GgaINT0049601 @ galGal3
Intron Retention
Gene
ENSGALG00000011141 | E1C6K8_CHICK
Description
NA
Coordinates
chr7:23398837-23400402:+
Coord C1 exon
chr7:23398837-23399254
Coord A exon
chr7:23399255-23400179
Coord C2 exon
chr7:23400180-23400402
Length
925 bp
Sequences
Splice sites
5' ss Seq
GAGGTAAGC
5' ss Score
9.85
3' ss Seq
TATAATAAATGGTTTTCCAGGCA
3' ss Score
6.38
Exon sequences
Seq C1 exon
GTCTCTTTCAATGTGACCATAAGTCTGCCCACTTGTGATAAAACCACCAGGCACGTTGTGATAAAACCAGTAGGTCTCAGCGACATGCTGGAAATGGAAATCCTTCCCCAGTGCAGCTGCGGCTGCCAGGCCGAGGCTGAGAGCAACAGCTCAAAATGCAACAAGGGAAAAGGCTCTTTTGAGTGCGGAGTGTGTGTCTGCCACCCCGGGTACATGGGTCCGCACTGCGAGTGTGATGAGAACGCCCTCAGCACAGGATCCTGCAAGGGCTCCGTGGAGCAGAGCTCCTGCAGTGGGAGAGGCAGCTGCTATTGCGGGCAGTGCGTTTGCCACCCATCCATGTATGGAAGAGTTTATGGGGCACACTGTGAGTGTGATGACTTCTCATGTGTGAGACACAGAGGGCTTCAGTGTGGAG
Seq A exon
GTAAGCACCCTATGGGTTGTGTATAGTGTCTGTGATTTAGAGCACTGTTGTCTCCCTCTTACTTATGAGCTTGTGAAGCTCTCTTTTTGTTATATATTTGATTATAATCAGTATGTATAAAAGTAGTATTTCTGTATGATCCTTAGATCTAAAAATATTTTTTTTTTACCGTATTCTGAAATTTTCAAATGGAACACCTTTAGCCACACCATAGCTCATAGAAGCTGGCATTGCTTTATTGGACCGTACCTGCCTCCATCACACTGGGTTAAATGTTCAGTGGTTGTAATGGCTGTAGCTTTAAAGAAGTTTAAAGTTATTGACGTACATTGATGTGAAGCAGTGTGCAACTTCACTCTGACACAGTTATCAAAGTATAGCCATCTTAACCATTTTGGGGCACATTCTGATTTATATATATTATATAAATTTAACCCAGTAACCTAGATGATTGCAACTGTTCTGGGCTTATGCGAGTATGATACAGTCAGAACGTGAGGAGTTGTGTTTATCATTTTTTCCTGGGCTCTACAATCATCAATCAGAAGTGATTCTACTGAAACAATGGGAATAGTATTGAACTGGCAGGAACCAGCAATGAGATTATGCTGAATAGATAGGCTGGATTCATGCTGCTGGAAGTGAAACAGGATTTACCCATTAAGTTGTGCACTGCTGGGAGATAAGTATCTCTGTGGAAGCCTCCAGTGAAGAGAATGGAGTTGCGCTGGCTTGCAGCCAGTCAAAGTGAAAATTTGATCCACTAGCATAGAACTGAAATATGGAGGGGAGGAAGAAAGAGGTTAAAGAGTGAGCTAAGTGCTGGAATAGAGAAAATACCTGTTATTAAGAAGAATGATTTTAAAGGCTGTCATTCCAGTTCATTTTGAAAGACTGAGCTGAAGTATAATAAATGGTTTTCCAG
Seq C2 exon
GCAATGGAGACTGTGACTGTGGTGAATGCGTGTGCCACAGTGGATGGACTGGTGAATACTGTAATTGCACAACTGACACCAACTCCTGCATTTCTGAGGATGGAACGCTGTGCAGTGGGAGAGGCGAATGCATCTGCGGGTCGTGTGTATGCATACATCCAGGGGCTTCAGGCCAAACCTGTGAAAAATGCCCTCTGTGTGGTGACCCTTGCAGTTCCAGACG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000011141:ENSGALT00000018170:10
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=PD(9.2=27.9),PF126612=hEGF=WD(100=9.3),PF079748=EGF_2=WD(100=32.9),PF079748=EGF_2=PU(32.3=7.1)
A:
NA
C2:
PF079748=EGF_2=PD(64.5=26.7),PF079657=Integrin_B_tail=PU(4.8=5.3)
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:
GGAAATCCTTCCCCAGTGCAG
R:
CGCATTCACCACAGTCACAGT
Band lengths:
353-1278
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]