Special

HsaINT0118127 @ hg38

Intron Retention

Gene
Description
oncoprotein induced transcript 3 [Source:HGNC Symbol;Acc:HGNC:29953]
Coordinates
chr10:72898664-72900484:+
Coord C1 exon
chr10:72898664-72899038
Coord A exon
chr10:72899039-72900376
Coord C2 exon
chr10:72900377-72900484
Length
1338 bp
Sequences
Splice sites
5' ss Seq
GTCGTGAGT
5' ss Score
7.82
3' ss Seq
TAATCTTTATTCTTCCATAGATT
3' ss Score
8.87
Exon sequences
Seq C1 exon
CCCTAGATCCTTGTTCTGCTTACATCAGCCTGAATGAGCCCTGGAGGAACACTGACCACCAGTTGGATGAGTCTCAAGGTCCTCCTCTATGTGACAACCATGTGAATGGGGAGTGGTACCACTTCACGGGCATGGCGGGAGATGCCATGCCTACCTTCTGCATACCAGAAAACCACTGTGGAACCCACGCACCTGTCTGGCTCAATGGCAGCCACCCCCTAGAAGGCGACGGCATTGTGCAACGCCAGGCTTGTGCCAGCTTCAATGGGAACTGCTGTCTCTGGAACACCACGGTGGAAGTCAAGGCTTGCCCTGGAGGCTACTATGTGTATCGTCTGACCAAGCCCAGCGTCTGCTTCCACGTCTACTGTGGTC
Seq A exon
GTGAGTACCTTCCCTGTGCTCTTTTTCTCCACCAACAAGGCCACAGGTGGAGTCCAAAAGTGCCAATTATAGGATATGCAGTTACAGTGGCAACTATATCTCAATCTGAACAACATTGATGTGGGGCTAAAGATACCTCTGATTTCTGAGATCTCTTCTTAGAACTTCTGAAAAATTCCTGAAGAAATAGAAGGGGAAAGGAGCTATGACTTTGATCAGTTCTTTTTAATTTTGTCTGAATTCCATTCAAACAAAACATTAGAAAATGAAACATTGGGCCAGGCGCAGTGGCTCACGCCTGTAATCCCAGCACTTTGGGAGGCTGAGGCAGGTGGATCACAAGATCAGGAGTTTAAGACCAGCCTGGCCAATATGGTGAAACCCTGTCTCTACTAGAAATACAAAAATTAGACAGGCGTGGTGGCAGGCAACTGTAACCCCAGCTACCCGGGAGGCTGAGGCAGGAGAATTGCTTGAACCCGGGAGGTGGACGTTGCGGTGAGGCGAAAATCGTGCCATTGCACTCCAGCCTGGGTGACAGAGTGAGACTCTGATTCAAAAAAAAAAAAAAAAGAAAAAAAGAAAATGAAACACTGATTTAGATTATCTAAATGGTGGATTTCCAACTTTTGAGTATGGAGAACCCCTTTTTAAGATAGATAGATGATAGATAGATAGATAGATAGATAGATAGATAGATAGATAGATAGATAGATAGATGATAGATAGATAATCAGACATCCATGTGATTGGATTGTGTTTAGTGTCCACTGATTTTTTTAAGTGATATACAATGGGAAGAAGCTACTTTATGTCAGTAATACTTTTAATTTCTGTGTTATTAATCCTGTCAATGTCTGTATTCATTTTTTAAATAGAACACTAGAAGAGTAGGACATAACACTTTCTTAGTCTATAGCTCTTGTATGGTGAGGTTTTGGATTTGCAGAAACTCTATGGCCACTCAAGGGCCTGTGGATCTGAAGTTGGGAATCATTGATCTAGATGACAGAAGATGCCCTAGATTGTTGTTTTCCATTGGTTTATATAAACCCTGAACAATGAGGATTCCCTTGATGGTGGCTGGAAACTCATCCCCCAGGCTGCACTTATGAGGCTCTCTCAAGAAGAGGGTCAGCTGGATGCAGTGGCTTATGCCTGTAGTGCCAGCTACTTGGGAGGCCAAGGTGAGAGGATTGCTTGAGCCCAGGGGTTCGAGGCCAGCCTGGGCAACATAGGGATACCACCCCCCCCGACCCCCCGCACCATCTCTAAAAAGAATGAAAGAGTGTCTTCTGGTCTCCTGCCCTCATGAAGATAATCTTTATTCTTCCATAG
Seq C2 exon
ATTTTTATGACATCTGCGACGAGGACTGCCATGGCAGCTGCTCAGATACCAGCGAGTGCACATGCGCTCCAGGAACTGTGCTAGGCCCTGACAGGCAGACATGCTTTG
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000138315:ENST00000334011:2
Average complexity
IR
Mappability confidence:
NA
Protein Impact

ORF disruption upon sequence inclusion

No structure available
Features
Disorder rate (Iupred):
  C1=0.016 A=NA C2=0.000
Domain overlap (PFAM):

C1:
NO
A:
NA
C2:
NO


Main Inclusion Isoform:
NA


Main Skipping Isoform:


Other Inclusion Isoforms:
NA


Other Skipping Isoforms:
Associated events
Other assemblies
Conservation
Chicken
(galGal4)
ALTERNATIVE
Chicken
(galGal3)
ALTERNATIVE
Zebrafish
(danRer10)
LOW PSI
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
ACCATGTGAATGGGGAGTGGT
R:
ATGTGCACTCGCTGGTATCTG
Band lengths:
342-1680
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