GgaINT0124581 @ galGal3
Intron Retention
Gene
ENSGALG00000001187 | STRBP_CHICK
Description
NA
Coordinates
chr17:9623353-9624461:-
Coord C1 exon
chr17:9624369-9624461
Coord A exon
chr17:9623553-9624368
Coord C2 exon
chr17:9623353-9623552
Length
816 bp
Sequences
Splice sites
5' ss Seq
AAAGTAAGT
5' ss Score
9.72
3' ss Seq
TCCCTCCCCCCCCCACTTAGTAC
3' ss Score
6.8
Exon sequences
Seq C1 exon
GTACAGGCTCATCTGCTCTCAAGAGACCATTTGAAGATGGTGTTGGGGACGATAAAGATCCAAATAAAAAGATGAAGCGTAATCTGAGGAAAA
Seq A exon
GTAAGTGCAACGCTTCTCCATTCTGTTTTCAGAGATGCACTATACAGTAGGAACTGGTTTAAGAGCTTCTCTATGGTGGTGCAGAATAGCATGTGAAGAAGTCTTTGGAACAAAAAATGGTGTTGCTATTGTCCAGCACTGAGAATGTTACAGAGTTCTTATTGTATATCTGAATGTCTCCTGACATGTATTAATAAAGCAGTGTTTTGCGTTTTAAATGGAGTAACCTGTCAGGTCATGAAAAAATGTGTTTCCTAAGCGATTGAAGTATTTTATTGATGACTTTCCTCTACTGATTTTCCCCAGTAATACTGCAGTGTGAAGATTTGCCTTGTTGCACTCCCTTCTCAAGATAGCTACTGTCTCTCAATACCCTCCCACAAGAAAAACGTAAAATGCTTCATCTACAAAACATTGACATTGAATTTATGCACAGAATAAAAATATCTCAGCATTTCTGTGATCCAGTCAATTCTAGAGGATATTTTGATAGTGCTACCATTTGTGCCAGTTCTATGTCTGGTTCTTCACTACTTATAAAGCTTTGAAGAATACAGATAGCTGCAAGAGAGTTGTATTAATTTTAAAATATGGATAATTATATTGACCAAACATGAAATAGCTTTTTACGGACATAGGTGTTATGACTGCCCTTAATCTTTGAGAGACTGGGAGTTTGTTTTGCACCTTTATACTGACAGAATGCACTGAAATGCTAACTGATACGAACTGTTTCATTCCTTTATTCATGCTGTTTTGTTAATCTCCGTCCTTTCTTCTCCTCCCTCCTTTCTTCTCCCTCCCCCCCCCACTTAG
Seq C2 exon
TACTAGATAGTAAAGCAATAGATCTCATGAATGCTCTGATGAGGCTGAACCAAATCAGGCCGGGGCTTCAGTATAAGCTGCTGTCCCAGTCTGGTCCAGTCCATGCCCCAGTCTTCACAATGTCTGTAGATGTTGATGGTACGACATATGAAGCATCAGGACCTTCTAAGAAAACAGCCAAGCTCCATGTGGCAGTGAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000001187:ENSGALT00000034915:10
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.781 A=NA C2=0.194
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
PF0003520=dsrm=PU(90.5=85.1)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Other assemblies
Conservation
Cow
(bosTau6)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
ACAGGCTCATCTGCTCTCAAGA
R:
CTTCACTGCCACATGGAGCTT
Band lengths:
291-1107
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]