DreINT0034495 @ danRer10
Intron Retention
Gene
ENSDARG00000023903 | atf2
Description
activating transcription factor 2 [Source:ZFIN;Acc:ZDB-GENE-030911-8]
Coordinates
chr9:2350976-2352702:+
Coord C1 exon
chr9:2350976-2351094
Coord A exon
chr9:2351095-2352575
Coord C2 exon
chr9:2352576-2352702
Length
1481 bp
Sequences
Splice sites
5' ss Seq
AAGGTAAAC
5' ss Score
8.14
3' ss Seq
TGTGTATATGTGTTTTGCAGTTG
3' ss Score
8.22
Exon sequences
Seq C1 exon
ACCAGACGCCGACACCGACCCGCTTCTTGAAGAACTGCGAAGAGGTGGGCCTGTTTAACGAGCTCACCAGCCCATTTGAGCATGACTTTAAAAAGGCCACGGAGGAGGACATTAAAAAG
Seq A exon
GTAAACACGCCAATTTATTCTGCAGTTCGTGCAATGGTTTAGCAGATGCGCTTGCATTCACCGATTGGGGGTCAGTAAGATTAGTAATGTTTTTCGAAGAGTCTCTGAGCTCATTAAGACATTGGTTTAATTGAAAAAAAATATACATAAATGTTGTCACTTCAAAATGACTGTTTAGGCAGCACGGCGGCGCAGTGGGTAGCACAATCTCCTCATAGCAAGAAGGTCACTGGTTTGAGCCCCGGCTGGGTCAGTTGGCGTTTCTGTGTGGAGTTTGCATGTTCTCCCTGCGTTTGCGTGGATTTCCTCCTGGAGCTCCGATTTCCCCAACAAGTCTAAAAACATGTGGTACAGGTGAATTGGGGAAGCTAAAATTGTATGTGTATGCGTGTGAATGAGTGTGTATGGATGTTTCCCAGTGATGGGTTGCAGCTGGAAGGGCATCCGCTGTGTAAAACGTATGCTGGATAAGTTGGCGGTTCATTCCGCAGTGGCGACCCCAGATTAATAAAGGGACTAAGCCGAAAAGAAAATGAATGAATGAATGAATATTTAATAAACTGTCTCTGCAATATGATAATATCATAGTACTTGTCACTATGAAATATTGTTGTAAACTATATTCTGCAAAATTTTGCAATTTATTATCTTTTTCCAACTTCAAATTATCTTCCAAAAGGAAAACTTTGGCAACATCTTTTAACTAAATTATAGTTTTCCCTGGTTTTAACTGTATATTCAGTTTATGTCATTCCAAATAAATGGGATTGTCAAGCACTTGTCAAGCACTACATACATATTTATTTATTTATTTATTTATTTTTCTTTAGATGTATTGACATGAACTCTGGACCTTTTATGTGCTCTTTGTAATTGGGATAATCAGGGAATAACACACACCTGGCCATGGAACAGCTTAGAGGCCAATTGTCTAATTATTTTTGGTCCCTTAACAAGTGGGAGGCACATATGCAAACTGTTGTAATTCCTACAGCGTTCACCTGATTTGGATAAAAATACAAGTTTTGGATTGAAATACCAATTTCAATACTCAAATTAAAGCTGACAGTCTGCAGTTAAAGCACATCTTGTTTGCTTCATTTCAAATCCCTTGTGTTAGTGTATAGAGCCAGAAAAATGTTAGAATTGTGTGTATGTCCAAATATTTATGGACCTAACTGTATATTGGGTCATATAATGGGATGTAATGTTGTCTCTGAAAATATTGCAATACTATATATATATATATATATATATATATATATATATATATAATTATTATTATTATTTATTATTGTGAGAAAAGGGAGTATTATCAAGCATTATTTGTACGTTCTTAATAAAACATTCAAACAACACAGAAGTTCAGCACAGAACACAGTGGATTAAAGGGATAGTTTACCCAAAACTGAAAAATCTGCCAACATTTACTCCTCCTTGACATGTTCCTTCTCTTGTGTATGTGTATATGTGTTTTGCAG
Seq C2 exon
TTGCCGCTGGACTTGTCTCCTCTTGCAACTCCAGTTGTTCGAAACAAAGTAGAGGAGCAAACACCCATGGAGTCGCACCGAGACAGTCCTCTTCCCCACCCAGAGTCGACTACCACTGATGACAAGG
VastDB Features
Vast-tools module Information
Secondary ID
ENSDARG00000023903:ENSDART00000135180:4
Average complexity
IR
Mappability confidence:
NA
Protein Impact
Alternative protein isoforms
No structure available
Features
Disorder rate (Iupred):
C1=0.375 A=NA C2=0.946
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:
CGACCCGCTTCTTGAAGAACT
R:
CCTTGTCATCAGTGGTAGTCGAC
Band lengths:
231-1712
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]