HsaINT0065339 @ hg19
Intron Retention
Gene
ENSG00000137942 | FNBP1L
Description
formin binding protein 1-like [Source:HGNC Symbol;Acc:20851]
Coordinates
chr1:94000262-94002047:+
Coord C1 exon
chr1:94000262-94000465
Coord A exon
chr1:94000466-94001888
Coord C2 exon
chr1:94001889-94002047
Length
1423 bp
Sequences
Splice sites
5' ss Seq
AAGGTAAAA
5' ss Score
8.38
3' ss Seq
TTTCTTTATTTCCATATTAGCCA
3' ss Score
5.04
Exon sequences
Seq C1 exon
GACTCTCAAATGGTGGTAGACTCCTTCAAATCTGGTTTTGAACCTCCAGGAGACTTTCCATTTGAAGATTACAGTCAACATATATATAGAACCATTTCTGATGGGACTATCAGTGCATCCAAACAGGAGAGTGGGAAGATGGATGCCAAAACCACAGTAGGAAAGGCCAAGGGCAAATTGTGGCTCTTTGGAAAGAAGCCAAAG
Seq A exon
GTAAAAGTCATAAAATTCCTATATGCTAATCAGTTTAAGTGTACCAACTAAAACAATGTGGGTATTGAATGCAAAATGATTTACCATTAATGGAGAATAAATATTTTCAATTTGAATGATTCAGTTAACCTTTCACTTATATTAGGAATACCTTAACAGTAACAGTTATTTATGGATTTAACATTTGACTACCGCTTAATAATGGGTAAGAGTATTAACAAAGTTGTTAATATCTAGTTAAGTTATATGCTTTTGAAGTTTCATTTGTATGTAGTTTCCATCAGAATTTTTAAGGAAACATGATCTAACTAAAATAGCACTAAAATTGGAATTCTCAAATGGAATGAATGACCACAGCCATAATACATGTCAAGTTAGGTTTTATAGATCCTACTACTAAAATTATTTTTATCATCCATATGAGTTTTTAATGGGAAAGGTTCAGTCTTGGTTAATTGAAGTTTAAAACAATTTCTAGTTTGGTAAGAGAATCTCACTCTTAACTTCTTGTTAGAACCCACCTTCTGATGTGCTCTTTATTTTAGATAGATCTAGGTCAGCATGTGAGCAAATGAAATAGATGGGTGCTTTGTCTTTCTTATCAATTAAGTGGTTGTACTCGTGTCTTATTAGTAAGGAGAATAGAGAAATACTTTTAATCTGATGTGCTGTATTTATTAAAGTATACTTGATTATTTTAATTCATTTTTTGATCATGGCATATGAGTGTAGATAAAATTAAAATTTAACTCATTATAATATACCTGTATCTTTAAAAGCACAATTATAATTAACTCATGCTTTATTTATGCTTTTAATCATATTGTCCAGTCAAGAAGTTGAGAGGTGAGACCTGTTTTAAGTCAGATCGAGGTAGCTAGAAGAGCTTAGATGTACAAGGAATACTGGAATTAAAAAAAAAAAGGTGAAATAAGGATGAAATAGAAACAGCCTGAGAGGAAAGCCATGAATGTAATGAAAATTTTTTTGCCTATTTTTGGTAATAATCAGTTACAGTTTTAATATTTTATGTGCGACATTACCTGTTTAGATAACTTTAGGTGTAGCTGCCAGCTTTATTTCTTGACAAGTACCATGGTAATGCTAATATTCTAGAAATTAGAAGAGAATTTTAAAATCTAGGCCATATTGCTTTCTTTGACAATATAATTTGTGAACTCTGTGTTTTTAATTTGTCCGATGTTAAAAGTAATCAAGTGAAATGGTACATTTTAAAAAGTAAATTTGATTTTTTTAAATAATAGTTTTGGGCAAAACTATGTTTACTTTCTCATAATATTTTTACAGAAAACTTTATTTGAGATATATTTTGTGAAAAGTATGTTGCCAAAAATAGAATTTTCATTTAGGAGAAAACTATGCACATTTGGCTTATTGATTCCTTTCTTTATTTCCATATTAG
Seq C2 exon
CCACAGTCCCCACCCTTAACCCCTACTAGTTTATTCACATCCAGTACTCCTAATGGGTCCCAGTTTCTCACATTCTCCATTGAGCCCGTGCATTATTGTATGAATGAAATAAAAACAGGGAAGCCCAGAATTCCTTCTTTCAGAAGCCTCAAAAGAGGG
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000137942-FNBP1L:NM_001164473:9
Average complexity
IR-C
Mappability confidence:
NA
Protein Impact
No protein impact description available
No structure available
Features
Disorder rate (Iupred):
C1=0.292 A=NA C2=0.366
Domain overlap (PFAM):
C1:
PF127872=EcsC=PU(16.8=32.4)
A:
NA
C2:
PF103924=COG5=PU(7.1=13.2)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Conservation
Rat
(rn6)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
GACTCTCAAATGGTGGTAGACTCC
R:
AGAAGGAATTCTGGGCTTCCCT
Band lengths:
342-1765
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
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)