GgaINT0020607 @ galGal4
Intron Retention
Gene
ENSGALG00000001535 | STAB1
Description
stabilin 1 [Source:HGNC Symbol;Acc:HGNC:18628]
Coordinates
chr12:625403-626274:+
Coord C1 exon
chr12:625403-625528
Coord A exon
chr12:625529-626200
Coord C2 exon
chr12:626201-626274
Length
672 bp
Sequences
Splice sites
5' ss Seq
GGGGTGAGT
5' ss Score
7.93
3' ss Seq
GCCTTATTGTTTTGCTGCAGAAA
3' ss Score
9.93
Exon sequences
Seq C1 exon
AAATAGATCCATGCACTATCGATCATGGTGGCTGCTCCATACATGCTGTGTGTACTAAAGTGTCCCCAGGAGAGAGAACCTGTGTCTGCAAGGAAGGCTATGCTGGCGATGGGACGCTCTGCAGGG
Seq A exon
GTGAGTTCTCAATTCATGTGTTGGTGATGGTGATAAGACATGGCTCATGCAAAAGGGAATTTCAGGCAAAAAGCACTAACATTTCAGATCAAATCACCAAATAACTTGATTGTTCTTTCTGTCTGTTCATGCAGACATTATTTCAGAGTCAGTAATTAGTGGCTGATCTTGATTCAACCATTTCTGCCTTCTGTTGGGGTGCATGCACACATTTCTGTGTGAGTACATATGTACCTGCAGGGATGTGCTCAGAATTTTCCCAGGTCCTGAGGTGTGATGTGGTCACTGCTGCCCTGGCACAGTGCCACCCGGAGACACGCAGAGGGCCCTGGCTGCCCTCAGCACCTGTCTCACTGGCTGACCAATGTTCTGTGGTGCTCTGAGGTGAGGCTGGAGCTGCAGGAGAGTGGAGCCCTCTTCTATCCTTCCAAGCATGCTCAGATGGACTTGCTCTGGGGGCAAGTTTATCACAACTTAGAGACCCATGTGTGGCAAGAATCAAATTTGCACTTCTTACCTGTTCCTTTGCTTTTGCAAGTTACTTTGCCATGAGGGTGTTTCCAAAGCTGGGAAGGTCCTCCCTGTCGCTTTACCAATACCTCTTCGGGTCACCAGTTCTCAGCTGCCTTGGGCAGCCCTCAGCAATAATGTGGCCTTATTGTTTTGCTGCAG
Seq C2 exon
AAATTGATCTTTGTCTTGAAAGCAGCGGGAATTGCCACACCAACGCAGAGTGTGTTAAAACAGGCCCAGGGAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000001535:ENSGALT00000002333:44
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:
PF129472=EGF_3=WD(100=86.0)
A:
NA
C2:
PF129472=EGF_3=PU(52.6=80.0)
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:
ATAGATCCATGCACTATCGATCATGG
R:
CTTCCCTGGGCCTGTTTTAACA
Band lengths:
198-870
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]