GgaINT0035639 @ galGal3
Intron Retention
Gene
ENSGALG00000006284 | SHLB1_CHICK
Description
NA
Coordinates
chr8:16650930-16651539:-
Coord C1 exon
chr8:16651406-16651539
Coord A exon
chr8:16651023-16651405
Coord C2 exon
chr8:16650930-16651022
Length
383 bp
Sequences
Splice sites
5' ss Seq
ACTGTAAGT
5' ss Score
8.59
3' ss Seq
CTAACCTACATGGCTTTCAGAAA
3' ss Score
6.29
Exon sequences
Seq C1 exon
GAAATGCACTCATTAAATGTGGAGAAACACAAAAGCAAATCGGAACAGCAGACAGAGAACTAATTCAGACTTCAGCTATAAACTTTCTCACTCCCCTAAGAAACTTTATCGAAGGAGACTATAAAACTATTACT
Seq A exon
GTAAGTTGAAGTGTGCATTCTTCGGCATTTCAAAGTAATTACAAGAGCAAATCTCTGAAATGGTAGAAAACTGAGCAGTATTGCTTTTGGAAACTAATTTGGAAAAGGTCGGATGAATTCATAACCTTAATGTATTCTCTTTCCTTTTGACCATTCAAAATAATTCTGTAATCTTACCGTTTTTTAAAACTACTGAACTATTAAAAGTATGTATGTGGAGTATAAAATGTGTAAGAGTAATGAGGAACTAATTCTGCTTCTTTGTTCAACTGAAGAACCCCTTTTATATATGATCATGAGGAGAGAAGAGGCAGGAAAACGAGTAGACAGGATTTTGCTTTTGAATGTGTGTTTTCTCATGAACTAACCTACATGGCTTTCAG
Seq C2 exon
AAAGAACGTAAACTATTACAAAATAAAAGACTGGATTTGGATGCTGCGAAAACCAGATTGAAGAAGGCAAAAGTTGCTGAAGCTCGAGCCGCA
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000006284:ENSGALT00000010151:4
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=0.006
Domain overlap (PFAM):
C1:
PF0311413=BAR=FE(17.9=100)
A:
NA
C2:
PF0311413=BAR=FE(12.2=100)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Other assemblies
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
AATGCACTCATTAAATGTGGAGAA
R:
GGCTCGAGCTTCAGCAACTTT
Band lengths:
222-605
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]