GgaINT0011574 @ galGal3
Intron Retention
Description
NA
Coordinates
chr20:9723005-9724114:+
Coord C1 exon
chr20:9723005-9723246
Coord A exon
chr20:9723247-9724028
Coord C2 exon
chr20:9724029-9724114
Length
782 bp
Sequences
Splice sites
5' ss Seq
TGTGTAAGT
5' ss Score
7.65
3' ss Seq
ATGCTTATTTCTCCTCACAGGCG
3' ss Score
9.47
Exon sequences
Seq C1 exon
AAGCTGACCCTGGGTCACAAGGAAAGATCCGAAAACAAACTTGTGGTGGATCCGGATACATATACCTGGGTGGCTCACGGGCTCACTGAGGAGTTTGCTGATGATCACAAGTCAGACAGGAGTAGTAAGCAGACGCTGAATTTTTACATCAACTACATGTCTATGGAGAATGTCCCTGCGGAAATCTCGCAGGCCTCCGCCAGGTTCACCGTGGAGCTCATCCCAAAGATGCTGCCAGATGT
Seq A exon
GTAAGTGTGCTTACACTCGTGCTCCGGTTAGCCCAGCGGGGCAGAGTACCTGTTCCCATGGGTCTCCTCTGCCAAACCCAAACAGCCTTTGCTTTGCCTGAAAATGTCATTGCGCAGCCCCAGCTGAGCTCTTGGGCCATTAATGTTTGGACGAGGTGTTGGCTTTTCTCAGATCTGTTCTCTGGATGCCTTGTGTTCTCCCAGCTGGCAGTGAGGATGAGGCTGGGGATACAAAGGAAGGTGCCATGCTGAGGTTTCCCTGCACATCTGTTTCTTCTGTTCCTGAATTGCTGCAGTGTGTAATAAAAGGCACTGTGAAGCACTGAGGCAGGGTTTGCTCCCTGATGTTCCAGTTGTTCTCCTTTGTTGCTGTGAAGCATTGTCTGCTCATACTGAAGCAGAGCTGATGAATCGTTTTCCCTCCTTTGCCTGCTAATTGCATCCATGACTGCTGTAGCTGTTGGAGGTAGAATTTACTTCCCTTCGTGTCTTAAATTTTAGGAAAAATTGGAAGCTAGGCCAAGAAAATAGAGTGGGACCATAACAGAATGAAGTGGGGACAGAAGCTGTGCTCCTTCCTCTCCACATATTTGCAGGCTTATCTGTTCAGACAGGCACGAATTGCCCAATAAGACTTGTATGCAAATCGTTTTAAGTTCTTTCTGGAAGGATTTGACACAACTCCAAAGCAAAAAGAGAGCAAACAAGACAAGTGTACAAAGCTGTACTGTTGTTTTCACTATTTTATGCTACACTTCAATAATGCTTATTTCTCCTCACAG
Seq C2 exon
GCGGAAAGAAAATGCAATTTGGAAGCTCCAGAATGCCTCCGATCTCGCTAAAAGCATTGCCCTTGGCCATGAACCTCCATCAAAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000006138:ENSGALT00000009906:9
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.049 A=NA C2=0.100
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
NO
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping 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:
ACCCTGGGTCACAAGGAAAGA
R:
TGATGGAGGTTCATGGCCAAG
Band lengths:
318-1100
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]