GgaINT0031304 @ galGal3
Intron Retention
Description
NA
Coordinates
chr9:21890417-21892522:-
Coord C1 exon
chr9:21892391-21892522
Coord A exon
chr9:21890546-21892390
Coord C2 exon
chr9:21890417-21890545
Length
1845 bp
Sequences
Splice sites
5' ss Seq
AGAGTGAGT
5' ss Score
7.36
3' ss Seq
GTTTGGATTCCCCGCTGCAGGAT
3' ss Score
6.73
Exon sequences
Seq C1 exon
CCTGCAATAGCGGCCGTTGGGGACAGCACTGTGAAAACTCCTGTGCCTGCAATAACAGCGATGGGAGCTGCGATCCTGTCACTGGGTCCTGCTTCTGTGAGCCAGGATTCACTGGGAAACACTGCGAGCAGA
Seq A exon
GTGAGTCATGCTTTTTTTAACAAAGGGAATTTGGAAAAGCAAGGAGCAGGAATTTGTCCTCCTCTCAGCAGCCTGCTGGGTTTCAGCAGGGTCCAATGCTGTCACTAATTTGGATTCCAGACAAGTTATTTTCAGGCCTAAATGGCAGTTTTGAATCTTAAGACTTAATATGAGTAATAAGATTGATGTATGTTTGGTATGTAGCATAAGATTTTCCATATTGGTTACATTTATTCAGTTGTAGGCATGCACATCTTCATAAATACTCATTAAGACCAGGCATATAGAAATGTTTCATGTGGACATAACAGATGCAGGATCAAGAAGATTTAGGGTCCTCCATTAATTAACAAAATGTCCCATGGCCTTACCAGCGACCCAGGATCTCCACCAATCCATCTCCAGCAGGGGTCAATAGCGGATGCCCGGAGAGGATAAAAACAGTCATATCGAGGATTTCTGATATGTTTTCCCAGGCTTCAGCAATTTGTCATTTGGAAGTTTCTTAAAACAGAAGCAATATGTCTATATTTAATACAGTTTGGTATTTTCTTCCAACTAATGTGCCTATTTCCTTTTTTTGATTCCATGCAAACATTTGGTATCCACTCGTCTTGTGGCAGTAAGTTGCATAGTTAAGCTATTTTGTTATTGTTGTTATTATTACTGTTATTATTGAAGACAATGAAGATTTTGTCTATTAAACAGTCTTACAGTAGCACAGATCCAGCTACCAGAATCTCAGTAGTGCAGGCAAAATTATCTGCTGGTGTCACACAGAAATGTCAAAACAGTTAATCTGGAGTGGTGACCCAAATGCAAAAACCCTTAGAAGTGTATCTTAGGGCTCTTGTTGCTGTTGGCCCAGAGGGAATGGAAGAACAGCTATGGGAAGGCTGTAACTGCCAGCTCCACTTGTCCTTCTCTCTTGACCTCTCTCAAAATGCCATCTCTGCAAATAGGAAGCAGCCAAAGAGCTGGTCTTCGTCTTCTCTGACAGAGCCAAGGCAAGCAGGGAAGCCATTGCTTCTGACAAAGCTTTTGGCAAACCCTGACATTCCCTCTATAGATTTGCTGTTTTCTTCAGTCTATGTTTTGTTCCACTTTAATTATATATATATGATGCCTAGGCATCTCTATACTTCAGCTTGTCCAAAATATCTAACGTCAATTAGGCAACTGGCCCTGCTTTTGATTGATTTTCCTATAACCCTGGAAGAAGTTATTTTCATTCTCAAGTGCTGCTTTTTCCTTCAGATAGAGCATACCATGTAAATCTTTTCAAACTCTGAACATGAACTGCTGTGGAGATGTAACCATTAATCTGTCCCGCAGATGTAATGTGTTAGGCTGTCCCCCGAATGTGATGTGTTTTAAAGCAGAGCCTGAGAGTGAATTATGCAGCTTTCTGCAGGAGGCCATCACGTTCCATATTTTCCCCAGCTTTCTAGGGAATGAGGATTTGCAGGAAAACAGAGGACGTGGCTCACAAGGAGGCAATGGGGCTGAGAGCCTTCCCCTCCTGGCAATGGATGTCCCAGAGGACGTGGGCATGTTAGCAGTGCTGGACCGTAAAGCAGAAAGTGTGGAGTTGCAGGCTTTGCTGCTCTCACGATCAATATATTTTTTCCTGTGCAGAATTCAGCCTTTTAACACCATGGCATTTTTCTAAAAAGTGGACTTTTAACAAAACATGCCCAAGGAGAGCACTTAATCATATCAGATTTAGGGCATTACCTTGATGCTTCCATTCCCCTTTTGCAAGTGGTAGGAATTCCTACGTCTCTAAAAATTCCTCTCTGCTCCACCATTCACTCCTCATCTGGTTTGGATTCCCCGCTGCAG
Seq C2 exon
GATGTCCTGAGGGAAGCTTTGGTCCCAGCTGCATGCACAGCTGCCAGTGCCAGAACGGGGCTGCATGTGACCATGTGAGCGGAGCCTGCACGTGCAGTGCTGGATGGACCGGGACCTTCTGCAGGAAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000009458:ENSGALT00000015394:22
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:
PF0005319=Laminin_EGF=PU(63.8=66.7)
A:
NA
C2:
PF0005319=Laminin_EGF=PD(34.0=36.4)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Other assemblies
Conservation
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
CCTGCAATAGCGGCCGTTG
R:
GCAGAAGGTCCCGGTCCATC
Band lengths:
254-2099
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]