GgaINT0123976 @ galGal4
Intron Retention
Gene
ENSGALG00000002682 | BRD3
Description
bromodomain containing 3 [Source:HGNC Symbol;Acc:HGNC:1104]
Coordinates
chr17:7160621-7162887:-
Coord C1 exon
chr17:7162595-7162887
Coord A exon
chr17:7160750-7162594
Coord C2 exon
chr17:7160621-7160749
Length
1845 bp
Sequences
Splice sites
5' ss Seq
TTTGTAAGT
5' ss Score
7.4
3' ss Seq
TGTATGTTCCTCTTCCACAGCTG
3' ss Score
10.3
Exon sequences
Seq C1 exon
GCAGCCCAAGAAAGGAGGAAAACAGGCATCTGCAACCTATGATTCGGATGAGGAGGAGGAAGGCCTGCCCATGACCTATGATGAGAAACGGCAGCTCAGCTTGGACATCAACCGCTTGCCTGGGGAGAAGCTGGGCCGAGTGGTGCACATCATCCAGTCACGGGAACCTTCCCTCAGGGACTCCAATCCTGATGAGATAGAAATAGATTTTGAAACCTTGAAGCCCACAACGTTGCGAGAACTGGAGAGATACGTGAAATCTTGTTTACAGAAAAAGCAAAGGAAACCATTTT
Seq A exon
GTAAGTTAGCTCTTGGGGCACACATTCCTCCACGAGCCCTTGGGCTCAGCTTTGGAATCAGGGCATGTGTGTTGGGATTCTTTTATCCAGCTGCTGGGTATGTGATGATAGGGATTTTTAGAGATTCTTTTCTACTTGAGAAAATAGCAGAAACTTTCTGTGGGTTTTTTCCTTTGCATATGGACCCTCACATGGAGACTTGGAGGGATCACTGTATTCCTCTGCAAGACCATTGTGATATCCTTACTGCTTATCTAGAACCTAGAAGGCACTACAGTTTCAGTCTCATTATGTTGTGTGTAACATGCCTATATGTGGAAGGATCAGTTTCTTAGCCTGAATAGTTTATCATCTAATTAGGAAGTTAGAAAGTGTGGTTTGAATCCCAAACACCAAGGAAATGAATGAATTGCACACATTTACTTGAGTAAGCTAAGGACTCTGGATGTGTCCGAGTTGTATCCTTGCCACAAAACTGCTAGTCCTAACTGGCCTGATTACCATATAATAATCAGTGTCAGATAAGGAGGTGCATGTTAATGGACTGGAGAATGTACCGTGCAGAATGGTACAGGCTTTTCTGTGCTTCAGCCACAGAGTGAATTGTAGCCCCTTGAGAATTGAGCCCCAGCAAAATAGCAGTAGCATGTCACTTACCTGAGGTGGTCCTGGCTTAGTCCATCTGCTCATAGGTTAAGAGGGAAGTTGTTCTGTTAAGAATACAAAAGCTACTCACAGCTCTTGCAGAGCACCTCTGTTTTGTTACCACGGGACTTTTAGGTCACCTGAGCATAGCTCAGACTCTGACCCTTCTTTTTGCTTGTTACTACGCTGGTTTGATTTCTTTTCCTCCTAAGTCCTTTACTTCTGGAGCAGCTGAGGAAAACATTTTCCAGAGTTGCTAGGAACTAGAAGCATCCTTTTGCTTTGGAGTAACACAGATGACCTCAGATGTCTGTTTGTCCCCTGCTCTGAGCCCAGTATGCCCTGAGCTGGTGTGTGCTTGGTCAGTAGGCACCACGCTGATGCATGACCTTCCCCAGACTCTCCTGCTGTCTGCTGCCTATTCTGGAGCTCAGTGTTCACAAGCACCCTCTTAGGACTTTGCTTTCCAGTTCCCATTTAAAAGAAGAAAAAAGTTGCCTGAAAGCAGTGCGCAGAAATGTAGGCATTTCCTTGCTGGATCAGGCAAAATATCTGGCTCCTGTCTGTTTCTGATACTGGCCAACACCTGCATTCAATTACTCTTCTGAATGATATTTCTTCTGCTCAGAAGCATTAGCACTGCTGTTACTCCTCACTGTTTCCGTCCTGACTAAGGCAGCTACATTTCTGTTGTCTGCCAGCCTTTGCTGGTTTTTAATTTTTGTTTGTTTTGTTTTATATTTAAAGCAACTTAAAGCAATCAATTCTCATGTGAGGTGTCTTGAGTTTGAATGGCAGATGCTTCCTCCTGACAACATTAATGGGACACTTTATTTTACAGGGCAGAAAACCCATGTAGCAATTCTGTAATAACAAATGTGTAACTATTGACCATATAACTAGCTGGTAAGTAACCTGTAACCACAAGGTTATTACATGGATATTTCTATCTTCTAAAACACATTCCAGAAGGTCCCTCTCAAAAAGTGCATGTTACAGGATGATGGTGACTCGACAATCGAGGCAACTTCATGTGTTGTCCTCTATCTGGGATGTGTAGTTGCTCTGTGGTCGTTTGATCTTAGCAGCTTCACTGCAAAGTGTTTGCACAGACTTACGTGCCCTGTAAAATAGCAATGTCCACTCTTTTCTTCACCCTCAACAATGCAGTTTCAGAAATTGTATGTTCCTCTTCCACAG
Seq C2 exon
CTGCAAGTGGAAAAAAGCAAGCAGCAAAGTCTAAAGAGGAGTTAGCTCAGGAAAAGAAGAAAGAACTAGAAAAACGGCTACAGGATGTCAGTGGGCAGTTAAACAACAACAAGAAACCTGCAAAGAAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000002682:ENSGALT00000004226:10
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.949 A=NA C2=1.000
Domain overlap (PFAM):
C1:
PF084185=Pol_alpha_B_N=PU(29.6=34.3)
A:
NA
C2:
PF084185=Pol_alpha_B_N=FE(37.4=100)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Other assemblies
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
TTCGGATGAGGAGGAGGAAGG
R:
ACTGCCCACTGACATCCTGTA
Band lengths:
350-2195
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]