGGCCAGTGCTTATTGTCAGCAAAGGTACACACACCTGGTTGCAATTCAAAACAAAGAAGAGATTGAGTACCTAAACTCCATATTGAGCTATTCACCAAGTTATTACTGGATTGGAATCAGAAAAGTCAACAATGTGTGGGTCTGGGTAGGAACCCAGAAACCTCTGACAGAAGAAGCCAAGAACTGGGCTCCAGGTGAACCCAACAATAGGCAAAAAGATGAGGACTGCGTGGAGATCTACATCAAGAGAGAAAAAGATGTGGGCATGTGGAATGATGAGAGGTGCAGCAAGAAGAAGCTTGCCCTATGCTACACAG
Seq A exon
GTAGGGAGTTTGCGGCAGCAGTGGGAGGTAGTTTCAGTGTGTGGGCATCTTGGCAAATTTACAGCATGCAAAAACTGCTCTCTATTGTGGTCATTTTATGTTCCAAAAGATTCTGTTTAACTGCTAAAGTTTCTCTCTTTTGCTGTTTTGTGTGAATGTGGGCAAGAATATGTGGATATGTATATATATACACACACACACATATATACACACACACATATATGTGTGTGTGTATATATATATAGCCTACAGCATTTATATACATTTTATATATATACATACACACATATACACACATATATGTGTGTATGTATATATATAAAATATATATAAATACTGTAGGCAAATATGTAGTTCTTTACATATAAAAATGCACACACACAATACATATTTTAATTACTTGTTTATTTGTGGTAGGGGAACTGTCTTCAGAGTTTGTGAAGAAGTAAATTTTCTACGGTAGGTGCCAGCCACAGCTATACATTAGCATCAAGGTTTAGGATAGGTGGGCCTGAAACTCAGATTTGGAACTTTGTAAAACACTTCAGTTAAAGTCTATGGCACTCTGTAGGACTGCTGATGTCTCTGTTGCACACTGTTGATTCTAAAATCAAAGGCACTCAGTATAAGCACAGTAATAGTCCTCCTCATCATGCTTTGTATTTTCCGTAG
Seq C2 exon
CTGCCTGTACCAATACATCCTGCAGTGGCCACGGTGAATGTGTAGAGACCATCAATAATTACACTTGCAAGTGTGACCCTGGCTTCAGTGGACTCAAGTGTGAGCAAA
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000007908-SELE:NM_000450:3
Average complexity
IR-C
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.078 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF0005916=Lectin_C=WD(100=86.8)
A:
NA
C2:
PF0000822=EGF=WD(100=83.8),PF0008415=Sushi=PU(4.7=8.1)
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:
AGGCCAGTGCTTATTGTCAGC
R:
GCCACTGCAGGATGTATTGGT
Band lengths:
347-1019
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
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)