HsaINT1036236 @ hg38
Intron Retention
Gene
ENSG00000259588 | RP11-552E10.1
Description
NA
Coordinates
chr15:47603880-47605352:-
Coord C1 exon
chr15:47605282-47605352
Coord A exon
chr15:47604186-47605281
Coord C2 exon
chr15:47603880-47604185
Length
1096 bp
Sequences
Splice sites
5' ss Seq
CATGTAAGG
5' ss Score
6.57
3' ss Seq
TTTGATCTTTATCCTTTCAGAAA
3' ss Score
9.31
Exon sequences
Seq C1 exon
ATCACTCATTGTGGAAGAAATCTGATGCCATGTCTTGAGGACACTCAAGTGGCCTATGGAGAGGCGAACAT
Seq A exon
GTAAGGAATTGAGCCTCCTAGTAATAGATAATGAGAAGCAGAGGGCTCTGCTAACAGCCATGTTAATGAGCCCTTGGGGAAGTGGACCCTCCACTCCCAGCCCAGCATTCAGATGGCTGAGGTACCAACATCTTAGATTTGCCTCCTGAGAGACCTTGCACAAAACCACTCTCAGATTCCTGACTCTCAGAAACTATGTGAGACAGCATGTGTTTGTTTTAAGCTGTGAAATTTCAGGGATATTGGTTACACAGCAGTAGATAACTATTACAGTGAGGCCGGGTGCAGTGGCTCACGCCTGTAATCCCAGCACTTTGGGAGGCTGAGGCAGGCAGATTGCGAGGTCAGGAGATGGAGACCATCCTGGCTAACATGGTGAAACCTTATTTCTACTAAAAATACAAAAAAAAAAAAATTAGCCAGGCATGGTGGTGGTGGGCGCCTACAGTCCCAGCTACTCGGGAGACTGAGGCAGGAGAATGGCATGAACCCAGGAAGCAGAGCTTGCAGTGAGCCAAGATCATGCCACTGCACTCCAGCAAACTATTACAGTGAATAATTCCTTATAGCTACTCCATTTTACAGGCATTGTCATAAAATCCACCAAGGATGGATCCTAGAGTTTTAAAAGAGAAAGAATCTAACAAATTACTCTCTGAATTTCAAACACAACAAATATTGTAAGTGTAACATATATTGTATGTTAATGAAAATTCTGAGTATTTAAAATAGTTAATTCAATTTGACAAAGTTTCAAGTTTCAAGACGTCTCCTGGACTACTTCTTCCATAATTTTAATTGAAGCTATTAGCATATCCCTGTTTAGTTGTCTTTAAATAAGTAGTGGAAGGATACCCACTTCTACCCCTAAGAAATGAAATAGCTTAAGACTTTCTAGGCTTTATTTTTCTCTTAAGTTTATCGGACCGGATGGATTGTAGAGTCTTTTTAGGTATTACATACTGTAATAACAATTACGTGTTAAGCACTTTCTTTATGTAAAGCTTTAGTCCACAAACTTGGATGTGAAAGAAATGTTTCTCTTCTTTATTTTTTAAAGTCAAATTAATTTGGTTTTTGATCTTTATCCTTTCAG
Seq C2 exon
AAAGACAAGAAACCCAATCTCAAGCACTATGAGACTCCCTCCTCTCCATCTCCAAGGGTCAGGCCATGGTCTTAGTCATTGCCAAGAGCATCACAGAAGGCCTCTGCCTCCGGTTCCTACCTGGGCCCTTTCTATGCTCGTTAACTGATGCTGCAGCCTGACTTCTTCAAGACTAAGTTGGGCTGTATGCTTGCAGTCATGGGAGGAAAACAAAAGAGGGTATAAACACAATGCAATGCCTCGACACATCACTCCATCTCAGGGGGTCAGAAAATAAATTAAATGTTAGGAAAAACAGAAAAGAAA
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000259588:ENST00000558185:2
Average complexity
IR
Mappability confidence:
NA
Protein Impact
NonCoding
No structure available
Features
Disorder rate (Iupred):
C1=NA A=NA C2=NA
Domain overlap (PFAM):
C1:
NA
A:
NA
C2:
NA
Main Inclusion Isoform:
NA
Main Skipping Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Mouse
(mm10)
No conservation detected
Mouse
(mm9)
No conservation detected
Rat
(rn6)
No conservation detected
Cow
(bosTau6)
No conservation detected
Chicken
(galGal4)
No conservation detected
Chicken
(galGal3)
No conservation detected
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
CACTCATTGTGGAAGAAATCTGATGC
R:
TTTCTGACCCCCTGAGATGGA
Band lengths:
342-1438
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- Autistic and control brains