HsaINT0063720 @ hg38
Intron Retention
Gene
ENSG00000171564 | FGB
Description
fibrinogen beta chain [Source:HGNC Symbol;Acc:HGNC:3662]
Coordinates
chr4:154569514-154571086:+
Coord C1 exon
chr4:154569514-154569799
Coord A exon
chr4:154569800-154570418
Coord C2 exon
chr4:154570419-154571086
Length
619 bp
Sequences
Splice sites
5' ss Seq
CTGGTATGT
5' ss Score
8.14
3' ss Seq
CCAAACACATTTTCTTTCAGGTT
3' ss Score
8.37
Exon sequences
Seq C1 exon
GTGAATATTGGCTTGGAAATGATAAAATTAGCCAGCTTACCAGGATGGGACCCACAGAACTTTTGATAGAAATGGAGGACTGGAAAGGAGACAAAGTAAAGGCTCACTATGGAGGATTCACTGTACAGAATGAAGCCAACAAATACCAGATCTCAGTGAACAAATACAGAGGAACAGCCGGTAATGCCCTCATGGATGGAGCATCTCAGCTGATGGGAGAAAACAGGACCATGACCATTCACAACGGCATGTTCTTCAGCACGTATGACAGAGACAATGACGGCTG
Seq A exon
GTATGTGTGGCACTCTTTGCTCCTGCTTTAAAAATCACACTAATATCATTACTCAGAATCATTAACAATATTTTTAATAGCTACCACTTCCTGGGCACTTACTGTCAGCCACTGTCCTAAGCTCTTTATGCATCACTCGAAAGCATTTCAACTATAAGGTAGACATTCTTATTCTCATTTTACAGATGAGATTTAGAGAGATTACGTGATTTGTCCAATGTCACACAACTACCCAGAGATAAAACTAGAATTTGAGCACAGTTACTTTCTGAATAATGAGCATTTAGATAAATACCTATATCTCTATATTCTAAAGTGTGTGTGAAAACTTTCATTTTCATTTCCAGGGTTCTCTGATACTAAGGGTTGTAAAAGCTATTATTCCAGTATAAAGTAACAAACACAGTCCCTAGATGGATTGGCCACAAAGGCCCAGTTATCTCTCTTTCTTGCTATAGGGCACAGGAGGTCTTTGGTGTATTAGTGTGACTCTATGTATAGCACCCAAAGGAAAGACTACTGTGCACACGAGTGTAGCAGTCTTTTATGGGTAATCTGCAAAACGTAACTTGACCACCGTAGTTCTGTTTCTAATAACGCCAAACACATTTTCTTTCAG
Seq C2 exon
GTTAACATCAGATCCCAGAAAACAGTGTTCTAAAGAAGACGGTGGTGGATGGTGGTATAATAGATGTCATGCAGCCAATCCAAACGGCAGATACTACTGGGGTGGACAGTACACCTGGGACATGGCAAAGCATGGCACAGATGATGGTGTAGTATGGATGAATTGGAAGGGGTCATGGTACTCAATGAGGAAGATGAGTATGAAGATCAGGCCCTTCTTCCCACAGCAATAGTCCCCAATACGTAGATTTTTGCTCTTCTGTATGTGACAACATTTTTGTACATTATGTTATTGGAATTTTCTTTCATACATTATATTCCTCTAAAACTCTCAAGCAGACGTGAGTGTGACTTTTTGAAAAAAGTATAGGATAAATTACATTAAAATAGCACATGATTTTCTTTTGTTTTCTTCATTTCTCTTGCTCACCAAGAAGTAACAAAAGTATAGTTTTGACAGAGTTGGTGTTCATAATTTCAGTTCTAGTTGATTGCGAGAATTTTCAAATAAGGAAGAGGGGTCTTTTATCCTTGTCGTAGGAAAACCATGACGGAAAGGAAAAACTGATGTTTAAAAGTCCACTTTTAAAACTATATTTATTTATGTAGGATCTGTCAAAGAAAACTTCCAAAAAGATTTATTAATTAAACCAGACTCTGTTGCAATAA
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000171564:ENST00000302068:7
Average complexity
IR
Mappability confidence:
NA
Protein Impact
Alternative protein isoforms
No structure available
Features
Disorder rate (Iupred):
C1=0.000 A=NA C2=0.078
Domain overlap (PFAM):
C1:
PF0014713=Fibrinogen_C=FE(37.8=100)
A:
NA
C2:
PF0014713=Fibrinogen_C=PD(28.7=92.3)
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:
CGGTAATGCCCTCATGGATGG
R:
TGGGGACTATTGCTGTGGGAA
Band lengths:
346-965
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