HsaINT0065295 @ hg38
Intron Retention
Gene
ENSG00000115414 | FN1
Description
fibronectin 1 [Source:HGNC Symbol;Acc:HGNC:3778]
Coordinates
chr2:215424146-215425285:-
Coord C1 exon
chr2:215425094-215425285
Coord A exon
chr2:215424326-215425093
Coord C2 exon
chr2:215424146-215424325
Length
768 bp
Sequences
Splice sites
5' ss Seq
CAGGTATGC
5' ss Score
9.37
3' ss Seq
TCTTTTGATTATGATTGTAGCTG
3' ss Score
4.2
Exon sequences
Seq C1 exon
GATCTGGCCCCTTCACCGATGTTCGTGCAGCTGTTTACCAACCGCAGCCTCACCCCCAGCCTCCTCCCTATGGCCACTGTGTCACAGACAGTGGTGTGGTCTACTCTGTGGGGATGCAGTGGCTGAAGACACAAGGAAATAAGCAAATGCTTTGCACGTGCCTGGGCAACGGAGTCAGCTGCCAAGAGACAG
Seq A exon
GTATGCATTATCTTTTTGAAGAATAGGACTGATGACTTTATTATTTAGTTTTTGAAGGACAATACATTTTCAATGTGAAACAATAAAACAAACAAGAAGCCTGTAATCTTACCACCCTGTGATAACAATTAGGGTTGGCATTTGAAATAGTTTCTTCCAATCTTTTTAATTTATGTATTTTCTTTCTGGTCATGGATATCATGGGTAAAAATTTTATTGTATTTATCTGTCTAAAGTGTTGTTACAAGAGAGCTACTTTCTGAATAATCATCAATGTTTTATATTCTAAATCTCAAATTTCAGCAGCTTTGTGATGTAAACATCTTCCAATAACCTAATATATGTATTCTGCACTACAAACATGGTAGTCACTATGGCAATAACAATTGCTACACAATTCTCCCCCAGAATAGTCTCATATATTAATTTTATGGCATAGATATAGTCATAAATATTATCCCAACATCCTTAAGCAGCATCCTTAATTGACCTGTATAAATATAGCTTTACAAATAGAGAAACTGAGGCATGGCAGCAGAAGTGGTCATGAAGGACATCAGCAGAAGAACTCAGGTGTCGTTCTATCCACAGTAGACATGGATTCCTGAGTAATGCATTTTGACTGAAATTAACGAGATGATCATCTATACTCATAGCTTCTTCCTTTGAGGGCACAAGCTCAGTATCTCATTGAAGCCATAAATAAGCAGCTGCTGGTGGGAGATAAAGCATCTCTGTTTACTGACACTCTTTTGATTATGATTGTAG
Seq C2 exon
CTGTAACCCAGACTTACGGTGGCAACTCAAATGGAGAGCCATGTGTCTTACCATTCACCTACAATGGCAGGACGTTCTACTCCTGCACCACAGAAGGGCGACAGGACGGACATCTTTGGTGCAGCACAACTTCGAATTATGAGCAGGACCAGAAATACTCTTTCTGCACAGACCACACTG
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000115414:ENST00000354785:7
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.246 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF0003913=fn1=WD(100=53.8)
A:
NA
C2:
PF0004014=fn2=WD(100=68.9)
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:
TGTTCGTGCAGCTGTTTACCA
R:
GTGTGGTCTGTGCAGAAAGAGT
Band lengths:
351-1119
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