HsaINT0139676 @ hg19
Intron Retention
Gene
ENSG00000131378 | RFTN1
Description
raftlin, lipid raft linker 1 [Source:HGNC Symbol;Acc:30278]
Coordinates
chr3:16364883-16368383:-
Coord C1 exon
chr3:16368280-16368383
Coord A exon
chr3:16364965-16368279
Coord C2 exon
chr3:16364883-16364964
Length
3315 bp
Sequences
Splice sites
5' ss Seq
CAGGTAACA
5' ss Score
8.88
3' ss Seq
CTCAGCTCCGTGTGTTACAGCGA
3' ss Score
7.12
Exon sequences
Seq C1 exon
GGTGTCGAAGTGCAGACAGACTACGTGCCCCTGCTGAACTCGCTGGCGGCCTATGGCTGGCAGCTCACCTGTGTGCTACCAACTCCCGTCGTCAAGACTACCAG
Seq A exon
GTAACAATAACAGTAATCATTAGGATTCTATTGAACACTTACTCTGTGCTAGTCACTGTTCCTAATGAGCACCTCACGTCTATAAATTATTTAATCCTGTGCAAGAGGCTGGTAGTTATGTAAACTCTCCCACTGGGAAGCAGCAGAGCCAGAATTTCACATTCTTAACCACCGTCACCCAGAGAACTCCCCTGCACCCCTCTTCCCACATGGGGGGCCCTGTGAGTCATTACTGCCCAGAATGTCAAAGATGAGCCGCTCAGACTGAGAGGGCTCAGAGCCTCCAATGCAAAAGAAATTCAGCACCTACTATGTGCCTTGTGCTAGGCTAGGTAGGCACTTTATATATAAAAATCTCAGTCCTCAAAAAGAAAAGAAAAATACTATGAGGTAGAATTGTATTATTATTAAACCCATTTTGCAGCTGAGGAAAGTGTAGCCAGGGAGGTTGAGGGACTTGGCCAAGATCAAGCACTGGTCACCAGCTCCACAAAGGGGCTGTAAAGGCCTGCCTTTCAGGCCTTGGTGCGGCATTCCTTATAATTTCAGGTTCATGCTCATTTGTCCACTCTCAGCTCTGCTTACGCTCCCTTGAGCCCAGTCACACCAACCATAAAAGGCCCTCCATCTATATGTTGGGCTTACTATCCAAATTAGTCTTGCCCTGTGGGGTTGTAAGCATGGATATGATTCCCATTTTGCAGATGAGGAAACTGAGGCTAGGGGAGGCTTGGTCACATACTTAAGGCTACCCAGCCAGTAAGTGGCAGAAACTGGGCCTAGAACCTCAGTCTGCAGAATCAGGCACTTTTCCTGGAGCAGGCCGTCTCTCTGCTGACCAGCAAGGATGCCCCCGCTGTGGCCCCCAGAGCTCCACCTTCCCCAAGCCCTACTGCATATTCACCACTGCAGAGTGATGGACAGCATGGGGCAAGGCTGGCAAACCAGGGTGATTGAGAGTGCAGAATCATGGTGACAACTGATGTCTTTCCTAGTCCCTCCTCTGGCTCACCAGGATCCTCAGATTCCACATTAGGTCACAGTGGGTCAGTGCACCAGGGGGAGCCAGTCTGCGGCCACTTTTGAGCCCCTTGGCCACTGGAAACCACCATGTTCTTTCTCAGCCAAGACTTCGACAGGCATAGGGCAATGCAGTGGTGTAGAAAGAACCCTGGATTTGGGGCCTGAAGACTTGAACCCAAGTCTTCAGTCTGCCACTTACCCACTGTGTCATGTTGGTCAAGTGACATAGCTTCTCTGAGTCAGTTTCCTGGTCAATTTCCAGAAGACAAGACTCAGAATGTATTTGAATGTGAAGGCCCAGCTGGTTCTGAGCCACCTAAGCCCAGGGGCTACAGACAGGTCTCTCTGTCTCAGACCTTCACACCTGCTAAATAATCCTTCCTAATCCTCCACCTCCCTGTTCCTTAAATGACCACTTACGGTGGAATGGAGACTGTGTGGAACTGGGTAGATCTGTGTTTGAATCCTCACTGTGTGATCTCCAGCCTGCTCTTGAGCTGAGCTTTTGTTTCCTTCTATAAAAGTGGTAGTTGGATTCCGTGGAGCATTGAGGTGAAGCTTAAATGAGCCATTATGTGTGAATTCACCCAGCCTAGCCGCTACACAAAATAGGTGCAGAGTAAATATTAGTTCTCTCCCTCCTTTTTCTTACAGACTTTGTAGCTGAATGCAGTAACATGTAAAGAAATTTACAAAACAGATTTAAGAAATGCAAATTAAAACCACAGTGAGATATAGCCTCACACTGATTGGGATGGCTATTATAAAAAAGACAAGGGTATAGAGAAAAGAGAACCCTTGTACACTCTTGGTGGGATTGTAAATTAATATAGCCATTATGGAAAATAGTACAGAGGTTTCTCAGAAAACTAAAGATAGACTTAGCACATGATCCAGCAAACCCACTTCTAGGTATATATCCAAAGGAACTGAAATCAGTATGCAGAAGAGGGATCTGCATTTCCATGATCCTTGCAGCATTATTCACAACAGCTAAGAAATGGAAACAACTTAGGTGTCCCTCATCAGATGGATGAAGAAAATGTGATATATATATATAAAATACACACACACACACACACACACACACACACACACACACAATGGAATACTATGCAACCTTAAAAGGGGGGGGGTCAGGGACATTCTGTTATTTATTACAAGGATGAGCCTGGAAGACACTATGCTAAGTGAAATAAACCAGGCACAGAATGACATACCTTATAATCTCTCTCATACGTGGAATCTAAAAAAGTTGAGTCATAGAAGCAGAGAGTAGAATGGTGTTTACCAGAGGCTGGGGAGTGGGGCGGATGGGCAAACGAGAGATGTTGATCAAAGGGTACAAAGTTTCAGTTAGGAGGAATAAGCCTTGGTCATCTATTGCACAGAATGGTGACTATTATAAACAATAATGCCTTGTATAGTTTACAGTTCCTAAAAGAGTAGCTTTTAAATGTTTTCACCACAAAAAGTGCTAAGTATGTGAGGTGATGGATTTGTTAAGTAGCCTGATTTAATCAGTCCACATTGTAAACATATATCAAAACATCACACTCTACCCCATAAATATACAATTATTATTTGTAAATTAAAAATAAAATACAAAATCATCAGAAGGGTGGAAGCAGGGGAAAAAAAAAACAGTGATCTTCTTTACAATACTTCTATCATCTTTAGAGGCAGCTCCAGGTCCTGCCTTCCTGGGAAGAGAGAATTCACTGTATTGTAAGATACGAGTCGCCCCTCCCTCGCATGTGAGCCAGAGCTGGTTAACAGGCACTGCCTTGCAGGGCCCGCCTGGTGCTGTGCAGTCTTTGGTGTGCCTGCAGGAGCCATGCATGGCTGAGACCCTGGATGCAGCCATGACCTCTGTCCACTGTCCTGTAGCAGCTGGAGGGCTGAGCTCATCACCCAGGTCCTTATCTACCTGCCCATCATTACCAGAGACAGATTTGGAAAAGGCCCCTGCCCCTTTGAGATCCACTGAAGCAGCCAGTGTGTCCACATTTGGCCAAGATGCTGTTACTTCCCATTAAGGGAATGGGCGTGTCCAGCTAGGAAGCTGACTTTGTAGGGATACCCAAAAAGCTTTTGTTGGGCATCTGAGATAGCCCCTCGGAAGCAAGGTTGGATGGCCTGGGAGCGGAAGAGTAGAGCAGGCGTCTCTTCTAACCTGTCATAATCCTGTGGGTGGTCTGCTTTGATGAAATTAGGGATGGCAACATCTGTGTCAGGTTTTGGGTTCCTCTAAGGCATAAAGTGGCTCATTCTCAGCTCCGTGTGTTACAG
Seq C2 exon
CGAGGGGAGTGTATCCACCAAGCAGATTGTCTTTCTTCAGAGACCTTGTCTACCTCAGAAAATCAAGAAGAAGGAATCGAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000131378-RFTN1:NM_015150:8
Average complexity
IR-C
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.000 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF152501=Raftlin=FE(7.0=100),PF137831=DUF4177=FE(63.0=100)
A:
NA
C2:
PF152501=Raftlin=FE(5.6=100),PF137831=DUF4177=PD(27.8=53.6)
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:
No suggested primer sequences
R:
No suggested primer sequences
Band lengths:
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)