HsaINT1008065 @ hg38
Intron Retention
Gene
ENSG00000204248 | COL11A2
Description
collagen type XI alpha 2 chain [Source:HGNC Symbol;Acc:HGNC:2187]
Coordinates
chr6:33175574-33176069:-
Coord C1 exon
chr6:33176016-33176069
Coord A exon
chr6:33175682-33176015
Coord C2 exon
chr6:33175574-33175681
Length
334 bp
Sequences
Splice sites
5' ss Seq
AGGGTGAGT
5' ss Score
9.25
3' ss Seq
TGTCCTTCCCTCTCACACAGGGC
3' ss Score
11.36
Exon sequences
Seq C1 exon
GGTGAGGATGGCTTTCCTGGGTTCAAAGGTGACATAGGCGTGAAAGGTGACAGG
Seq A exon
GTGAGTAGAGACCCCACACTGGCCCCAATTCCGTGTTCTACTGAGCCTCCACTCTGGAGACGCCAAGCACCGGTTTATTCTCCTGAGTCTCCAGACTCCACAGTTCCAGTGCTGTGTTCCCTTGGGAGCCTGACCCCTACAGGATGATAGCCCCATGGTCTGTGTCATGCCTGCCCTCCCATCACTACACTATCCCTACCCTGTGGGCTTCCTGTCCTGCAGTGGCTCCTGGGACCCCTCTAGCCCTCCTCAGCCTCACTGTTGCCCATTTCTCCTCTGGGCCCAGAGCCCACCTCCAGTCCCCAGCACTCACCTGTCCTTCCCTCTCACACAG
Seq C2 exon
GGCGAAGTTGGAGTCCCTGGTTCCAGGGGAGAGGATGGTCCTGAGGGGCCAAAGGGACGCACTGGACCGACTGGAGACCCTGGGCCCCCAGGGCTCATGGGCGAGAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000204248:ENST00000374708:27
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=1.000 A=NA C2=1.000
Domain overlap (PFAM):
C1:
PF0139113=Collagen=FE(26.6=100)
A:
NA
C2:
PF0139113=Collagen=PD(7.1=16.7)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
No suggested primer sequences
R:
No suggested primer sequences
Band lengths:
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- Autistic and control brains