HsaINT0170337 @ hg19
Intron Retention
Gene
ENSG00000120332 | TNN
Description
tenascin N [Source:HGNC Symbol;Acc:22942]
Coordinates
chr1:175066553-175067731:+
Coord C1 exon
chr1:175066553-175066819
Coord A exon
chr1:175066820-175067467
Coord C2 exon
chr1:175067468-175067731
Length
648 bp
Sequences
Splice sites
5' ss Seq
CAGGTAACA
5' ss Score
8.88
3' ss Seq
TCCAAACATTTTCCTTCCAGATA
3' ss Score
8.97
Exon sequences
Seq C1 exon
AAATTGACAGCCCAGCAAACCTGGTGACTGACCGGGTGACTGAGAATACCGCCACCATCTCCTGGGACCCGGTACAGGCCACCATTGACAAGTACGTGGTGCGCTACACCTCTGCTGACGACCAAGAGACCAGAGAGGTTCTGGTGGGGAAGGAGCAGAGCAGCACTGTCCTGACAGGCCTGAGGCCAGGTGTGGAGTACACAGTGCATGTCTGGGCCCAGAAGGGGGACCGAGAGAGCAAGAAGGCTGACACCAACGCCCCGACAG
Seq A exon
GTAACAAAAGAGAGATGGTCAATTGGAATTGAGTTTTAGCTTGTGGATTTGAATAGGTATGGTATCAAAGGATGTGGCCTGAGCAGAAAGACTTTGCAATTAGAAGTCTTAAAGATGAAAGAAAGACTGAGCTCTCGTGGTGATGGCGGTGGGCTGCTCTTTCCTGACAGTGATGAGCTGTTCATGAGACCACTTGGCCCACTGAAAGAGAGAAGTAAAGTCTTATAGTAACAATGCTTTTAGCAGAAGATGGGTACAGGATCTGGTCATTGCAGTGCTTGTGATAATATTTTTAGAGTGCTCATCAGTGAAGTAGCCCTTGATAAAATGTTATGTTAGGAACCCTAAATGTCATGGCAGCTGTTTAATTGGAGGTTGTGATGTGCCATATGCTGCTGAGAAGACATCGTTCCTCCAACATTTTAGGGAACTGAAAGCCAAGAAAGAATGCCTCATTTATAATGATTCCTCCTTTGAAGTTCAGAACCAAGGGCTACTTTCTCCTTAGACTCCCAGCGGAGACTCAGGATGAGAATGCCATTGCCTTGTTCTAAAAGAGCTCTGGAAGATGAAAATGATGAAGATGGGGGTAAGGATATGTCTTCCATGGCTTCAGAGCTTAAACCTTTCCAAACATTTTCCTTCCAG
Seq C2 exon
ATATTGACAGCCCCAAAAACCTGGTGACTGACCGGGTGACAGAGAATATGGCCACGGTCTCCTGGGACCCGGTGCAGGCCGCCATTGACAAGTACGTGGTGCGCTACACCTCTGCTGGTGGAGAGACCAGGGAGGTTCCGGTGGGGAAGGAGCAGAGCAGCACAGTCCTGACAGGCCTGAGACCGGGTATGGAGTACATGGTGCACGTGTGGGCCCAGAAGGGGGACCAGGAGAGCAAGAAGGCCGACACCAAGGCCCAGACAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000120332-TNN:NM_022093:8
Average complexity
IR-S
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.511 A=NA C2=0.607
Domain overlap (PFAM):
C1:
PF0004116=fn3=WD(100=88.9)
A:
NA
C2:
PF0004116=fn3=WD(100=88.8)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Other assemblies
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
AGAGAGGTTCTGGTGGGGAAG
R:
CACGTGCACCATGTACTCCAT
Band lengths:
345-993
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- Autistic and control brains
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)