GgaINT0036993 @ galGal4
Intron Retention
Gene
ENSGALG00000006031 | BRDT
Description
bromodomain, testis-specific [Source:HGNC Symbol;Acc:HGNC:1105]
Coordinates
chr8:13253976-13255083:-
Coord C1 exon
chr8:13254712-13255083
Coord A exon
chr8:13254105-13254711
Coord C2 exon
chr8:13253976-13254104
Length
607 bp
Sequences
Splice sites
5' ss Seq
AAAGTAAGT
5' ss Score
9.72
3' ss Seq
TTCACTTTCTTTCCCCCTAGAAA
3' ss Score
12.04
Exon sequences
Seq C1 exon
ACAAAAAAAGGTGTGAAAAGGAAGGCTGACACTACAACTCCTACTACATCAATACTCACAACAAGCAGTGAATCTTCTGCAACATGTAACAAAAGAAAAACTGTTAAAGCATGCAAAGGTGAAAATGAATGTATGATACCAAAGAAGATTCTGAAGAAGGGCTTACCAGATTCTCAGCAATCACCTAGAGTTCTTAAAAAGACTCAGTTATCAAAACAACTAAAATATTGTAAAGAAATTCTTAAGGAAATGTTCTCAAAGAAACATTCAGCTTATGCACGACCTTTCTTAAGATCCGCAGATGTTGTATCCTTCTCACTTGGTGAGAAAAAAGGGATCACCAAATGTCCTACAGATCTGGGAACCATTAAA
Seq A exon
GTAAGTATGTTTTAGAGGGGATAGGATAACCTTTGCTTAAATAACTTGTGTAATGATGCTGGATTTTAATAGCATTAGCTGAAAAAGAGTCATGAAAGCTGCTTCTGATCTGAAAGAGATAGTTTGAGAGAACTATATATAGCTGCTCTGCCCACTAAGAAGCAACGATTCACTGAGGTTCTTCAGAGCCTTGTGGTGACTATGTACATACTGGCTAATCCACCTTGAACAAGTTAATAGCAGTAGTGTTGAGAATTACCCTTTTAAGTAGGCTGCCAATAAAGCATATTAAGTCCCTTTCAGTCTGTGCAATGCTGTTGCTAGTGCTATATAAAACAAAATGCAGTTCTATACTGTCTACTTCTGCTTCTGTCCAAACCTCTTCAACCTTGCTGTAGTGCCCTGAGTCCTCAAGCACCAGATATTTGTGACACCTTTCACCTTTCCTGTGAAAATGAAACCTCCTGTAGGCAGATACTGGTGGCCTGTAGTCTACAAATACTGGGAGATCTGTCTGGGACTGAGCTGGCTAGTCAATTTAAACCAAAGCTATGGAGGCACTTTGCAAGTTTAGGTATTAACTTTAATTCACTTTCTTTCCCCCTAG
Seq C2 exon
AAAAAAATGGATAATTTTGAATATAGAGATATACAAGAATTTGCCACAGATGTTAGACTAATGTTCATGAATTGCTACAAACGTAATTCTCCAGACCATGAAGTGGTTGCCATGGCAAAAAAACTTCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000006031:ENSGALT00000009708:6
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.355 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF0043920=Bromodomain=PU(52.8=37.9)
A:
NA
C2:
PF0043920=Bromodomain=PD(44.9=93.0)
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:
AGATTCTGAAGAAGGGCTTACCA
R:
GCCATGGCAACCACTTCATG
Band lengths:
343-950
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]