GgaINT0106908 @ galGal4
Intron Retention
Description
NA
Coordinates
chr1:178277824-178279248:-
Coord C1 exon
chr1:178279134-178279248
Coord A exon
chr1:178278076-178279133
Coord C2 exon
chr1:178277824-178278075
Length
1058 bp
Sequences
Splice sites
5' ss Seq
ATGGTAATT
5' ss Score
6.49
3' ss Seq
TCTGTTATTTTTTTCTGAAGGAT
3' ss Score
8.44
Exon sequences
Seq C1 exon
TATTTGTATGGAAGTAACCGAAAAGACAACATCTTTATTGATCCAATCTACCAGACGTTTGAACAAGAATTAAATAAAATCCTTAGAAGTTGGCAACCAAGCATACTTCCAGATG
Seq A exon
GTAATTTTCTTTTGGTCATGTATGTTTTCGTCTCCTAATAGCTTTATTTTCTTGAGCATGTAGCTGTATAGAAATATTTTATACGTTGTGGTAGTAATTGATTAAACATCACAAAGATTTCACGTAAGAGTTCAATTAAGGCTGTACTTATAAATGTTATCTTGTTTCTTGGTAATCCACATAGCACGAGTTGCTTTTGCCACCACCTGTTTATTTGAAATTGACTACTGGTCTTCAAGAGGAGAGAAAATCAGTAAAAATGGCTGGTTTTTGACTTGTTTTTACCTGAGCTTATTTTTGCTCAAGTGAGTCTCCAATTGGGAATGAGCCAGGCAAATGCTGGACCAATGAGCTACGCATTAAGGCTTACTTGGACTGGGAGAACTGTCTGCTTGGAACGTTTTGCTCAGGAGTGCTGCCAATTCATAGAGAAAACAGAAATGTGGTATACTAGAAAATTCTTCCCAGCAGATTCATTTTGGCACTAAACTACAGAATCCATTCTTCCATCTCTGTCATAAACTTCTTGTGAGTGAGGGCTCCTCCTTACCAGTCCTTCTTCTCTTTACTTGACATTGTCTTTTATCTGTACAGGTTAGGAGGGCTCTGTTTATGGGCATCTGCATGGCCTGGAAGTTCTTTCCAAGTTAGATGTCCATGAGCAATAAGAAAGAAGGTGTACCTATGCAAAGGCCTTGCCTGAGCAGAATAAAGGAAACTCAAAAATATGCTTTTTGTGAAGGGACTAAGAGATTGGCCCCTGACCATTTGCTTTAATGTAATAATGTCAGGGAACTGCATGTAAGAAATGTGTTCTGTGTGAAATTGCATATCTCCCATTGTCTGTTTTTTCCTGAAACTGTGAGTTCCAGTGTCTTTACAGGGTGGTTTTGAGGGGTTATAGGCATATAATTAAATATTCTTGTGAGAGGCTTCTGTCATGAACATTTTACTAAATTTTACAGCAAACAGAAATTTTATTACTATTATTATTATCATTACATCTGGACAGTTTGTGGGCTAATCCATTATACTTTCTCTGTTATTTTTTTCTGAAG
Seq C2 exon
GATCAATATTCTCTCGAGTGGAAGAGGATTATCTATGGAGGATTAAACAGCTAGGATCACATTCGCCAGTTGCTCTTCTGAATACTCTGTTCTACTTTAACACCAAGTATTTTGGTCTGAAAACAGTGGAGCAGCACTTAAGACTTTCTTTTGGCACTGTTTTCAGACAGTGGAAAAAAAATCCTCTAACAATGGAAAGCAAAGCTTGTCTTCGATATCAGGTGTCTTCCCTGTGCAGAGCTGATAGTGAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000017139:ENSGALT00000043420:22
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:
PF120123=DUF3504=PU(0.1=0.0)
A:
NA
C2:
PF120123=DUF3504=PU(48.8=98.8)
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:
TGGAAGTAACCGAAAAGACAACA
R:
ATCAGCTCTGCACAGGGAAGA
Band lengths:
352-1410
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]