HsaINT0065288 @ hg19
Intron Retention
Gene
ENSG00000115414 | FN1
Description
fibronectin 1 [Source:HGNC Symbol;Acc:3778]
Coordinates
chr2:216232586-216235155:-
Coord C1 exon
chr2:216235017-216235155
Coord A exon
chr2:216232751-216235016
Coord C2 exon
chr2:216232586-216232750
Length
2266 bp
Sequences
Splice sites
5' ss Seq
CTGGTATGT
5' ss Score
8.14
3' ss Seq
TTTCTTCCTTTTCTTCATAGTCA
3' ss Score
9.31
Exon sequences
Seq C1 exon
TTCAGGGTTCCTGGAACTTCTACCAGTGCCACTCTGACAGGCCTCACCAGAGGTGCCACCTACAACGTCATAGTGGAGGCACTGAAAGACCAGCAGAGGCATAAGGTTCGGGAAGAGGTTGTTACCGTGGGCAACTCTG
Seq A exon
GTATGTAAACACGTACTATTTAGACACAGGCTCCCCTCTGCTGTACACCAGAGATGGGCTTTTCTGTTGACTGTACCTTTGTTGCCATTGTCTTTTTATCTTTGGGATTTAATGCAACACATCAACATGAAATAAATGAGCAACTTTATATTAAATTAATCTCTCCCCCACCTCCTGCCATATCCTGTTGTCTTCACAAAATGCATACGTAATTGACAGACTCTCAAATGGTGATATGATTATAGATCTGGAAGGGATTTCAAATATTATTTAGTACAACACTCTGAGTCCTTACTTCTGAGTATCTGAGTTGATATAGGGCACAGGTTTCCTGATGTCTTTTCCCAGACCCTCTCCATCTCACCATGCTGCTGTCCTCTTGAGTGATTAAATACTGAAACGATTACCTATAAAGAAAATACCCCTTCTGCAGACATGGGGACAGTTGGCTTTTGCTCCTGATATAAAATGCTACCAACATTGTGCATTTCTGTCTGCAGAGAATGTTATTCCAATGTTATTTCCATTTTTTTCCAATGTTATTTCCATTTTTTTTTCTGACTATACAGGTTAAAAGCTTCTATAGAGGTTAAAAGATCATTAACTCTTCTTTGTAGCACCTGGGAAATCCTTTTAAATCAATAGCGTGCCACCTGGCTGCTCAATTTGCAGCAGCTGAAAATTCACCAAGGCACATGAGATAGGGGATAATCAAAACCGTGAATCCCCAATCTTCCAACAGGAGAGTTCTCTACTCCACACCAACAGAGAGTGCTAAGTCCTGTCTATGCCAAGTGACAGATTTTATTCCTAAGGCCAGTTGTTTAATTTTAGCCCCTTCCCTCATCTGATAGAAGACTGTGCTACTTTACATGTATAAATTCCTGTGAATTAAGCAGTTGAGCATTTGGCTGGAGAGAGGTTGGGAGGAGATTATTTTGTGTTTGTTGTATTACATATCCACAGTAATGCTTATCTTTGCCTTTTGTGGTTTTACTAGTAGAATGCCACGTGAACAGAATTTTCAAGAGCAAAAAGGTCTTTGTGCTTTTCTAAGTCATTTTTTTTTTTTTTTTTTAAAGATTCCATCTCTTTAACTTTAGTTAGGATGGAATTTGAACTCCTGGCTCTTTTGAGTATAGAAACCCCTAGTAACAATTTAAGTTCCTTCCATTTTTCTTTTAAACTCCTTATTCCCAGCAGCAGTATTCTACATTCTAACCAGGTTCTCCCAGCTTTGAGACGTCTCAGACTTACCAGTTCTCCAAAACGCTATTTTCTTTAAGGGTGACACCTTTTAAAAATTAGGCACCTCAAATATCTACTGCTTTTGAGCTTTTGAGTTTTGCACTGTAAAAAGAAAAATACACAGTGGGATTTTAAGTCAAATTAGTTTATCTAATTTTTAGGGAATAATTTGAAGCATGCTTTGTTTGCATAGATTTTTTTAAAATAAGCTTTTCCAAATCATAAAGAGATAAGATCTTAGGTAACATGAAGAGACTCCCTTACTTATTCCTAAATCATCTATATTCCAAGGGCATTTTCTTATTTGGAACAGTTGACCTCACTGATAAAGCTGTCTCACCACTATAATAACAATGTCCAAAATCTAGGCTTTCTGCACTATTATGCAAAAATTACAATAATAAAAGTGAAAATTACATTATAATGGTATATTAAAATGCTAAGACTTTTGCATTATAAGCAAAAGACAGCCTTTAATAATTATTCTTTATTTAGTGAACATTTTCTAAGTCTTGGAAAAGGGTCAATGTTTTGAATTCATGGCCTTATATAATCTTCACAAGATTCCCCAGGAGGTATAGATATTTTTATTATTACGCTAGTATTGCAGATGAGGGAAGCAAGGCAGAGTGGTATTAAATAGCTGGCCCAAGGTCACTCAGGTACCAATGGAGAGGCATCATTAGTCTTTGCATCCCACTAAAGTTCTCCACTAGCTTCAATTGCCTCAAGATCTGTTCCATGTTCTATGAAGTAGTTTCAACAGAAATGGCAATTATCTTAGAAGCAAGGGAAAAATAAAAGATGGGCTTCCTGTCGGGTGCCTGTGACAGGTGTCACATCTAACCATGGTTTTTTAGAGCAGTTAATGCCTTGATAGAACAGATGAATGCCTCTTAATCCTCCTGGAATTCTTGTTTTAGATTAAGTCATTGTATACAGTCATTCGATTTTCTTCTTATGGTCCAAATCGATTAATAAGATGTCTCTTTTTGCTTTTTCTTCCTTTTCTTCATAG
Seq C2 exon
TCAACGAAGGCTTGAACCAACCTACGGATGACTCGTGCTTTGACCCCTACACAGTTTCCCATTATGCCGTTGGAGATGAGTGGGAACGAATGTCTGAATCAGGCTTTAAACTGTTGTGCCAGTGCTTAGGCTTTGGAAGTGGTCATTTCAGATGTGATTCATCTA
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000115414-FN1:NM_212482:41
Average complexity
IR-C
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.457 A=NA C2=0.059
Domain overlap (PFAM):
C1:
PF0004116=fn3=PD(43.6=72.3)
A:
NA
C2:
PF0003913=fn1=WD(100=71.4)
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:
No suggested primer sequences
R:
No suggested primer sequences
Band lengths:
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- Genotype-Tissue Expression Project (GTEx)
- 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)