GgaINT0043261 @ galGal4
Intron Retention
Description
NA
Coordinates
chr6:30859255-30859846:+
Coord C1 exon
chr6:30859255-30859408
Coord A exon
chr6:30859409-30859637
Coord C2 exon
chr6:30859638-30859846
Length
229 bp
Sequences
Splice sites
5' ss Seq
TCGGTAAGT
5' ss Score
11.78
3' ss Seq
TATTCATGTTCCTTTTTCAGTTT
3' ss Score
10.43
Exon sequences
Seq C1 exon
CGCGAAAATATTTTTGCGGTAGCTTCCTTTCAAATTCATCTGGAACAATTCAGAGTCCTTTTTATCCTTCGAATTATCCAGATAATGCAGATTGCTTGTGGGAAATACAAGTAATGAACAATTATCGCATTATGCTCACATTTGGAAGTATTCG
Seq A exon
GTAAGTAAATTACTTGTTTCCTGGGTAGTAAGTGGGCCCAAAATCTCAACTTCAAACCGCAGTTCTCAAACGTTTTCCCAGTACTTAAATGTGTTATAAATAGTACCTTGAAATTGTGTCAGTGCAGTATCTTAGTTTTTTGTTTATTCAGCATTTAAAATACTGAACTTTACCAAATGTGTTTTACCCAATATTCATGTTTTACCTTGTATTCATGTTCCTTTTTCAG
Seq C2 exon
TTTGCAAGGTGGATGCCAGTATGACTATATTGAGATCTATGATGGTCCACCAAGTACTTCTCCTCTGCTTGGAAAAATTTGTTCTGGTTATAATATCATGTACACATCCTCCTCAAATATGATGACCGTCAGATTTCGCAGTGACTCTAGATATTCAAACAGAGGGTTTTATGCTGATTATCACTCCTTTCCAGCAGATCAGAACACCG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000023424:ENSGALT00000038697:8
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.000 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF0043115=CUB=PU(43.0=88.5)
A:
NA
C2:
PF0043115=CUB=PD(56.1=84.5)
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:
GCGAAAATATTTTTGCGGTAGCT
R:
GTCACTGCGAAATCTGACGGT
Band lengths:
298-527
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]