DreINT0034532 @ danRer10
Intron Retention
Gene
ENSDARG00000055481 | atf7b
Description
activating transcription factor 7b [Source:ZFIN;Acc:ZDB-GENE-030131-3028]
Coordinates
chr6:39633097-39633645:-
Coord C1 exon
chr6:39633502-39633645
Coord A exon
chr6:39633173-39633501
Coord C2 exon
chr6:39633097-39633172
Length
329 bp
Sequences
Splice sites
5' ss Seq
GCGGTAGGT
5' ss Score
9
3' ss Seq
TCTCTCTGAATGGTGTTTAGAAG
3' ss Score
3.81
Exon sequences
Seq C1 exon
CGAGAAAGGACTTACGACAAATCTCCGACGTCTTATCGCTTAGTTAAAATGATTCCAGTTGCTTTAATACAGTTAAGAGGGGAGTGATTTGTTTGCAGAGATCTTTCTGGATATAATTAGAAAGGAAACGCATGCTAGCTAGCG
Seq A exon
GTAGGTGTTAGTATGATGTAGCTGTTGGTTTGAAGCTGTTAAATTGAGCGGAAATGTTCTTTAAACAGGGACGATCTCCGACAATAGTCAAATGAAGCGTCTTATCGTGTAATCGTCATGCACATTATGCAATCAGATGAACCCAGCAGGCCTCGGTGCAGCAGGGATTCCTGTCATCTGTCAAAAGACTCCACAACATTACAAATGCAAAGTTTGGGAGGGGATTCTTGTTTTAAATGACGTTCAGATTGTAAAAACTGAGCCGTAAATGGGGTTTTACTGATCCTAGTAATGAAAAATCATAACTGTTCTCTCTGAATGGTGTTTAG
Seq C2 exon
AAGTGACACAGGAAGTAGTTGATCTAAAATGGGAGACGATCGACCTTTTGTCTGCACTGCCCCAGGTTGTGGACAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSDARG00000055481:ENSDART00000136076:1
Average complexity
IR
Mappability confidence:
NA
Protein Impact
5' UTR
No structure available
Features
Disorder rate (Iupred):
C1=NA A=NA C2=0.312
Domain overlap (PFAM):
C1:
NA
A:
NA
C2:
PF0009621=zf-C2H2=PU(36.0=56.2)
Main Inclusion Isoform:
NA
Main Skipping Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Conservation
Mouse
(mm9)
No conservation detected
Chicken
(galGal3)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
AGGACTTACGACAAATCTCCGAC
R:
CTGTCCACAACCTGGGGCA
Band lengths:
214-543
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]