HsaINT0039568 @ hg19
Intron Retention
Gene
NA
Description
NA
Coordinates
chr3:130158366-130159669:+
Coord C1 exon
chr3:130158366-130158459
Coord A exon
chr3:130158460-130159009
Coord C2 exon
chr3:130159010-130159669
Length
550 bp
Sequences
Splice sites
5' ss Seq
ATGGTAAGA
5' ss Score
9.48
3' ss Seq
GTCTCTCTGTGTGTTTTCAGATA
3' ss Score
11.85
Exon sequences
Seq C1 exon
TTTGACAACACTGGAACATTTCAGGTGATTCCAGTTCCTCCAAATGGGGAAAATCAAACATTAGAAAGACTTCGGCGCTGTGCACTTTGCTATG
Seq A exon
GTAAGACCAATGAAGAGAATTGACTGTGCTGAAGAGCTTAAATGCCTTCTAGATGAGTTATTGAATGTGGTTTTATCCAGAGATTTCTATTTTTAATCATAGGTTCTATTTTCAGTTTTCTAGTTTTTCAATACCATATGTCATGGTTTCAATCTCTGGAATGTTTGGAGTTTCCATAGAATGTGAAAATTGGTTTAGAAAATTATCCCAACCAATGTAGCATTTCTTGGGGACAATTGGGTAGTTTGTATCAGAAGTCTCTAAAATATCAAAAATATTTCCTAAATGAGCTTGGACATGACTTGTACACTGCAGGTATCTGTGCTACCTACATCTGCTTTCAACAAAGCCCTTCCCTTATTGTCTGCTAGTGCCCGGAGAAGTACCGGGACATTGAAAATTTCTCATTAATTTAAATTATGTGAGATCAAAGAGATATTGATCAAATTATAATTCTTGGTAATTAGTCACTGAGTCACTTGAAGATCTCAAACAAGTGTCTTGTTGGGTCAGTGTTGAACCAATGATGTGTCTCTCTGTGTGTTTTCAG
Seq C2 exon
ATAAATGTTTTCCAAATGCTTGCATTCGAGAGGCTTTCTTACCTGAAGATTCATACATGGATGTAGTCTTCCTCATAGACAATTCTCGGAATATAGCAAAGGATGAGTTTAAGGCTGTGAAAGCCTTGGTGAGCTCAGTGATTGACAACTTCAACATTGCTTCAGACCCTTTAATCTCAGACTCTGGTGATAGGATTGCTTTGTTGAGCTATTCTCCTTGGGAAAGTTCCAGGAGAAAGATGGGTACAGTAAAAACAGAGTTTGATTTCATCACTTATGACAACCAACTCCTAATGAAGAATCACATCCAGACTTCCTTCCAACAGCTAAATGGAGAAGCAACAATTGGTCGTGCCCTACTGTGGACCACTGAAAATCTTTTTCCAGAAACACCCTATCTAAGAAAACACAAGGTCATCTTTGTGGTCTCAGCTGGAGAAAATTATGAGAGAAAAGAATTTGTAAAAATGATGGCTTTGAGGGCTAAGTGTCAAGGCTACGTCATATTTGTGATTTCTCTGGGCTCTACACGTAAGGATGACATGGAGGAGTTAGCCAGCTACCCACTTGATCAACACCTGATACAGCTTGGGAGAATACATAAACCAGATCTGAATTATATTGCGAAGTTCTTAAAGCCATTTTTATACTCGGTCAGGC
VastDB Features
Vast-tools module Information
Secondary ID
-COL6A5:NM_153264:34
Average complexity
IR-C
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
Associated events
Other assemblies
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
GCGCTGTGCACTTTGCTATG
R:
GCTGTTGGAAGGAAGTCTGGA
Band lengths:
347-897
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)