DreINT0048971 @ danRer10
Intron Retention
Gene
ENSDARG00000012422 | col11a2
Description
collagen, type XI, alpha 2 [Source:ZFIN;Acc:ZDB-GENE-000208-23]
Coordinates
chr19:7278850-7279692:-
Coord C1 exon
chr19:7279606-7279692
Coord A exon
chr19:7278907-7279605
Coord C2 exon
chr19:7278850-7278906
Length
699 bp
Sequences
Splice sites
5' ss Seq
CGGGTTAGT
5' ss Score
4.94
3' ss Seq
AATCAATTTGTTCTGCATAGCTT
3' ss Score
4.78
Exon sequences
Seq C1 exon
TTCCGCTTTGGACAGAGCGCTGGAGAGAAAGGACCTGTTGCCTCTGCACAGGAAGCCCAAGCTCAAGCCATTCTGTCTCAAGCTCGG
Seq A exon
GTTAGTCCAAACTATGAAATAAAAATCAGCTTAACATTGATTTATTACTTTTCACATTCAGGTCTGAAGGCCTGTTAACACCAAGCACAATAACTATAATGATAACTATAGACATTGTTCTAAAAATCATTCTGAATGTAAACAACAGTTTCAGAGCAGTTCAGACCACAGCTACAATGATAAAGATAAATGATAAAACAACCAGTCAGAATCCAATGAAATATGTTTAAAGCAACAGCCGTCTCAGAAACAATTGGTTGTACCATGGAAAATAATGCTAAAAATAGATGCAAGCCAGGTTAGCAAACTAAAGCATAAAAATTAAAGTAGCTCAGGTATTCAGTGCTAACATCAGAATCTTTGTGTTTTTGTCCTTTGAAAATAATGAGGTGGAAATAATTTATGTAGTTTTTGTTCCACTACAAGAACTATGATTGCTAAATTCACTGTTTGATTAAGTTACACAAGCTGGATTCACTGGTCAAATGTGCTAGAAGCACACTGAGGACATCTACTGGTTGCAAGGGAGTAATGCGAAAAAACAGTACCTAAAAATAAACAGATTGTTACTGTTCATCAGTGTGGACACATATATGTTTATCATTATATTTATGGTTTTTGTGCTTTGTGTGATCGGGCACTAACTTTACACATCCTAATTTACATCTTTAATTAACTTAATCAATTTGTTCTGCATAG
Seq C2 exon
CTTGCCCTGAAAGGACCATCCGGGCCAATGGGTTTCACTGGCCGTCCTGGACCTTTG
VastDB Features
Vast-tools module Information
Secondary ID
ENSDARG00000012422:ENSDART00000104799:13
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:
NO
A:
NA
C2:
PF0139113=Collagen=PU(25.8=84.2)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
Associated events
Conservation
Human
(hg19)
No conservation detected
Chicken
(galGal3)
No conservation detected
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]