DreINT0034523 @ danRer10
Intron Retention
Gene
ENSDARG00000011298 | atf7a
Description
activating transcription factor 7a [Source:ZFIN;Acc:ZDB-GENE-050721-2]
Coordinates
chr23:27520388-27521666:-
Coord C1 exon
chr23:27521561-27521666
Coord A exon
chr23:27521489-27521560
Coord C2 exon
chr23:27520388-27521488
Length
72 bp
Sequences
Splice sites
5' ss Seq
TAGGTAAGT
5' ss Score
9.66
3' ss Seq
GCCATTTTGTGTTTCTTCAGGAG
3' ss Score
9.71
Exon sequences
Seq C1 exon
AACGAGGTGTCTCACCTACGAAACGAAGTTGCTCATCTAAAGCAGTTGCTGTTAGCCCATAAAGACTGTCCTGTCACCAACCTCCAGAAGAAAGCTGCCTATTTAG
Seq A exon
GTAAGTAGAGCTCATGTTATGGTTCCTCCACTTGCCTCTACAGGATCAAACCGCCATTTTGTGTTTCTTCAG
Seq C2 exon
GAGACGAGCACATGAAAGAGACATCCGAACCCACGGGCTCCCCAGCGCCGGTCATCCAGCACAGCTCTCTGGCCCCCAGCCCCTCGTCTGTAGTGGGACCCAATGGCCTGAGCTCTCGTGCTGCGGCTGAAGCAGTGGCCATGTCGGTGCTGGCAGGAATGGGCAGCCAGCAGGGTGGCAGTGGCGGCCCATCACACGTCATCATGGCCACACAATCCCACCCGTCCAGCAGATGATGAGAACCTGCATGAGACTCTCCACATCCTGGGAGAGAGGAGAACACACTCCCTCTTGCGCCTGGAGCTCAGCTGCATTCTGGGAATGAAACTGGGACTATTGTACACATACCCACACACACACAAACACAAACAAAATAAGAAACAAAGACGGAAGGAGATGGTCGTTCACTATGCCATAGACTACGGGGACTGGACTCCAATCCTGCTCTCTTTCGCATCCTCTGCTCCTTCCTTCAACCTCCTCCTGCTCCTCCACTGGCTGTAGGACTGCAAAGCACTTCCTGTCATTAACCGTATCCTCATAGACAGATGCACATACACATGCTGCAATAAAGACGTGCGCTCGGCGTATGTGAAATTCACACACATGCAGGCCGCGTCTCAAAGTTGTGATGATGCAATACTTTATATATTCTTATATATATGTATTAGTATGTGTGTGTGTGTGTGCGAGTGTGTGTGTTTGAGAGAAACATTGTTGCTTTATTGTTCTTACCTTGCTATTTTGGAGCAGGTTTTTTAGTTTTCAGGTGGCCATGTCCCTCATCTGACCCTCCCTCATCTTACCTCATTTTTAACCAGTTCTATGCGTTTATAATCGGCGTGTGCTTCTCGTGTGGATGAATGGAAAAATAGCAGTTTGTGAAGGACTGATACACTAAGTCTGCCTTGTTAGCATGCAAACGTTTTGCTATGTATAAATTGTGTTGTATTGGCACATTGCGTTCGGTTTGGGCTTCGGAAACTCGTTGTTGTTTGTTTTGTCCTGTTATTCTTTTCTTGTGTACGACGAACTCAGAAGCCGCAAATAGGAGACTGTTTTCAGTTTTCTAGTTTGGACCCTTGCAAACAAGACCCTTTT
VastDB Features
Vast-tools module Information
Secondary ID
ENSDARG00000011298:ENSDART00000013563:10
Average complexity
IR
Mappability confidence:
NA
Protein Impact
Alternative protein isoforms
No structure available
Features
Disorder rate (Iupred):
C1=0.583 A=NA C2=0.897
Domain overlap (PFAM):
C1:
PF0017016=bZIP_1=PD(26.6=47.2)
A:
NA
C2:
NO
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Conservation
Mouse
(mm9)
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:
ACCTCCAGAAGAAAGCTGCCT
R:
CGACATGGCCACTGCTTCAG
Band lengths:
173-245
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]