GgaINT0127633 @ galGal4
Intron Retention
Gene
ENSGALG00000002389 | ITGB4
Description
integrin, beta 4 [Source:HGNC Symbol;Acc:HGNC:6158]
Coordinates
chr18:4701185-4702224:-
Coord C1 exon
chr18:4702087-4702224
Coord A exon
chr18:4701368-4702086
Coord C2 exon
chr18:4701185-4701367
Length
719 bp
Sequences
Splice sites
5' ss Seq
ATGGTAAGT
5' ss Score
11.01
3' ss Seq
GTGTGTACTTCTATTTTCAGTCC
3' ss Score
8.25
Exon sequences
Seq C1 exon
TTCCTAGTGAGCCTGGTCGCTTGGCTTTCAATGTGGTGTCTTCTACCGTGACACAGCTGAGCTGGGCTGAGCCTGCAGAAACCAATGGGGTGATCACAGCTTATGAAGTCAGTTATGGGCTCGTTAACGAGGACAATG
Seq A exon
GTAAGTGCTCATTTTCTGGTCAGGGCAGCTCTACCAGTTGGAGTCTACTTTCCACACCTGGGATGGTCCCATGTCGCAGCAGGAAACCTGGAGGTGCTCCAGAAAAGGATAGATGTCACACTGAGGGACTTTGGGTTAGTGGGCACGGTGGGGATGGGTTGATGGTTGAACTGGGTGATCTTACTGGTCTTTTCCAACCTGAATGATTCTATTGTACTATGATTCTAGAGCCAAAAGGGCATTTATTGTGAAAACTGGATTCAAGGAGGGGTCGTTTCCAGGAAGAAGGAGTACAGCAAATCATAACTGCGGGTTTAATCCTGCAAAGCCATGAGTACTCTCAATTCCCATTCATTTCTGCAGTATTTAGTGGTGTTCTTCATGTTTAAAACTTTGTTTGTAGGTTTAGACCTAGAGCTACGGTGGCAGAAAGATACTATGTGGTAATAGTGGACTTCTGCAATAGGCTGACTTCAGCATTCAGTGTGGGGATTTCCCCAAGGCAATGTCATGCCTGTCATGAGCATCCCAGATAGCCTCTACGCCTTGTCCCTGAGCCGAGCTGTGTCCAAAACTCATCTGTGTGACCCATGTCCAGATGGACTTGTGGTTTGTTAGGAAGGTGCAAAACTCATCAATCCTGTTGGCCAAGGATGCGCTGCTGTGGGGCTCTCTGTGTCTCACATCCTCATGGGGGATGTGTGTACTTCTATTTTCAG
Seq C2 exon
TCCCCATTGGCCCCATGAAGAAGGTGCTGGTTGAAGACCCAAAGAAGCGCATGGTGCTGATAGAAAACCTGCGGGAGTCCCAGCCCTACCGCTACATGGTGAAAGCCAGGAATGGTGCTGGCTGGGGACCTGAGAGAGAAGCCACCATCAACCTCGCTACGCAGCCCAAGCGTCCCATGTCTA
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000002389:ENSGALT00000003760:30
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=0.194
Domain overlap (PFAM):
C1:
PF0004116=fn3=PU(48.9=93.6)
A:
NA
C2:
PF0004116=fn3=PD(50.0=72.6)
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:
CTAGTGAGCCTGGTCGCTTG
R:
TAGACATGGGACGCTTGGGC
Band lengths:
318-1037
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]