HsaINT0065130 @ hg19
Intron Retention
Gene
ENSG00000157827 | FMNL2
Description
formin-like 2 [Source:HGNC Symbol;Acc:18267]
Coordinates
chr2:153483039-153485047:+
Coord C1 exon
chr2:153483039-153483241
Coord A exon
chr2:153483242-153484812
Coord C2 exon
chr2:153484813-153485047
Length
1571 bp
Sequences
Splice sites
5' ss Seq
TGTGTAAGT
5' ss Score
7.65
3' ss Seq
CTCTCCACATCTGTCTTTAGATT
3' ss Score
8.89
Exon sequences
Seq C1 exon
GATTTAAATGTGGATGAATTTGAGGAAATATTCAAGACAAAAGCCCAAGGACCTGCCATTGATCTTTCTTCAAGCAAACAGAAGATACCACAGAAGGGATCAAACAAAGTGACATTACTAGAAGCAAACAGGGCCAAAAATCTTGCCATAACTTTAAGGAAAGCTGGAAAGACTGCTGATGAAATATGTAAAGCTATTCATGT
Seq A exon
GTAAGTTCAGGAAAATTATATTCTAGTTAGTTTATGATAAAATGAAAATGAGAAAGTTATGAATTAGTAGATGACAAATATTTCAATAGTGAGACAAGACCTAAGATAAAAGCTGGAGCAATTTTTGATATCCACACTTGAGAGATCTGAACTCTGTGTGTGCTACTTCAAAGTTGAATATGATGCCAACACGAAAGAGGTAGACCAGAAATCACCCTGGGGAGTGTTGTATTAGAACCAGTAACTAATTGTTTTAGAAGAATAACATCTGGATTGTGACATCATTTATTATCTGGGTCTACTCTCTTATGCGGGCCTCCAGCAATGCTTACATAAAAGGAAAGTTGAGCTGAGCGTGGCAGATGTTAAGAAAAGGTAGAAAATGTCAGTTTTCTCTGGAGTATCTGGATTTTATCCAGATTTGTTGAATACAAATTTGATGGCATTTGTGGAATGATACAGTTCAATGCCAGATGCAAATATGATACAGATGCATATTTTAATTCGTAACAACAGGAATGTGAATTGTTTTGCTTTCAGTACTTTCAGGACATTTTAAACAAAGTTCATTTTTTACTCTTGAACTGCATAGAAGGCATTGGTTTTACTCCTCTATTAGAAGAATCCTTCTATTCTTCTTGTGGCCATGGTGACTTTCAAATGTGATGAAGACATTATTAAATGTTTTAGGAACTAATTATTTATAAATTGATTATCTTATACATTTTGGTTAGAGGCTTCGAGGTGTAAATGACCCTAAGAAATCCTTTGTTCCAATTTTGTGTCCTCAACCAGGGTCATAATCTGGTAGTCCAGTGCCTCCTACAGTCTGTTCTGATTTCTGTCATTGAATCCTGAAGTGCAGCCTGGCTTTAAATCTTTATATATCTTGTTTGTCATGATGATTAAATGTAATTCTATTATTTAGCTGAACAAAGATTGTCCAGAGAATAATAGAGAATAGAGACTGTAACAAATACTTCATTTGTTCAAATTAAGCATATATCCAAAAAGAACTTCAAGGAATGTATGCACTTAACCTAAAACATTCAATAATACAGGCATTTGGATGCATTTTTTTCCAAAGAAGAAAAAATACTACCAGACTATTGGTTTAATTGAAATATTTTACATAATTCACCAGATATTCTGTACTAATGTGTACAGTGTTAATCTCCTGAATTAGCTGTACTTCACAATGCCTGTCAACTATGTGCTTGAACCATGAAACCATCAGATGCTTTGGCCTTGGTTCTACCTCTTCCTATTTTCATTTACTCCTGATTCCAGAGGCTTAGAGCTATGCCAGTACCCTAAAAACTGAGGATGGCAGTTGTGACAAGGTCCACGTTTTCAGGAAGAACCAGTTAAGTTACCTGAGGCATAGTCAAGAACCAGCACCAGGGTGGGACTTCACAGGACAGCTGGAGAAATCTTAGACTCGTTGATTTGGTGTTTGATGAGCTGTACCAGATGGATGATGGATGGATGAACCTGAAAAGATGGATGAACTTGAAAAGGGGGTAGGAGGTTTTTCTCTCTAATGCTAATCTCTCCACATCTGTCTTTAG
Seq C2 exon
ATTTGACTTGAAGACACTGCCTGTGGACTTTGTGGAATGCTTGATGCGGTTCCTACCAACTGAGAATGAAGTGAAAGTGCTTCGGCTCTACGAGCGGGAAAGGAAGCCTCTGGAAAACTTGTCAGATGAAGATCGGTTCATGATGCAGTTTAGTAAAATCGAGAGGCTCATGCAGAAGATGACCATCATGGCCTTCATTGGGAACTTTGCTGAAAGCATTCAGATGCTGACTCCT
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000157827-FMNL2:NM_052905:17
Average complexity
IR-S
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.114 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF0218118=FH2=FE(18.3=100)
A:
NA
C2:
PF0218118=FH2=FE(21.3=100)
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:
AGACAAAAGCCCAAGGACCTG
R:
TCTTCTGCATGAGCCTCTCGA
Band lengths:
348-1919
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
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)