HsaINT0170322 @ hg19
Intron Retention
Gene
ENSG00000120332 | TNN
Description
tenascin N [Source:HGNC Symbol;Acc:22942]
Coordinates
chr1:175086075-175087960:+
Coord C1 exon
chr1:175086075-175086341
Coord A exon
chr1:175086342-175087696
Coord C2 exon
chr1:175087697-175087960
Length
1355 bp
Sequences
Splice sites
5' ss Seq
CAGGTAAGG
5' ss Score
11.08
3' ss Seq
GTCAGCATTTTTTTTTTCAGACA
3' ss Score
7.37
Exon sequences
Seq C1 exon
ACATTGACAGCCCCCAAAACCTGGTGACCGACCGGGTGACAGAGAATATGGCCACTGTCTCCTGGGACCCGGTGCGGGCCACCATTGACAGGTATGTGGTGCGCTACACCTCTGCCAAGGACGGAGAGACCAGGGAGGTTCCGGTGGGGAAGGAGCAGAGTAGCACTGTCCTGACGGGCCTGAGGCCGGGTGTGGAGTACACGGTGCACGTGTGGGCCCAGAAGGGGGCCCAGGAGAGCAAGAAGGCTGACACCAAGGCCCAGACAG
Seq A exon
GTAAGGAGCATTGTTCTTTGGGAATATAAGAGCTTTCATGCTAAGTCAGTGGATGACAAGTTTTGTTTTCCTTCTCTGACATTGGCAGAAGTCAATGATTAATGGAAGAGTGGGATGGCATCCCTTCATAACAGATTGCACACACCATCCCTCATTTTCCTTTAACTAGTTTCCTTGCAAGTCAGGGCCACAAGGCAGTCTCCAAGCTATGATTACATGGTCATGTCCATCAACTCCTCTTCTGATTGCATGGATCTTTTGCTGTAGACAGTATCGAGGGTCTCTTAGTGAGTTTGTGAGTGGGAACAGAAAATGAAAATCAAATTTTGTTAATAATAATAGTATATTGAAAATTTGACTTTAAGAACGTAGATGTCACATCTGCCATAGCAAGGAGATGTATATCATTTGCTTTATGACAAATGAATCACATTATAACTATAAAACATATTTATAACTAGAAATTATGATAAGTTCTATGAAGGAGATGACATGGTGTAGGTATAGAGAATAATGAAGTAGTGATGTTTCTCAGATAGGAAGGGGAAATAGTAATAGGATACACATGGCCAAAACAACCAAATAACAGTTGCTTAAACAAGAAAGGAGCGTATTCCTCTTGTTGAATAGCAGAGTGTACGTTGGCCAGAGTTTTGAGGATAAGGATAGCTCCTACGTTATATTCTTATTTTAGTGGAAGCGATATCTAACCATATTTTGTACAGTGATTTAATCAGCAAACCAGCATGATGAGTGAATCTATGATATGCTAGAGAATATTCAACCAGGGTTTTACTTTTTGCGGATTCCTTTAGTAATATATAGTGAGCATTTTCCACGTGCCCTGCCCACTACTAGGCACTGGGAACACAGGAGAATAGGATGCTGCCCTCTTCCTCCAGGGGCTTACATTTAGAAGTGGCTTTTAGAATCTTCTAGTATGAAATGGGAGGTCTTTACTGACATGATGTGAGACACAAAATTGTTAGTTCCTGGTGAGCAGAGACCATGTCTTTTCCAATTCTGGATTCTGCACACTGTCTAGAACATTTCATGGACAGAGTTGGGGCTTGATATACCCTTACTAGATGAATAAAAGATTTGTTTTGCTAAAGACTTGGTAGAGGTAACAGCCTGGATTCTCAGGTTCTGATCTATTGTGCTTTCTACTTGAGGAGCCAGGTATATCTTGGGGGAGAAGATGATGTCCATGAAACAGCTAAAAATGAAACAAGAGCATATGAGGCGGAAACCCCACACAACATGAAAGGGTTTCACCCCACGCAAAATGACCACCAGTTTCTGCACTCTGGCACCTGTTCATAGTGCATATTGGTCAGCATTTTTTTTTTCAG
Seq C2 exon
ACATTGACAGCCCCCAAAACCTGGTCACTGACTGGGTGACAGAGAATACAGCCACTGTCTCCTGGGACCCGGTGCAGGCCACCATTGACAGGTATGTGGTGCACTACACGTCTGCCAACGGAGAGACCAGGGAGGTTCCAGTGGGGAAGGAGCAGAGCAGCACTGTCCTGACGGGCCTGAGGCCGGGCATGGAGTACACGGTGCACGTGTGGGCCCAGAAGGGGAACCAGGAGAGCAAGAAGGCTGACACCAAGGCCCAGACAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000120332-TNN:NM_022093:10
Average complexity
IR-S
Mappability confidence:
NA
Protein Impact
No protein impact description available
No structure available
Features
Disorder rate (Iupred):
C1=0.589 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
Conservation
Rat
(rn6)
No conservation detected
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
AGAGTAGCACTGTCCTGACGG
R:
GCCTTCTTGCTCTCCTGGTTC
Band lengths:
355-1710
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)