GgaINT0095054 @ galGal4
Intron Retention
Gene
ENSGALG00000007145 | ITGB1
Description
integrin beta-1 precursor [Source:RefSeq peptide;Acc:NP_001034343]
Coordinates
chr2:14000948-14002093:+
Coord C1 exon
chr2:14000948-14001037
Coord A exon
chr2:14001038-14001952
Coord C2 exon
chr2:14001953-14002093
Length
915 bp
Sequences
Splice sites
5' ss Seq
AATGTAAGT
5' ss Score
8.62
3' ss Seq
GCTAATAACTACTGGTTTAGTCC
3' ss Score
0.97
Exon sequences
Seq C1 exon
GAACTGAAAAACCTGATACCAAAATCAGCAGTGGGAACGTTGTCTTCCAATTCCAGCAATGTCATTCAGTTGATCATTGATGCATACAAT
Seq A exon
GTAAGTTCAAATCTTGTTTGCATGGTATTTGTTTTCCTTGCTTCTACACTGTTACGAATTTTTCCATGGTGGATTTTAAGTTTTTCTACAAAATAGGAGGTTAGTATTGTGAAGGATAAACATAAAACCACATCAGACATTCAGACACTGACAATAGAGATTAGATGGCTACAGAGATTCACTGTTACAGTTACTTCAAACACAAATAGAAAGAAGTTATCATCATTTTTATCCCTTGAAAAAGAAGACACAAACAAACCTGTTTCTTTAGAGCCTTCAGATTTTTACCTACCTTTCTTTCATATGGAAAAGCAGAGGGCCACTTTCCACTCTCTTGACTCCAAGAAAAATGTTTCCATCAACATCAGTGGCTCCTACATTTGGACCCAGAGTGTTTTCCTCATAGCTGTGCAGTACCAACAAGCACCATTCCCCCTTTGGAGCACACGGCACAAACAAATGTCTCCCAATGCCCACGTGTAGCAGAGCTGAGGTATGATAAGGGATCACCTGGCGTGGCCATGGACAGCCCTGAGCTGGGCTTTCTGGGCACCCCAGCACTGCCCAGCCCCAAGAGTGTCTCTCCCTGCTGGGCACAAGGCAGACTCCACAACATTTCCCTCTGCCCACAGCACATCTTGAGGGGGAGCGTCGTGCTTGGATTCTGTTGTGTTCAGAGCCAGAGCCAGCTCATGTTCCCCCATGAGAGCCACTGGGCATAACACACATCAGGACTGGGAGTAAGTCCCAAAGCCTCTTTTGCTCATTTTCCCACACGTCCTGCACTTCCCCGTGTATAGATGGCTCTGCATCAGTAGGAGAGTCAGAGAGCTACCTTGCTCAGACTGTCCTGGATTTTTCCATTAAAATGCTTTTGCAACTCCATTCTAAGTTAGCTAATAACTACTGGTTTAG
Seq C2 exon
TCCCTTTCTTCAGAGGTGATCCTGGAAAACAGTAAGCTACCAAAAGAAGTGACAATCAGTTACAAATCATACTGCAAGAATGGAGTGAATGACACGCAGGAAGATGGAAGAAAATGTTCCAACATTTCAATAGGAGATGAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000007145:ENSGALT00000011573:9
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:
PF0036213=Integrin_beta=FE(6.7=100)
A:
NA
C2:
PF0036213=Integrin_beta=FE(10.6=100)
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:
GAACTGAAAAACCTGATACCAAAATC
R:
TCATCTCCTATTGAAATGTTGGAACA
Band lengths:
230-1145
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]