DreINT0048871 @ danRer10
Intron Retention
Gene
ENSDARG00000026165 | col11a1a
Description
collagen, type XI, alpha 1a [Source:ZFIN;Acc:ZDB-GENE-070209-167]
Coordinates
chr24:28738424-28739218:-
Coord C1 exon
chr24:28739174-28739218
Coord A exon
chr24:28738478-28739173
Coord C2 exon
chr24:28738424-28738477
Length
696 bp
Sequences
Splice sites
5' ss Seq
AGAGTAAGT
5' ss Score
9.35
3' ss Seq
TGCATTCCTGTCTGTTCCAGGGC
3' ss Score
11.39
Exon sequences
Seq C1 exon
GGAACAGCAGGCAACGACGGTCCACCTGGCCCACCCGGTGAGAGA
Seq A exon
GTAAGTGCCACCCAGAATGCATTGCAGTTGACAACATTTTATCCCGTCATTGCATCAATGGCGATGGTGTGCGGCTTGAAGCGCTCCAAGAGGGTGCTTTCGCAGGAGGTGCAGTGAAGATTAGCTCAGCATGTGGGTGTACTCCAGATAAGAGGACTTACCACCAGACTGCTGTTTTCGTCTGGAAGCTATTATAGATTTATGAAGAACTCTTGAGCATTAGACCACTGGAAGGCTGTTGTCCAAGGCTCACATCAGATGAAATCTGATGTTGTACTGTTTATCTCTTCCATGGAATCCGGGTCTTGTTTCTTCCTCTATTTTTCTGTAGTGTTTTACTCCTTATTTATTCCGTTTGTCAGAATCAGAAGGAGTTTTTTTTTGAAGGATCTAGACTTTACATAAGTTGCACTCCCAATGCTGTAATATTTTATTAATGTTTTGTTATTTTGAGTATTTATAAACGTTTCTCTTTTTTTTTTGGTACTTCAAAATTAGATTTAAAGACTAAAGATCAGGTCAGGTAAACATTGAATTATTCTAGCACTTATTTTAGATTCTGATCAGGCCAGATAAACCTTCACTTCTTCTTGCTCACATCTTAGATTCTGATTAGCTTTGTGCCTTATTTTTATTTTAACCAAGTTAAGAGAGTAGCCTTATCAGTAAATACACTTGCATTCCTGTCTGTTCCAG
Seq C2 exon
GGCCCTCAAGGACCCCAGGGTCCTGTTGGTTTCCCAGGACCAAAGGGTCCCCCT
VastDB Features
Vast-tools module Information
Secondary ID
ENSDARG00000026165:ENSDART00000003503:35
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:
NO
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]