HsaEX6032464 @ hg19
Exon Skipping
Gene
ENSG00000060718 | COL11A1
Description
collagen, type XI, alpha 1 [Source:HGNC Symbol;Acc:2186]
Coordinates
chr1:103342023-103347321:-
Coord C1 exon
chr1:103347253-103347321
Coord A exon
chr1:103345239-103345472
Coord C2 exon
chr1:103342023-103343721
Length
234 bp
Sequences
Splice sites
3' ss Seq
TTTTATTCCTTTATTCCTAGCTT
3' ss Score
6.54
5' ss Seq
GCGGTGAGT
5' ss Score
10.49
Exon sequences
Seq C1 exon
GTAAGAATTTCATCATGGCCAAAGGAGAAACCAGGAAGTTGGTTTAGTGAATTTAAGAGGGGAAAACTG
Seq A exon
CTTTCATACTTAGATGTTGAAGGAAATTCCATCAATATGGTGCAAATGACATTCCTGAAACTTCTGACTGCCTCTGCTCGGCAAAATTTCACCTACCACTGTCATCAGTCAGCAGCCTGGTATGATGTGTCATCAGGAAGTTATGACAAAGCACTTCGCTTCCTGGGATCAAATGATGAGGAGATGTCCTATGACAATAATCCTTTTATCAAAACACTGTATGATGGTTGTGCG
Seq C2 exon
TCCAGAAAAGGCTATGAAAAGACTGTCATTGAAATCAATACACCAAAAATTGATCAAGTACCTATTGTTGATGTCATGATCAATGACTTTGGTGATCAGAATCAGAAGTTCGGATTTGAAGTTGGTCCTGTTTGTTTTCTTGGCTAAGATTAAGACAAAGAACATATCAAATCAACAGAAAATATACCTTGGTGCCACCAACCCATTTTGTGCCACATGCAAGTTTTGAATAAGGATGGTATAGAAAACAACGCTGCATATACAGGTACCATTTAGGAAATACCGATGCCTTTGTGGGGGCAGAATCACATGGCAAAAGCTTTGAAAATCATAAAGATATAAGTTGGTGTGGCTAAGATGGAAACAGGGCTGATTCTTGATTCCCAATTCTCAACTCTCCTTTTCCTATTTGAATTTCTTTGGTGCTGTAGAAAACAAAAAAAGAAAAATATATATTCATAAAAAATATGGTGCTCATTCTCATCCATCCAGGATGTACT
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000060718-'74-78,'74-77,75-78=AN
Average complexity
A_S
Mappability confidence:
100%=100=100%
Protein Impact
Alternative protein isoforms (Ref)
No structure available
Features
Disorder rate (Iupred):
C1=0.087 A=0.000 C2=0.000
Domain overlap (PFAM):
C1:
PF0141013=COLFI=FE(10.4=100)
A:
PF0141013=COLFI=FE(36.3=100)
C2:
PF0141013=COLFI=PD(21.2=91.8)
Main Skipping Isoform:
NA
Other Skipping Isoforms:
NA
Associated events
Other assemblies
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
TCATGGCCAAAGGAGAAACCA
R:
TCCTTATTCAAAACTTGCATGTGGC
Band lengths:
293-527
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)