GgaINT0127523 @ galGal3
Intron Retention
Description
NA
Coordinates
chr18:7959239-7959647:-
Coord C1 exon
chr18:7959421-7959647
Coord A exon
chr18:7959311-7959420
Coord C2 exon
chr18:7959239-7959310
Length
110 bp
Sequences
Splice sites
5' ss Seq
CTGGTCAGT
5' ss Score
6.6
3' ss Seq
TTCTTGTGGCTTGTTGGCAGGTT
3' ss Score
6.34
Exon sequences
Seq C1 exon
ATGAAAATGAACCATTCTGTCTGGGAAGAGATGAAATCAATTAGTGGCATCCGTCTGCAATCACCCTTGATCAAATCCATACGTAAAGTGGGCTATATTTGGTTCACCATTTACAGCATGCTGTGTTTCTCCCCGTATATGTATTTTCTATCAGTGAAAGTTATCAGAGAGAAAAAGAAGCTCAAGGTGTTAATGAAAGCAATGGGTTTACAAGACATCGCCTTCTG
Seq A exon
GTCAGTGGGCACTATGGGTTGGGGTTGGGCTTGGAGACCTTAGAGTTCTTTTCCAACCTTAGAAACTCTATGCTTCAATGAAAAGGGAACTTCTTGTGGCTTGTTGGCAG
Seq C2 exon
GTTGTCCTGGAGCCTGCTGTACACCATTTACATCTCAATAACATCAAGTCTGCTGACAGCAATCACGATTAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000023373:ENSGALT00000038535:4
Average complexity
IR
Mappability confidence:
NA
Protein Impact
Alternative protein isoforms
No structure available
Features
Disorder rate (Iupred):
C1=0.000 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF126982=ABC2_membrane_3=FE(41.9=100),PF131081=DUF3969=PU(71.8=73.7)
A:
NA
C2:
PF126982=ABC2_membrane_3=FE(12.8=100),PF131081=DUF3969=PD(26.9=87.5)
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:
TAGTGGCATCCGTCTGCAATC
R:
GCTGTCAGCAGACTTGATGTT
Band lengths:
246-356
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]