DreINT0138734 @ danRer10
Intron Retention
Gene
ENSDARG00000077905 | si:ch211-236p22.1
Description
si:ch211-236p22.1 [Source:ZFIN;Acc:ZDB-GENE-050419-118]
Coordinates
chr16:47901132-47903343:-
Coord C1 exon
chr16:47903152-47903343
Coord A exon
chr16:47901271-47903151
Coord C2 exon
chr16:47901132-47901270
Length
1881 bp
Sequences
Splice sites
5' ss Seq
TTGGTGAGA
5' ss Score
6.29
3' ss Seq
AAGTAATCATTATCTTTCAGCTC
3' ss Score
5.39
Exon sequences
Seq C1 exon
GTTCAGTTGCGACCGCCTGCAGGGATCCTGGGACGCCCATGAATGGCAGCCGCAGCGGAGAAGGGAAGGAACCAGGCGACACCATGACCTTCGCGTGTGATCCGGGCTACGACCTCCAAGGCGAACCCAGAATCACCTGCATTCAGGTGGACAACAGGTTCTACTGGCAGCCCAGCCCGCCAACCTGCATTG
Seq A exon
GTGAGATTTATTATCTGTTTTATCCATTTTCATTCTTTTACTTTTTATTGCTTATTTTACATTTTTATTGCTTATTCTTGTATTCCTATTTACAGTAGGGGAAATAAGTATTGATCACGTCACGATTTTCCTTAGAAAACATATTTCTAAAGGGTCTGTTGACTTGAAATATTCCCCTGACATTGGGAACAACCAAATAAATCCATATATGCAAAGAAAACAAATCGAATTAGTTTACAAATTTAGTTATGCATAATGAAATTGGGCGTGGCTAACATACTTAAACACGCCCCACATATCAGTTTTGACAGCAAAGGGAATAGGTGAGCAGGAAGAGTCTGTTAGGTTGCAATTCCTCTTCCAAAACCTTTTCCCCATCTTTCTGAATGAAATGCCTACTTTATTACATCCAATCAGCTCGCAGTAGATAAAACAAGCCACGCCCACTGTTTTTTTTTATTTAATATTCCATTTCTCTAGCACGTGATTCTCAAAGTGGGGGTCGGGACCCACCAAGGGGTCGCAGGACAATGAAGGGGGGGTGATTTCAAAAAATCTATTTAGATTTAATAAACCATAACCACTACCATAATTTATCCATAACCTACTGAAGAGAAAAAAATAGTCGTTTATAGTTGCTGTATAGTTACTATAGTAGCTTATAGTTACTACTTCTGTTGGATTGCGACCCCTGAGGCAATTACATTATATTAAAGACACGGCAATAGCGTCAGATGCAGCAGCTTGACTTTATAACACAAGGACTTTATAACACCAGGTTAAATGTTCTGGCCCGTTTACAGCACTGACATCCATAAAGAAAATAAACAAAGAATAGACTTCAGTAAATTGGTGTGTGTGCGCGCCATTGCATGCAAGGTTTCTGTATTTATAACCACCTCAGAAAATATTGGGGGTCGCGGGTCACTGGCATTGTCATTTTGGGGGTCGCGGGCTGAAAAGTTTGGGAACCCCTGCTCTAGCATAACAATATGAAAAAAAAAAACAAAAACATATTCTAGTTCATGCGGTCCTTAAAATATGGACATTAATTTTACCCCAGTATTTTTAATGGCGTTTTTGCGCTCAACTGCTGCTGACGGCACTTGGGTTTAAACGGTTTTTCATCTCATTTTACCCTTGAACACCTAAATGAATGCTTTAGTCTATTTAACTGATTGTATTTTAATTACATTACAACGTCGATTCTGTAAAAGGAACCTTATGAAATTAAAAACACTCACATAAGCCTTTCACCAGAAGTTTTTTTGGGGGCTGAAAAACACTGCATATACGCCATTTGCAGCAGTTGTGCCGCATGAGACCCGTAATACACAGACAGCCCCTCATTTCACACTTGTCAGCTCTGACGGACCAAACGTCTAAAATAACTAGCCTGAATCACCCTTTATAAAAGGGCCCGGAATAATAAATCTCTTTGATGGAAATTTCTGATCACTTGCCCAGTCAGCGCTTAAACTTCTAGGTTATTGGAAACTAGGGTGAAGACTTCCCATGATAAATGCTTCTGGGGAGCTGCGTTTATTCCGTGGGAGTCTGCAGAACCTATTTTCCTCAACTTTGAGTCACATTTAGACGTTTTAAAGGTCAAGACAGCTTTTTAAAAGCCAGACCTGGAAGCTTATAGATGGTTTGAGCAGTGTGGGGAGGGTGGGCACTTGTCAGATTTTCTCATGAATATTAATGATATTGTTTAAATTCCAGACTCATAGCTTGCTATGTAATGATATTATAAGTATTGTGATTTACATATAAGAAATCTAGCGATTTTGAGATTATATGGCAGTTCTTGCACACTAAGAGGAGGAAATGTCGGATGTGCTTTATTAGCGCTAATGGAAAGTAATCATTATCTTTCAG
Seq C2 exon
CTCCTTGTGGTGGAAACATTACTGGCTCATCTGGATTCATACTGTCTCCGAATTTCCCTCATCCGTATCCACACAGCAAGGACTGCGACTGGTTCATCACGGTTCACCCTGACTATGTCATTTCCTTGGCTTTTATTAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSDARG00000077905:ENSDART00000148564:26
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.308 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF0008415=Sushi=WD(100=87.7)
A:
NA
C2:
PF0043115=CUB=PU(41.5=93.6)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
GTTCAGTTGCGACCGCCTG
R:
AAAAGCCAAGGAAATGACATAGTCA
Band lengths:
326-2207
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]