HsaINT0065296 @ hg19
Intron Retention
Gene
ENSG00000115414 | FN1
Description
fibronectin 1 [Source:HGNC Symbol;Acc:3778]
Coordinates
chr2:216288073-216289048:-
Coord C1 exon
chr2:216288869-216289048
Coord A exon
chr2:216288250-216288868
Coord C2 exon
chr2:216288073-216288249
Length
619 bp
Sequences
Splice sites
5' ss Seq
CTGGTGAGT
5' ss Score
10.1
3' ss Seq
TTGTGTATTGTTCCTGGCAGTTT
3' ss Score
8.08
Exon sequences
Seq C1 exon
CTGTAACCCAGACTTACGGTGGCAACTCAAATGGAGAGCCATGTGTCTTACCATTCACCTACAATGGCAGGACGTTCTACTCCTGCACCACAGAAGGGCGACAGGACGGACATCTTTGGTGCAGCACAACTTCGAATTATGAGCAGGACCAGAAATACTCTTTCTGCACAGACCACACTG
Seq A exon
GTGAGTGTCCCAAGGGGGAGCCACAGAAGTGAGAAAAACTCACTTTCATGCCCTAGTTTTATTTGCCAGCATTCTAGCCATTTATTTTGAACCCGCCCAAGAAGCATCGCTTTTGTTCAGTTTGGACTCAAGAGATCGCAGCGCTCACGTAACAGCTGAGGATTCTTCCATCTTCCCCAGTACTGTTGGGAAATGACACCAAGGGAGTAGCCTTCCAGTTCATTTGATTTAACACATTGGGATTATGATGTGATTAAAGATACTTGTATTTTGGAATCAGTAGATGATCCCACAGGGCTGAGGAATACAAAGGATGAATGTTTTAGTGCCTTAGCTTATTTTCCAGTTAAAACAATGTTTTATTCAAAGCTATCATTTAATCTTTTGTGGGGGGGGTGCTGGGGAAATGACAGTGAAAGTGGGATTTAAACCTGTTTTGAAGGTGTGAAGGTAAATATGCTAAGAAGCTTAGAACTATATTATCAGACATTTTTTATTCTGAGATAGACTGTCTGTGAATGAGCTGCAGAAACCTGGCTCTCTCAGACCAGTAATTCTGTGTACATTGGAAAGCTCAGCGGTAATCTTTTCCTTCTTTGTTGTGTATTGTTCCTGGCAG
Seq C2 exon
TTTTGGTTCAGACTCGAGGAGGAAATTCCAATGGTGCCTTGTGCCACTTCCCCTTCCTATACAACAACCACAATTACACTGATTGCACTTCTGAGGGCAGAAGAGACAACATGAAGTGGTGTGGGACCACACAGAACTATGATGCCGACCAGAAGTTTGGGTTCTGCCCCATGGCTG
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000115414-FN1:NM_212482:8
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=0.000
Domain overlap (PFAM):
C1:
PF0004014=fn2=WD(100=68.9)
A:
NA
C2:
PF0004014=fn2=WD(100=70.0)
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:
TAACCCAGACTTACGGTGGCA
R:
GGCAGAACCCAAACTTCTGGT
Band lengths:
345-964
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)