GgaINT0039874 @ galGal3
Intron Retention
Gene
ENSGALG00000002090 | GPSM2
Description
NA
Coordinates
chr8:1333164-1334760:+
Coord C1 exon
chr8:1333164-1333234
Coord A exon
chr8:1333235-1334583
Coord C2 exon
chr8:1334584-1334760
Length
1349 bp
Sequences
Splice sites
5' ss Seq
AAGGTTGGT
5' ss Score
8.46
3' ss Seq
GGTTGTTGGTTTTTTTTTAGGTT
3' ss Score
8.71
Exon sequences
Seq C1 exon
GTACCCGGCCCAGGGTAGGACGTCGTCACAGTATGGAGAACATGGAACTTATGAAATTAACACCAGAAAAG
Seq A exon
GTTGGTGCTTTTATTTTTTTGGCTCTGCTGCTGATATTGCAATGAAATCTAAAGGTTTTTATTAGAGTTGAATGTTAAAAATGATGACTGACATCAAAAGAATTCCTGTAATTGCTTTTTTAAGAGTGGTTTGTGGGTGATGCAGAAGGTGATTCTAAACAGAACTCCAAAGCTTTAGCTCAGTCTTCAAGGAGAAGTCTCTTTAGAATTTAAATATGAGCGGGCAGTTCTACATAAATGATTCCAGTGGGAAGCTGAAATTGCTATATTTTCCCTGCATATTGGGATACCTAATGCCCATCTTTTCAAGTGAGCCAAAGCATACTGCCATGTTCAACAATACAAAATGAAATCTCAAAGCTTACACAGTGACAGCTGGTGCAGTTGCAGCAGCACCGTTACTTTGAGCGCCGCTTTGGATACTGATTTCTGAAGATCCTGGGTTTTATTGCAGATGGATTTCCCTGCAGGGAACCCTTAAGCTTTTCACAGTATCAGCTGTATTTTCTTATTCTCTGAACCCATTTGTCTGTGCTGTCTTTTAAAATATGTAGCCTGTGATTGTCTGCCCTAAATATACTCAAATGCTTCATGTGTATTTTTATAATCAAGTATTAACCTAGTTTTGTGGCTTTGTTCTTATAAAGGGCTCTTTTCAAGACATTTATGTAGAAGGTTCTGAAGTTTACTCCCTAAGTGTCTTTAATGTGTAGAACAACGCGATGTACACTAGCAGTATGGTTTGATTGTACAGGATGCTGTCGTCTTGGAGCTGGAACGTGGGTTGACCTCTAATGCTTTAGAATGAATTCTTTTTTGCTGAGATTGGATTGTGGCTACAAGCTCTGACACGGGGTCAAGAACTTTTTTTTTTCTGATTAGAAAAGTTTGTTATTGCAGAGGAAGTTATCAGATTTATGGGACACTGATTTTAGAAGAAAATTTAGGGGAACTCTGTCAGACTGGTAAAGCTATCCCTGCTGTTTTCAGTGAAATGAGACAGTTAATCATGTTGGCTCTTTTGCTGGCATTTTCTCCGTTCTTCCTACAGTTTCTGCATGGCCCTCAGCATGTTTGATTACACAGGCCATGAGCACATTTTAGTCAAATCAGTTGTTGGATGATGGTTCACTTATAAGATTGATCAGTAACAGTAGTGACCTGATTCAGGTAACAAGATCTCAATAATCACAGGTCAAGTAACAGAAGCAAAACCTAAGTTTTTATGTTCTACTGGTTGGATAAAATGAATAGCATAAAGCTGTTTCGTTTTGGGAGGACAAGAATACACAAATAGGAAATAAAAGAATATATGATGAAAATGTTCTTGGTTGTTGGTTTTTTTTTAG
Seq C2 exon
GTTCAGAGCTGGAACAGTGAGATTCTTGCTAAACAGAAGCCACTCATTGCCAAACCTTCAGCAAAACTGCATTTTGTAAATCGACTCAAAGGCAAAAAGTACAAAAATGGCACCGCTTCCAAAGTTCTGCAGGATGCCAGTAATTCCATTGACAGCCGCCTTCCCAGCGCTCAGAGG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000002090:ENSGALT00000003258:11
Average complexity
IR
Mappability confidence:
NA
Protein Impact
No protein impact description available
No structure available
Features
Disorder rate (Iupred):
C1=0.875 A=NA C2=0.407
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
NO
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Rat
(rn6)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
CAGGGTAGGACGTCGTCACAG
R:
CCTCTGAGCGCTGGGAAGG
Band lengths:
238-1587
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]