HsaINT1013783 @ hg38
Intron Retention
Gene
ENSG00000115414 | FN1
Description
fibronectin 1 [Source:HGNC Symbol;Acc:HGNC:3778]
Coordinates
chr2:215371909-215373411:-
Coord C1 exon
chr2:215373322-215373411
Coord A exon
chr2:215372376-215373321
Coord C2 exon
chr2:215371909-215372375
Length
946 bp
Sequences
Splice sites
5' ss Seq
CAGGTAAGA
5' ss Score
10.77
3' ss Seq
CTCTAACCTCTCTCGGCTAGACG
3' ss Score
4.08
Exon sequences
Seq C1 exon
GCCTGGAACCGGGAACCGAATATACAATTTATGTCATTGCCCTGAAGAATAATCAGAAGAGCGAGCCCCTGATTGGAAGGAAAAAGACAG
Seq A exon
GTAAGAGTATCTTGCAGGTAACAAGGAGAAAGATAGGACAAAACTAATAACAAATGAGCAATCTTGCAATATGAAAAGGTTCTCCATGTTTTGATGCATTTCTTGTGATTTTTTTTATCTAACAGCATAGTGTATATATTGTATTCTTTAATAGGAGAAATAATTTAACATGCACTGCAGAGTTTGGTTTTATTTTTTTTCTTTACTACAGCCACTCAATATAAAGCCTTGTTATTCACCTTTTAAAAATTCAAACAAGATGTTAAAATGTAAAAGAAGAGCTATCATTGCTCTTCTTTTATACCTTCTGTTGAATTTTAAAATGTTTCCTTTTTTAAAGGAGGGAGAGAAACCTCTCACATTTATCTTTATTTGGTTTCTACAACTTAGAGCTAAATAATGTCTTACTTTTGCATCCAGTTTCAGTTAATTTCAAGAAAATGTGTATTCCTGATATAGGAAAATTTCAAAAATGAACATGTGTGTTTTATCTATTTTTACCATTTCAAACCATGAAAAACTGTTGAGCCAAACCTCTGTAATTCTCATACTTATGACACTGATATGATTAGTCTGGATTCTACTTCCTACAACTTGCTTCTCAAATTTAAAAAAGAAAGAGAGAAAGAGAAAGACTGCACATTTCAGTTCCATTAGGTCTAATTTGAGCAGAGGCAGCTTCTACGGGGCTCAGCGGTTTAAAGCTGTGTGTATGATAAATTCATACTAACACTTTTTTCTTTCTAAACTATAAAGAAACCTTTGAGAAAAATCCTAAAGATTTCTTTCTGGAAAAAGTGTTTTGTGATCTCAGAACTGCTCATTTTCTGGTGGCTTTTATCAAATTGATGAACAGTCATTGTTGCCTGAATCGATTATTATCATTGCTGCTACTTCCTGGAGCTTAATGCGCTTTGCTTTTTTGGCTCTAACCTCTCTCGGCTAG
Seq C2 exon
ACGAGCTTCCCCAACTGGTAACCCTTCCACACCCCAATCTTCATGGACCAGAGATCTTGGATGTTCCTTCCACAGTTCAAAAGACCCCTTTCGTCACCCACCCTGGGTATGACACTGGAAATGGTATTCAGCTTCCTGGCACTTCTGGTCAGCAACCCAGTGTTGGGCAACAAATGATCTTTGAGGAACATGGTTTTAGGCGGACCACACCGCCCACAACGGCCACCCCCATAAGGCATAGGCCAAGACCATACCCGCCGAATGTAGGTGAGGAAATCCAAATTGGTCACATCCCCAGGGAAGATGTAGACTATCACCTGTACCCACACGGTCCGGGACTCAATCCAAATGCCTCTACAGGACAAGAAGCTCTCTCTCAGACAACCATCTCATGGGCCCCATTCCAGGACACTTCTGAGTACATCATTTCATGTCATCCTGTTGGCACTGATGAAGAACCCTTACAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000115414:ENST00000354785:39
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.347 A=NA C2=0.843
Domain overlap (PFAM):
C1:
PF0004116=fn3=PD(27.2=71.0)
A:
NA
C2:
PF0004116=fn3=PU(50.7=23.7)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
Associated events
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
TAATCAGAAGAGCGAGCCCCT
R:
TCCCTGGGGATGTGACCAATT
Band lengths:
342-1288
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- Autistic and control brains