HsaINT1008077 @ hg38
Intron Retention
Gene
ENSG00000204248 | COL11A2
Description
collagen type XI alpha 2 chain [Source:HGNC Symbol;Acc:HGNC:2187]
Coordinates
chr6:33172050-33172378:-
Coord C1 exon
chr6:33172289-33172378
Coord A exon
chr6:33172104-33172288
Coord C2 exon
chr6:33172050-33172103
Length
185 bp
Sequences
Splice sites
5' ss Seq
GCTGTGAGT
5' ss Score
7.39
3' ss Seq
CCCAAATGTCTGGTTCATAGGGT
3' ss Score
6.16
Exon sequences
Seq C1 exon
GGTGACCCTGGTCCCCCTGGGGCCCCAGGGAAGGATGGTCCTGCTGGTCTGAGGGGATTCCCAGGAGAGAGAGGCCTCCCAGGCACTGCT
Seq A exon
GTGAGTGTGACTCCCAGACCCCTGCCTGTCACAAGCACCAAGCATCCTGAGTCCCCACCCCGACCCTGTCCCTGACCCCCTCCATGTCACTCCCCACTTCCATCTTTTGGAGCCTGTCTTCCCTCTCCAGCTCTCACCCTTCTCTTTTCGTGAAGTCTCATCTTCCCCAAATGTCTGGTTCATAG
Seq C2 exon
GGTGGACCTGGTTTGAAGGGGAATGAAGGTCCGTCTGGCCCCCCTGGCCCTGCA
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000204248:ENST00000374708:38
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(35.8=100),PF0139113=Collagen=PU(43.9=96.7)
A:
NA
C2:
PF0139113=Collagen=PD(13.6=61.1),PF0139113=Collagen=FE(25.8=100),PF0139113=Collagen=PU(25.8=94.4)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
GGTGACCCTGGTCCCCCT
R:
GGCCAGACGGACCTTCATTC
Band lengths:
130-315
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- Autistic and control brains