HsaINT0063309 @ hg38
Intron Retention
Gene
ENSG00000085265 | FCN1
Description
ficolin 1 [Source:HGNC Symbol;Acc:HGNC:3623]
Coordinates
chr9:134916348-134917963:-
Coord C1 exon
chr9:134917769-134917963
Coord A exon
chr9:134916462-134917768
Coord C2 exon
chr9:134916348-134916461
Length
1307 bp
Sequences
Splice sites
5' ss Seq
CAGGTGAGA
5' ss Score
9.22
3' ss Seq
GCACCTGTGTTTCTCTGCAGAGG
3' ss Score
10.11
Exon sequences
Seq C1 exon
CAGGGAGTTGAGAAACTGTGGCACAAGGCGAGAGCTGGTTTCCTCTGCCCTGTTAGAGCTGGGGGACTCTTCAGAGTCAAAGGCCAGAGAGCATGGAGCTGAGTGGAGCCACCATGGCCCGGGGGCTCGCTGTCCTGCTAGTCTTGTTCCTGCATATCAAGAACCTGCCTGCCCAGGCTGCGGACACATGTCCAG
Seq A exon
GTGAGACAGACCTGGGTTTTCTGGTCCCTAAAAGCTGGTAACAACCCCACTCACTGACACTCGGGTGTCCCAGGCAAAACCTTTTATGCACATCTTCCTGTGAAGATGCCCAACAGATCTGTTTTATCCTCAGGCAAGGACATGGAGGCTCAGGGCAGCTGAGGCATTGCCCAGGGTCATGGAGGGATAGGGGAGGGATGTCACCAGGTCTGTCTGCCTCGAAAGCCCAGGATTTGCCCATTGGAGCTTCATAGGTGGGTCTGGAATCTGTCACTGAGAAGGAAGAAAATACTGTTGACTTTATCTTCTTACGGGCTTACCAGGGAGGCACTCTAAGACCCTCTAATACGGTGGCTGCCACACGGACTTGGGGGGTTTGTTAAAAAGGCAGATTTCTGGCTCTCCTCCAAGAGAGTCGGAATCAGTTGATAGGGACAAGGGTTTGAACGGTGGTAAGGTGTTTCCCTCACTGATTCAGGAGCAGGTGGTTCTGTGACGCTCAGCAAGAGACTGCTCCTAAGGACGGCCTGGTGCCCCTGGCTGATAACATATTTATGAAGGAAACATAAATAGTAAATTACAGCCTGCTCTAGTGGAAGGAGGACTGGAAACACAGAAAGGAAATACCCCAAAAATGGCAGTGCCATGTCTCCGGTGAGAGCACTGCTCCGTTCCATGGTCTCTAAGAGCGCCCTTAGCAGGGCGTGTAGATTTTGTAATGAACAAAATGAAAAATATTTTTTCAAAGAAGTAAACAACTTTGGTTTGGCTGCAGCTGTGCCACACCTGGCTCTGTGTCCTTGGACCCCACACTGCCCCTCTCCAGAGGACCTAGAAAGCCCCTTCCAGCCCAGTAATTCTACAACCACATTCCCAAGGTCTGGGAGGGAAAATGCTTTGTCAGCCCCAATTCCCCAAGTTTCTTAGAAATATTGATTGTCATTAGTTATTGAAAGTGCCCGCTGTTTATTAAGCTCTTTCTAAATGCCATAAATTACAATAAGAGATTTAAAATGCACATTCTTTAACCAAATCCTGGCCGCAACCTTGTTATTATCCCCGCTTGGCAGCCCAGGGCACAAAGCTCAGAGGAGTTAAGTTACTTGCTGCAGGACACACAGCACTGAGGAGATGGGGCTCCCCTAGGTCGGGGTGGCCTCCAAAGCCAGAGCTCTGCCCCCCATCACATCTCCGCCTCACCAGTGCCTGAGGGGTGAGGACAGACCAAGGCCCCAGCAGAGCAGAAAACCTCACTTCCCAGCCACTGTTGGGCCAGGCACTGAGTGGGCACCTGTGTTTCTCTGCAG
Seq C2 exon
AGGTGAAGGTGGTGGGCCTGGAGGGCTCTGACAAGCTCACCATTCTCCGAGGCTGCCCGGGGCTGCCCGGGGCCCCAGGGCCAAAGGGAGAGGCAGGTGTCATTGGAGAGAGAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000085265:ENST00000371806:1
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion (1st CDS intron)
No structure available
Features
Disorder rate (Iupred):
C1=0.029 A=NA C2=0.462
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
PF0139113=Collagen=PU(37.7=59.0)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Other assemblies
Conservation
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
GGGAGTTGAGAAACTGTGGCA
R:
TCTCCAATGACACCTGCCTCT
Band lengths:
302-1609
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