GgaINT0106492 @ galGal3
Intron Retention
Gene
ENSGALG00000016946 | SUGT1
Description
NA
Coordinates
chr1:169998191-169999462:-
Coord C1 exon
chr1:169999281-169999462
Coord A exon
chr1:169998732-169999280
Coord C2 exon
chr1:169998191-169998731
Length
549 bp
Sequences
Splice sites
5' ss Seq
TTTGTAAGT
5' ss Score
7.4
3' ss Seq
AATGTTTTCTCATGTTGCAGATG
3' ss Score
10.24
Exon sequences
Seq C1 exon
ACACCCAGCACTTATATCCATCATCCTCTCACTATACAAGGAACTGGGACAAACTGGTAGTTGAAATCAAAGAAGAAGAAAAGAACGAGAAGCTAGAAGGAGATGCTGCTTTAAATAAACTCTTCCAGCAGATTTATTCAGATGGTACCGATGAAGTGAAACGTGCCATGAACAAATCGTTT
Seq A exon
GTAAGTCTTCACTCTTTCTCTCTAAAGAAATGTGTAACTTTTGCACAGTGTCACGTTGTACTGAGCTTTGCGTGCATCAGAAGGCTTCTGTTCAGCAAGACCCTGGGCCTGTCATAAATGGCACTGGTTCAGTGGGAGAGGTTGGTATAACAGGTCTCAGTGGAAGATGGTGCTTTGTTGTTGGTTTCTTTGTTTCGGTTACTGTTAGTAGAGGGAATATAGTTTTTTGGTTCCTAGGGAGCTTTTGTTGTTGCTCAGGATGAAAGAATCGAATTTCTTAGTTCTTTACAAGAATGTGAGTGACCCAATAAAAGCATCCTGTTAATTAACTTCTCATTATGTCCAACACTGACAACAAGTATTTTTAGGCTGAAGATTATGGACTGATGACTGTCAGACTTCATTCAACAAACGCACAAAATTCCTGTGTAAATTGCCCCTATATGAAGTTTAAATACTTCAGGTTCCTTCAGAGTTTGCAATCTGCTGTGACTTCTGTGTTACTAGAATTCCTGTAGCAAACTAAACAAATGTTTTCTCATGTTGCAG
Seq C2 exon
ATGGAGTCTGGGGGCACAGTTCTGAGCACCAACTGGTCAGATGTTGGTAAAAGGAAGGTAGAAGTAAATCCTCCTGATGATATGGAATGGAAGAAATACTAATCCTATTTTTAATCTTTCACCATCTGTGTTGCCATAGTCATGTACTGGCCACTGTATATGAACATAGCATTCTTGGATTCAAAGCACTGAAATGTTCCCTTGGAAACAGGAATTGTCTTTGCATTTTGCGTGCTTTACAGATTTCTTCATCTGCAGATGTTAAAGATGTATTCAAGAGTGGAATCCTGTTTTCATCACCTCTGTCAAGTTTTTGGAAATTGAGTCAAATGCAGTCTAAATTTTCTACCACCTTTATCAGCTCTGCTCTTTGGGGATGGGATGATCTCTAACGGGCTGTTAAGGATCATTGCCTTACGCCTGATATTTCTGTTCAATAACTTATTAGACCTTGGCAACTTTGGGTAAAAATACTTTACAACAACAATGTTAAAATTGTTTGCTCTTTAACTCTGCTAAATAAAACTGTAAATACAACTTT
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000016946:ENSGALT00000027390:11
Average complexity
IR
Mappability confidence:
NA
Protein Impact
Alternative protein isoforms
No structure available
Features
Disorder rate (Iupred):
C1=0.066 A=NA C2=0.333
Domain overlap (PFAM):
C1:
PF140391=YusW=PD(84.1=95.1),PF0500210=SGS=PU(58.5=78.7)
A:
NA
C2:
PF0500210=SGS=PD(39.0=94.1)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Other assemblies
Conservation
Human
(hg38)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
CAAGGAACTGGGACAAACTGGT
R:
TCCAAGGGAACATTTCAGTGCT
Band lengths:
352-901
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]