GgaINT0031307 @ galGal4
Intron Retention
Description
Uncharacterized protein [Source:UniProtKB/TrEMBL;Acc:F1NXF9]
Coordinates
chr9:19803419-19805356:-
Coord C1 exon
chr9:19805228-19805356
Coord A exon
chr9:19803548-19805227
Coord C2 exon
chr9:19803419-19803547
Length
1680 bp
Sequences
Splice sites
5' ss Seq
AAGGTATGG
5' ss Score
9.26
3' ss Seq
CTGCCTGCTTCTCCCCACAGCAT
3' ss Score
11.33
Exon sequences
Seq C1 exon
CGTGTCAGGGGGACAGGTTTGGGCAGGGCTGTGCTCACACCTGCAACTGTCACAACGGAGCACTCTGCGACCACATAACGGGGACATGTGCCTGCACCCCAGGCTGGGGAGGAGCCACCTGCCAAGAAG
Seq A exon
GTATGGACAGGGAGAAAAGTCCATAAACCTCCATTTATGACACCAGGACACACACTTTTTCTGTACTCTACTGCCCATAGGTTTGATTGATTACGTCATTATGGTGTCTTCTTCCAGACACAGATTAGATCCAAAACAAGTGAAAGGCACTGGGAGCTTCAGCCTTGAGCCCAACTCCAATGAGGCTTAAGGATGGAGGCTGGCAAAGAAAATTTCCTGGTTTGATCAATGATGAGGACATTGCCAAACATACCCTTTTTCTTTAATGTTTGGAGGTAGAAAAAGTGTGTGAGGGTGGGAAAGCCATCCCCCAGTCACTGCTTTGACAGAGGGAGAATTTGCTCCTGTTAACATCCTAAAAATCCATCTGGCAAATGCCACAGAAATAGGCTCTGCCCATAGGTTCCAGTTGTGATAGGCATTAGTAAACCTGTTTTAACTTAAAATTAGGTGAACTGTAAACTGTTATCTGACAGCTGCGGGTAGCAAGATCAGTTGCCCATTGGAAAAGTAATTGTGATATAATGCACTGTACAGAGAGATGCTGGAAGCTGTGAAATCAGTAGCTCTACTCCTTGGTGTTGAGGAAGCTGGTGGAATCAAGGCTTGTTTTCCATAGGTGTGAACTGAAAGTCTTAAGGGTATTTGGTGAGTTGTTGTTAGCTCACTTCATCAGGTGTGCTTTCTCCTGTTTTGTTCCTGGAGCAGTGTTACACCAGTGTAATTACTTGCAAGTTATGGTCCCCATTTGTACCTCCTACAGTACCAACAAAGCCACTGGGGCAATGGAAGGTGAAGATTTGTGTCCAACCCATGTCTTCCTGCCCTCCTAACCCATGGCTTTGCTGCTCTCTCCTCTCCTCAGCCTGTCCCCCAGGCTGGCATGGTGCTGGCTGCCTTCAGCGCTGCATTTGCCCTGGCCAGACTGCATGTGACCCCGTGACGGGCAAGTGCCAGTGTTCCAAGGGCGGAACAGGGACATCCTGTGAGCTTGGTAGGTGTTCTCAGTCCTTTGGTGCTCCTGTGCCTCGTGTCACGGCGCTGTCACCATGCTGTCTCACTGCAGAGTGTGAGAATGTGAGGTACAGAGGTACAGAGCCGGCTGCAGGCAGAACTGCTGCTGCCGTGATGGTTCAGGTCACTCAGACTGCCCAGATTTAATGTAGTTGGTGTGTTTACATCCATGTAAATCCCTTAAACATCAATCTCATAAGCACTAGATATCAGATGAGTGCAGTGTACAGTTTCTCCATTGACACAGTGTGATTTTTACAAGCCATGAACACTGTCCTGTTGCACTGTAAACTGCTGAGGGACACCAGGGTCACTTGTAACACCATGTAACACCCCAGAGTGCCAATCTCACACCTCTTCAGGCCTCTTTTTCTCATTGATCACTGTAGGGACCCATGAGTGACAGCTCTCGCTCTGTCTGTGCACCTAATTGTAAAAATAAATGGTGTTTCCATACCTATAGAGATCATCTGGACTAGTACTGTAGACATCGTTACGAGTTTTCATTAATAACCAATGCTAAATGTTTTTATATTTTTAATATTTATTTCAATTACATTTTCTGGGCATGCAGTTTTCTGAGTACCCATCACCATGCACTGAACAAGCAGCACGCTGTCCCTGCTGCAGCACCAACTCTTGCTCTCTGCCTGCTTCTCCCCACAG
Seq C2 exon
CATGTCCCCCAGGATTTTTTGGAGAGAGATGTGAAGAGCAATGTGACTGCATTCACAGCGTGTCCTGCCACCCCCAAACGGGGGCTTGTCGCTGTGCCAAGGGGTGGCGAGGCAGGCACTGTGACAAAC
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000009458:ENSGALT00000015394:23
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(63.0=65.9)
A:
NA
C2:
PF0005319=Laminin_EGF=PD(34.8=36.4)
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:
TCAGGGGGACAGGTTTGGG
R:
GTTTGTCACAGTGCCTGCCTC
Band lengths:
254-1934
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]