GgaINT0036998 @ galGal4
Intron Retention
Gene
ENSGALG00000006031 | BRDT
Description
bromodomain, testis-specific [Source:HGNC Symbol;Acc:HGNC:1105]
Coordinates
chr8:13250384-13251674:-
Coord C1 exon
chr8:13251556-13251674
Coord A exon
chr8:13250523-13251555
Coord C2 exon
chr8:13250384-13250522
Length
1033 bp
Sequences
Splice sites
5' ss Seq
AATGTGAAT
5' ss Score
-0.44
3' ss Seq
TTCAAACTCTTCCTTTTTATTCT
3' ss Score
-0.38
Exon sequences
Seq C1 exon
CCAAAAAAGCAATGAAGTCAAAACAACAGCTTCTTTCTGAGAGGAAACAAGAGCTGGAGAAGAGACTACTGGATGTCAATGGTCAGCTAAATCCAAAGAAAGAGAACTTCAAATGTAAT
Seq A exon
GTGAATTTCATTTATTTGCAACAAAAATCTTGAAGTGGCAGTTTGGCCTGTGGGCTATTATGTAAATAGAGACTTTTTCCCCAGAATATATAAGGTCTTAGACTTCCTTTGCTAGGTTTTAAGATTGCATTTGCTGCTGTGACACCATAGGAACAGGCAGTTACTTGTAATGTATGAAACATCTTCCTTATTTCTACTACCTAATCCTTTAATAAAAGTAAAAATAACATTTTTCACTTCTGCAGTAGAAGACATGGTGCAAACTTCACTAGCTCCATAAGTGTCAGGCGATAGCAGATAGCCAACACTAAATCGAGAAATCTGGTTGAATGGCTTAAAAATATCCTAGAAATAAAAGCTACAAGAAGCAGTTAAGTTATTAACATAATGTTGAGTGAAGATGGAGAAGGGAGGCTAGAAAATCTTGTAAAGAAGCCTAATGCCAATTTAAAAGAGAACCGAAGCTAGCATTTAGCAAATATGTGTGTCCAAGGAAATAGGTATATACGTTGCTTCTTGTTTTCCAAGCTTCCATTAGAGAAACAACTTGGAGGAAAAGCTTTTTGTCTGAACAGTATTGTAAACTAAGCCTAAACCAACCCTGCAGGTGTCATGACAGTCATATGGTGGGGAGGTGGCAAAAAATCATTCTAGATCACACATAGTTTGGGAAAGAGAATGAACTATAGTAAAGGCCTCAGTATGCAAGCCTGGCATCACTAATAAGCACAAACAGACTCAAGAGTAGGAAAAACTATGGTGGCAACTGTGCTTGAATTGTGTCTTACAATAGCATATATCTTAACCTAGTTTAGGCTTGTAAGTTGTGTGTTTACAGTTAATTGGCTATTTCATTTATGCAAGCTTGCTGCTGGTAAATCTCTCTCTTCTATAAAAGTCTTGAATCTGCTGGTAAGATGACAGTGTAATGGTAGAAGACTAGCAGTCATAAGGGAAAGCAGCCCTTATAAAGAAGATCCTAGGTTTGTATATGGAGACCTACTGTACAATGTTTCAAACTCTTCCTTTTTAT
Seq C2 exon
TCTGCAGTTGAAAGTAGTGCTGAGTCCAGTATTGGACCGAGCCGACTGAGTGAAAGCAGCAATGGCAGCAGCTCCTCGGACTCGGGCAGCAACACCAGCAGTGCTTCCAGCTCCTCAGACAGCAGTGACTCTGAATCGG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000006031:ENSGALT00000009708:11
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.875 A=NA C2=0.957
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
NO
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Other assemblies
Conservation
Rat
(rn6)
No conservation detected
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
AAAAGCAATGAAGTCAAAACAACAGC
R:
CCGATTCAGAGTCACTGCTGT
Band lengths:
254-1287
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]