HsaINT0016730 @ hg19
Intron Retention
Gene
NA
Description
NA
Coordinates
chr1:171492574-171494104:+
Coord C1 exon
chr1:171492574-171492661
Coord A exon
chr1:171492662-171493959
Coord C2 exon
chr1:171493960-171494104
Length
1298 bp
Sequences
Splice sites
5' ss Seq
CAGGTAAGT
5' ss Score
10.86
3' ss Seq
TCTGCATTTTGATTTTTCAGTGA
3' ss Score
8.24
Exon sequences
Seq C1 exon
GTGCTCAGATGGAAGTAGATTATACAGAGCAACTGAATTTCAGTGATGATGATGAACAAGGAAGTAACAGTCCTAAAGAGAATAACAG
Seq A exon
GTAAGTTGTGATATCTTTTACTAATAACAGTATGAATTTGTTGATACAATATTAGCTACTTATGCAAAGAAGCTTTGTTAATAGACAATTGTTTGTTATTTGTAGAATTTATATATTCTCAGAAGTTTTACTGAATAGAGGGTGCTTAATGAGCTAGATTAATACAGTATACAGCTAATCAAGGAATTAAAATTTGATGCGTCTCAAGAAAGTTTATTTAAAAACATTTAGGGCTGGGTGCGGTGGCTCACATCTGTAATCCCAGCACTTTGGGAGGCCGAGGCAGGCAGATCACTTGAGGTCAGGAGTTCGAGACCAGCTTGGCCAACATGGTGAAACCCCATCTCTACTAAAAATACAAAAATTATCCAGGCGTGGTGGTGCATGCCTGTAATCCCAGCTACTCAGGAGGCTAAGGCAGGAGAATCACTTGAATCCGGGAGGCGGAGGTTGCAGTGAGCCAAGATCATGCCACTGCACTCCAGTCTGGGTGACAGAGCAAGACTGTATCTCAAAAAAAAAAAAGATATTTAGATGCTTGGCACCTAGTTTGGAGATCTTTTGAGAACTGGTATTAGGAACAATTTTTTAAACTGTTACTTGCTTGACCTGATCTGTATTTACAAAATTGGAGAATAATTCCCTGGGTTACTACAGCTTTTTCAGGTCCTCGATTTCTTAAAACTTAGTAAACTGCATTAGGGCCTTGGAAAATGGGGAGCTTTTTATTTCTTTTTCCTTCATTCTGGAATATTGGAGCACCAGTCAGGAATATATGGGTTATATATCATAAAAGTTGGGCTTTTAAAATATATGGAAGTTTGGAAGCACATTTGGTATAATTTTTCAGTTATGGCATTGTGACAAACATCGTTTTATGATCGTTTAAGAGATACCTGTGGTTTGTCGTGGCTTTGAAAAAATACTGTAGTTTGATTTATCTTTTTATTAAATCAGAATAAATTAGAATGCAGTTAAATAATAATTCCAATATTACCCAGTTACATTTGGATTGTATTTCTTATGTAGAGGAGATAGGAAATGATGTGATTATATTCTTTTGCCAGGATATATGCCTGACATGTGTGTTTAGATTTGACAACTACTGTATTGCACTTTCATAGTATATATTTATTGAAAGAACAAATTAGCACTAATGGGTCACACACCCATCTCATTCCTTAATACATTTCCCCCCCCAGAAACCATACAGAAATAATTTTTTTAATTGCAAAAATAATGTGTGTACTTATGATACAGTTGGTCCACTTTATTTCTTCTGCATTTTGATTTTTCAG
Seq C2 exon
TGAGGATCAAGGTTCAAAAGCCTCTGAAAACAACGAAAACAAAAAAGAAACAGATGAAGTTTCCAACACTAAATCATCTTCCCAAATACCTGCCCAACCATCAGTAGCAAAAGTTCCCTATGGGAAAGGACCTTCATTTAATCAG
VastDB Features
Vast-tools module Information
Secondary ID
-BAT2L2:NM_015172:9
Average complexity
IR-S
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
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
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
Associated events
Other assemblies
Conservation
Chicken
(galGal4)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
GTGCTCAGATGGAAGTAGATTATACA
R:
TGATTAAATGAAGGTCCTTTCCCA
Band lengths:
232-1530
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)