GgaINT0005203 @ galGal3
Intron Retention
Description
NA
Coordinates
chrUn_random:28139981-28140454:+
Coord C1 exon
chrUn_random:28139981-28140032
Coord A exon
chrUn_random:28140033-28140265
Coord C2 exon
chrUn_random:28140266-28140454
Length
233 bp
Sequences
Splice sites
5' ss Seq
ATGGTAAGG
5' ss Score
9.33
3' ss Seq
TCTCCCTTTGTCTCTTCAAGAAC
3' ss Score
8.76
Exon sequences
Seq C1 exon
GAAGTGGAGGAAAGAGTTCAAAGATCAGTGGACAAAGGAGCAGAAGAGAATG
Seq A exon
GTAAGGGGCTGAAAGATGGGTGTGATCCTCTGACAGCTCAAAACACTGGAAAAAAAAATATCTAAATAACATGTCCTGCTAGGACCTCCATTAGGGCACCTGAATTGTGGGAGAAGAGGGAGAGCATTGGAGTGATAATTCCCGTGATGTTCTCTTGAACCAGGAGATGGGTGCTTTCCTCCCAGGCATCGCTCCTCTCTGGGGCTTCCTAAATCTCCCTTTGTCTCTTCAAG
Seq C2 exon
AACGAATCCCTGTCCTTGCTGCGCAAAGCCCGCCTACAGTACATCCAGCGCTGCGAGGAGATGGAGAAAGCCAAGCAGCTGAGTGCAAAGGCAGAGGATGAGTACCAGAACTCGGCCATCATCAGCCCCAGCAGTGCCATCAAGCATCTGGAGAAGCGACGGCGCTCCTGTGAGGAGGCACAAGCCAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000022318:ENSGALT00000035891:1
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion (1st CDS intron)
No structure available
Features
Disorder rate (Iupred):
C1=0.000 A=NA C2=0.016
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
PF079267=TPR_MLP1_2=PU(57.0=96.8)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
GAAGTGGAGGAAAGAGTTCAAAGA
R:
GCTTGTGCCTCCTCACAGGA
Band lengths:
237-470
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]