DreINT0034535 @ danRer10
Intron Retention
Gene
ENSDARG00000055481 | atf7b
Description
activating transcription factor 7b [Source:ZFIN;Acc:ZDB-GENE-030131-3028]
Coordinates
chr6:39624812-39625257:-
Coord C1 exon
chr6:39625127-39625257
Coord A exon
chr6:39624915-39625126
Coord C2 exon
chr6:39624812-39624914
Length
212 bp
Sequences
Splice sites
5' ss Seq
ACGGTAAGA
5' ss Score
10.65
3' ss Seq
TTTGCATTTCTTCCTTTCAGAGG
3' ss Score
10.08
Exon sequences
Seq C1 exon
ATCAAACACCCACTCCCACCCGATTTCTTAAAAATTGTGAGGAGGTGGGTTTGTTTAGTGAGCTGGCTGGTTCCTTTGAGCAAGATCTTCGAAAAACACATGAGGAGGAGGAGAGGAGAATTAAGGGCACG
Seq A exon
GTAAGATATTAATGAGGGACGTGTAGCTAGCTATGTTTCCATCCGTATTTGTGAATTCACGTGGAATGCTGCAGAAATATTTTGACTTTCAGTGTGAAAAAAAACAAAATCCTAAAATCTGGCAAACTGTCCCACATTATGAATAACAGAAATTGAAGTTCATACAGCCATTAAAACCTTTATAGTTTTCAGTTTGCATTTCTTCCTTTCAG
Seq C2 exon
AGGCAGACGCTTGAAGATGTCAGACAGTTTAATGTTGAAAATTTACCAAACCATTTAAATGAAAGTCTTTGTACCAAGTATTTCAGAATAACTAAAACAATAT
VastDB Features
Vast-tools module Information
Secondary ID
ENSDARG00000055481:ENSDART00000136076:4
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.636 A=NA C2=0.400
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
NO
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Rat
(rn6)
No conservation detected
Chicken
(galGal4)
No conservation detected
Chicken
(galGal3)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
ATCAAACACCCACTCCCACCC
R:
ATTAAACTGTCTGACATCTTCAAGCG
Band lengths:
164-376
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]