GgaINT0112664 @ galGal4
Intron Retention
Gene
ENSGALG00000012751 | STAB2
Description
stabilin 2 [Source:HGNC Symbol;Acc:HGNC:18629]
Coordinates
chr1:54934837-54936158:-
Coord C1 exon
chr1:54935965-54936158
Coord A exon
chr1:54934979-54935964
Coord C2 exon
chr1:54934837-54934978
Length
986 bp
Sequences
Splice sites
5' ss Seq
CCTGTAAGT
5' ss Score
7.52
3' ss Seq
TTTATTCTCCCCCCAACCAGGAC
3' ss Score
9.51
Exon sequences
Seq C1 exon
CTGCAGACCTTTGCAAACAAAACAACGGCGGGTGCCATAAGGCAGCCAACTGCACGCAGCTTGGGGTGAAGATCTTCTGCAACTGTCAGAAGGGATACAAAGGAGACGGCTTCACGTGCCTTCCTATAAACCCTTGTGCCGATGGGTTCAATGGAGGCTGCCATGAACATGCTATTTGCACTGTCATAGGGCCT
Seq A exon
GTAAGTTGAATGATTTGGGTCTTCATAGGGAAGTCTGAGACACTTCCTCCTGGTGCCAACAAGTTTTCCCAGCTAGACCACACTCTCTACCTCTCAGAGCCCCCTGTTTCCCAGAACAATTATTATGTGATCCCAATCTGCTTTCGAAGTCCATTTTGGCATCCTTTCAGATGAGGGCTGAGGAAAAGGGTGCTACATAGATAGAATGTTTTGCATGCATAGTTTTTCTGTCCTCTTTTTAGCTCTCCCTTCTTGGCTATCCCTATTTGCAATAGAAGTTTGGCAGCATGAAACTGTGTGTATATTGGTGCCTAAACCTAGGGACGGTTGGGAGAATAACATCACGTTTTGGTTGATCAGACCCTTAGATAACTCTTGCAGCCACATGATTCTTGGCACAAAATGTCAAAGCGATCGAGGCAATGATCTGATCCAGCATTTGTCTTGGTGCTTTTGGGATCATCTGTCTGTTCCATTTTGGTGATTTGCCTGATGTGTCTTCCAGGAACTATCTAGAAAAGCCTCGCTGCTAATCCGTTCCAGCTGCTAACCATCACAATCCCTGTCTGTGTCAGCTTCCTCGGTTTATAGTTCCCAATTTATTACGATCAGTGGACTGCTAAATTCCCTTCATGCTTCCACGCTGCCATTTAGATATAATTTTGATTGGTGTGTCATCCATTTGTCTTAATTGCATGTCATATAATTCCCCAATACACGTTATTAGCTTTGTGGATAGAATCATGCCTTGGTATTTATTTAGCAAAACACCTAAGTATGTGCATAAATGTTTTGCCTAAAAGAAGAAACAACAGTGTGACAGTTTGCAGTCTGTTGAATCATGGTTGTTAGTAGCAACTTTTCTGTTTGCCCATTCCTGGCTGTATCAAGTGACATTTTTCCAACAGTTCAGTATGTTGTGTGAAATACCAGTTTTATGTCAGTGAAATACTTGGCTTGGCCTTTTTTATTCTCCCCCCAACCAG
Seq C2 exon
GACAAACGCAAGTGTGACTGTAAAAACAACTACATCGGTGATGGGCTGAACTGCTCAGTGATGCAGCTTCCTCTTGACCGCTGCTTGCAGGACAACGGGCAGTGCCACCCTGATGCAGACTGCACCGACCTCCACTTCCAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000012751:ENSGALT00000020806:59
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=55.4),PF129472=EGF_3=PU(50.0=29.2)
A:
NA
C2:
PF129472=EGF_3=PD(44.7=35.4)
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:
GCAGACCTTTGCAAACAAAACA
R:
CTTGGAAGTGGAGGTCGGTG
Band lengths:
334-1320
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]