BtaINT0127298 @ bosTau6
Intron Retention
Gene
ENSBTAG00000005980 | RREB1
Description
ras responsive element binding protein 1 [Source:HGNC Symbol;Acc:HGNC:10449]
Coordinates
chr23:47930254-47930993:-
Coord C1 exon
chr23:47930849-47930993
Coord A exon
chr23:47930391-47930848
Coord C2 exon
chr23:47930254-47930390
Length
458 bp
Sequences
Splice sites
5' ss Seq
AAGGTCCTC
5' ss Score
-0.12
3' ss Seq
TGCTTCTCCTTTCCGCTCAGATG
3' ss Score
8.41
Exon sequences
Seq C1 exon
ACACATGAAGATCCACGAGAAGGACCCCAACAGCTCTCCAGCCGCAGCCCCCCCATCCCCACTGAAGCGCAGGCGGCTGTCCTCCAAGAGGAAACTGAGTCATGACGTGGAGTCGGAGAAGGAAGACCCAGCGCCAGCCAAAAAG
Seq A exon
GTCCTCCCGGCCCCGCCCCCGCACGAATGTGCGTGCAGCCCAGGGGCTACTGGCCGAAATCCCCCCAGCCTTAAGTTTCTCAGTCTGGGGACTTGGCAGACCCCCACCCCCAGGCTTTTCAGCTGTGTTTCCCTGCGCTGTTTCATAGGGTACCTGGAGGAAAGCGTGCCTGCCCGCCCTTGCTTTGTGGAGCCCCGGCTGAGCCCGCTGTTGACGCAAAGAGCTTGTTCTGTTGTTCGAGGCTGTTTTTGTTTCTCCAGCTAGAATGGGGGTTTCCCCAGCCCTGGGGCCTCTCCTGTCATCCCCTGTTTATGCCCAGCGCCTGGCAGATACTGGGCGCTCCATGGACATCAGTTGAATGAGGGGGCTGAGCAGGGAGGAGCGGGCCAGGGGCGTGTTCGGCCGCCTGGTCAGAGCGCGCGGGCCCTCGTGACTCCGTGCTTCTCCTTTCCGCTCAG
Seq C2 exon
ATGGTGGAGGACGGGCCGCTGGGCGACGCAGAGAGGAAAGCGGAAGAGGTGTCTCACTGCCCACTCTGTTTCAAGGAGTTCGTGTGCAAGTACGGACTGGAGACCCACCTGGAGACGCACTCGGATAACCCGCTGAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000005980:ENSBTAT00000044565:6
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=1.000 A=NA C2=0.239
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
NO
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Chicken
(galGal4)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
TGAAGATCCACGAGAAGGACCC
R:
GGTTATCCGAGTGCGTCTCCA
Band lengths:
270-728
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]