GgaINT0095050 @ galGal4
Intron Retention
Gene
ENSGALG00000007145 | ITGB1
Description
integrin beta-1 precursor [Source:RefSeq peptide;Acc:NP_001034343]
Coordinates
chr2:13997114-13997781:+
Coord C1 exon
chr2:13997114-13997284
Coord A exon
chr2:13997285-13997542
Coord C2 exon
chr2:13997543-13997781
Length
258 bp
Sequences
Splice sites
5' ss Seq
TTGGTAAGA
5' ss Score
8.85
3' ss Seq
TTTCTCTTTTTTTTTCTTAGGAT
3' ss Score
12.22
Exon sequences
Seq C1 exon
GGGAACCGCAAACATTTTCATTAAAATTTAAGAGAGCTGAAGATTACCCCATTGACCTTTATTATCTTATGGACCTCTCCTATTCTATGAAAGATGATTTAGAGAATGTGAAAAGCCTTGGCACAGCTCTGATGCGTGAAATGGAAAAAATAACCTCAGATTTTCGAATTG
Seq A exon
GTAAGAAAGATTTGTTATTGAAATGTTTCCTTCTTGATGGTTTTCACACCATTACGTATGGAGACCTTTTTTAAAGCCAGCAATACTGTGACAGAATAGAATCTATTGAGCAATGTGGAAATACGTGGCGGAGAAAGGAGAATGCAAACAAGTATGAGAAGCATTTCTAACGTCAGAACACCTATAATGAATTTGCATTCTGTAAATAATTGAGCTACATTCTTCAGCTCACAGAGTTTTTCTCTTTTTTTTTCTTAG
Seq C2 exon
GATTTGGCTCTTTTGTGGAGAAAACTGTGATGCCATATATAAGTACAACACCAGCCAAACTGAGAAATCCTTGTACAGGTGACCAGAACTGTACGAGTCCGTTTAGCTATAAAAATGTGCTCAGTCTTACTAGTGAAGGAAATAAGTTCAATGAGCTTGTAGGTAAACAGCACATTTCTGGGAATCTGGATTCTCCTGAAGGTGGATTTGATGCAATAATGCAAGTTGCTGTTTGTGGG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000007145:ENSGALT00000011573:5
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=0.037
Domain overlap (PFAM):
C1:
PF0036213=Integrin_beta=FE(13.2=100)
A:
NA
C2:
PF0036213=Integrin_beta=FE(18.3=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:
GAAAAGCCTTGGCACAGCTCT
R:
CCCACAAACAGCAACTTGC
Band lengths:
301-559
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]