GgaINT0127631 @ galGal4
Intron Retention
Gene
ENSGALG00000002389 | ITGB4
Description
integrin, beta 4 [Source:HGNC Symbol;Acc:HGNC:6158]
Coordinates
chr18:4702347-4703277:-
Coord C1 exon
chr18:4703117-4703277
Coord A exon
chr18:4702528-4703116
Coord C2 exon
chr18:4702347-4702527
Length
589 bp
Sequences
Splice sites
5' ss Seq
AAGGTAAGG
5' ss Score
10.51
3' ss Seq
GCTATCACTTGTTTTGCCAGGTG
3' ss Score
7.67
Exon sequences
Seq C1 exon
AGGTGGTGGATGGTGTCCCCCCGCTGACTGGCATGGGCCAGCTCACCCAGTCTCCCAAAGGCCGCCTGAGTGCACCCCTTAATCCCAGCGCCCAGGCTCTGAGCTCCAAGGAAATCCACTTCAGTTGGTTTCCTCCAACGGGAAAGCCTCTGGGGTACAAG
Seq A exon
GTAAGGGGTGAGTGGATACCAGGGGAGGTGTGGGTCCTGTCGTGCAGCTGTCGCCCCCATATTCCTTCATGCTGAAGGGATGGGGAGAAGAGACTCAAAGAAGGGAGTGAGTTCTTCCATCCTGGTCCATTTTGTAGAAACATTAAGGTTGGGAAGTCCACTAAGATCACCAAGTCCAGCCCCAATCTACCCCCACCATCCCCACTGACCACGTCCCTCTGTGCTACATCTCCACAATTCATATCGCCAGGGATGGTGACTCCACCATGTCCCTGGGCAGCTATGCCAACACTTCTCCAGCCCTGATGACCATTAATGTGAGACTTGCAGGAGAGTTTCCTGTTGGGCTCATCCCCCTTTCCATCCCTTACCTTTGGGTAAAGTTGCAGGGAAGGCCCTAGAGGACACCTACCTGTTCTGGAAGGGAGTGCAAATGAGACAGCGAGGTCTGGTGGTACCACGAGGTGTTCTGACCCCTATTTTGGATGGCTGCACAACGCCCTAAGAACAGATCTAAGAAAAGATGAGGAATTCCTCACCTATTGCAGTGAAAATTTGAAGCAGCGATAGCTATCACTTGTTTTGCCAG
Seq C2 exon
GTGAAATACTGGGTGCAGGGGGACCCCGAATCCGAAGCCAATGTCATCGATGTCAAATCATCAGAGGCAACACTGAGAAACCTCTACGCCTTCTGCGACTACGAGATGCAAGTCTGTGCCTACAATGCTATGGGTGAAGGGGCCTACTCCGACGTCATACACTGCCGCACGCTGGAGGATG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000002389:ENSGALT00000003760:28
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.389 A=NA C2=0.066
Domain overlap (PFAM):
C1:
PF0004116=fn3=PU(37.0=55.6)
A:
NA
C2:
PF0004116=fn3=PD(60.5=80.3)
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:
AGCTCACCCAGTCTCCCAAAG
R:
GCGTGCGGCAGTGTATGAC
Band lengths:
294-883
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]