DreINT0136031 @ danRer10
Intron Retention
Gene
ENSDARG00000091936 | si:ch211-135f11.5
Description
si:ch211-135f11.5 [Source:ZFIN;Acc:ZDB-GENE-060531-16]
Coordinates
chr5:23335970-23337120:-
Coord C1 exon
chr5:23336985-23337120
Coord A exon
chr5:23336686-23336984
Coord C2 exon
chr5:23335970-23336685
Length
299 bp
Sequences
Splice sites
5' ss Seq
CAAGTAGGT
5' ss Score
7.33
3' ss Seq
TCCCCCTATTTGATTTTCAGATA
3' ss Score
10.09
Exon sequences
Seq C1 exon
GAACAGATGGCCAAGTTGACCTAACACCATGGTTAGCCCCAATTGTTTGGGAAGGAACTTTTAATCCCAAACTGATTGATTCAATCTACAAACAACAAAACATCACTTTAGCGATGACTGTCTTCGCTCTTGGCAA
Seq A exon
GTAGGTTCTCTTCTCTACTTTCTCATTCTCTCTTCATCATCCTCTCTTTTGACTTTAAATAAAGACACCTACAAGATATTTACTAAAATAATTGTTTGTTAAAACACAAGCTATTTTTTATTTATATATAATTAACATGCTAGAAATAATGCAAGCTGTTTAGATTTTTTATTGTTCAGTCCATCCATCTTCATTTTTCAGACCTGCATGGCCAAAGAAACTTGATTTTCACAAAATTGTAATTATATATATGAAATGTAATGTGTAAAATTATTTTGCTCCCCCTATTTGATTTTCAG
Seq C2 exon
ATATACAGTGTTTCTTCAAGATTTCCTGGAGTCTGCAGAGCAACATTTTTTTGTTGGGTTTCGTGTGCATTACTATGTCTTCACCGATCATCCTGAAAAAATTCCTAATGTGAAAATAGGTGGAAAACGTAAACTGATAGTGATGACAGTCAATAGTTCGAGCAAATGGCAGGAGATGAGTTTGGGCAGGATGAAAAGGCTGGAGATGCTGATTGAGAGTGGACTGGTCAATGATGCTGACTATCTTTTCAGCCTTGATGTGGATACAAAGTTCTAAGGCCGCTGGGGAGCAGAGACTTTGGGTGATCTTATAGGTGTGATACATGCATGGTATTATAATTCTCCATGTGTGCTATTTCCATATGAGCGAAGGCCTGAGTCTCAAGCGTTTATTCCTTATTCTGAGGGTGATTATTATTACGGTGGAGCTGGTTCGGTGGGTACGGTGGTTCAGTGAAGTGCGTATATCAGCTTGCTAAAAGCTGTCGAGAGCAGCTGGACATTGATGCAGCTAAATCCATTGAGGCAGCATGGCAGGAGGAGTCCCATTTGAACAAGTACTTCCTTTATAACAAACCCAGTAAACTGCTTTCACCCGAATATTCTTGGGATGACCAAAAAACAAAACCACGAGAGATCAAAATCATTAGATTCTCACAAGTTCTTAAAAACTATGCTGAAGTTCGTCCAAACACATAAAATCTTTTAAGTGAAGA
VastDB Features
Vast-tools module Information
Secondary ID
ENSDARG00000091936:ENSDART00000143279:1
Average complexity
IR
Mappability confidence:
NA
Protein Impact
Alternative protein isoforms
No structure available
Features
Disorder rate (Iupred):
C1=0.000 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF034148=Glyco_transf_6=PU(32.4=95.7)
A:
NA
C2:
PF034148=Glyco_transf_6=PD(66.9=97.8)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Rat
(rn6)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
GACTGTCTTCGCTCTTGGCAA
R:
CCAGCGGCCTTAGAACTTTGT
Band lengths:
307-606
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]