GgaINT0124583 @ galGal3
Intron Retention
Gene
ENSGALG00000001187 | STRBP_CHICK
Description
NA
Coordinates
chr17:9620038-9621739:-
Coord C1 exon
chr17:9621581-9621739
Coord A exon
chr17:9620173-9621580
Coord C2 exon
chr17:9620038-9620172
Length
1408 bp
Sequences
Splice sites
5' ss Seq
GAGGTGAGT
5' ss Score
10.03
3' ss Seq
CCCCATGAATGTCTCTCTAGGTA
3' ss Score
8.85
Exon sequences
Seq C1 exon
GTTTTACAAGCAATGGGTTATCCAACTGGTTTTGATGCAGATGTTGAATGTGTAAGTTCTGATGAAAAATCAGATAATGAAGGTAAAAATGAAACAGTGTCTTCAATCTCAAGCAATAATACTGGAAATTCTACAGCTGACACCTCTGCTACCCTAGAG
Seq A exon
GTGAGTAGTCCGTAGAAAACTCAAAGTGATGGAGAGGTACAGTGGGTTTTTTTTGTTTGTTTTTTTCCTTTTTTCCTGTCCTGGAAGAGGATGACATATTAATTACAGCACTGGTTGAGAAACTGAAGAGTTTCCAGTCTCAGACCTGCCCTGCCATAGGCTGCAGACTGATAATTTGATTTTTGTGCTTCTTTTTCTGGTGGAGTATCCATATTGTGCTCTTCAGATCATAAATTCTTTTTGATAGATATTCTTTCCTACTTTGCTCACATATGGTCCAAGGAGTAGGACAGCATTTTATTTGCTGCTCTTTGCCCTTAGTAATGGAAATCTGGCATTTTCTCTTCTATAACAGGCTTGTCAAAAAGGTATGGTTCTGTAGACAATAACTTAATGATACATCCATGTGACCAATAAAATATTTTTAAAATTCATTAGGAGATGTTAAGAAACAAACCTAATACCTCTATGTATATCAAAGCTGCATTGAAAATGAATCAATTTCAGTACAGTCAACGTTAATTTTCCCACTTCTACCTGAAGTCACTTGCTATAATGAAGAAAGCTGTGCTTGCTTCCTCACTGAAGTTGTGAAAAATAAAGTATTCCTCAAAGGAAAAAATTCCAGTAATTTTAGCAGTACTGATCGAACATCTCTGAAATCATGGTGGTATGGGCCTCTAGTGTATTAATTTACTTTCAAAGGACAGTTCCTAACACTAGGACTCTTGATCCTTATCCAAAATTAAAACTTGCTTTTGGAAATTTTTCTCAATCCATCATTCTTTACTACTGAGTGGTCATTTGCACCTGTAGCTGAGTGCACTATAATGCAGGCCCATGTGCTGCTGCACTTAGATCTCAGCCCAACCTTCCTTGCATCCAGATATATTTGTTTCAGCATGTGACCCATGCTGAAACTTCTTCAGTCAGAGCTCTCAGTAGTGCCAGAAAGTAATTAGATCAAGCAGCAGAGAAGCGTGCAAGATTGTGAAGGCCAGTGTCCCCTGTATCAGCATTTGATTTCAAGGAACTTGATACCATGACTTCAGTCATGGATACCTTGGGGGTTTAAATTCCAAGTGCAGCTGGTGTGATGCTTGGTGCTATGTAGATACCAGACTAGGCTCTGAAACCACTAGCTTGCTATCACACTAGAGACTAGACTTTCTATCTGCTGTTCTAGTGCATCATGTTATCAAGGCAGTGTTACCTTTGATACAGGTCTGCTCCTGGAAATTCTAGCGAGACGTGTGTATTAGGAACAACGTGTTATTGCAGAAACTTTATGAAGTGAAAATGCTGCCAAATGGCTGACCACTTGACACTGTATGCTATAATGCTGCAGATATTTGTCTGCTCTTTGAAGACATAAGGCTCTAAAGCATCCCCATGAATGTCTCTCTAG
Seq C2 exon
GTAAGAACTCAGGGTCCTATACTGACAGCAAGTGGTAAAAATCCGGTGATGGAGCTCAATGAAAAAAGAAGAGGTCTGAAGTATGAGCTCATCTCTGAGACAGGTGGAAGCCATGACAAGCGATTTGTGATGGAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000001187:ENSGALT00000034915:12
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.736 A=NA C2=0.644
Domain overlap (PFAM):
C1:
PF0003520=dsrm=PD(6.3=7.5)
A:
NA
C2:
PF0003520=dsrm=PU(50.8=71.1)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Other assemblies
Conservation
Cow
(bosTau6)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
GGGTTATCCAACTGGTTTTGATGC
R:
CTCCATCACAAATCGCTTGTCA
Band lengths:
280-1688
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]