GgaINT0070364 @ galGal3
Intron Retention
Gene
ENSGALG00000011762 | UBA6
Description
NA
Coordinates
chr4:53133612-53135121:-
Coord C1 exon
chr4:53134928-53135121
Coord A exon
chr4:53133740-53134927
Coord C2 exon
chr4:53133612-53133739
Length
1188 bp
Sequences
Splice sites
5' ss Seq
CTGGTGAGT
5' ss Score
10.1
3' ss Seq
GTGATTCTTATTTACTGCAGGTT
3' ss Score
8.32
Exon sequences
Seq C1 exon
ATGACTTACAAATGAAGCCCATTTCCTTTGAAAAAGATGATGATAGTAACGGGCATATAGATTTCATAACAGCAGCATCAAACTTGCGAGCCAAGATGTACAACATTGAACCAGCAGATAGATTCAAAACAAAGCGCATTGCTGGCAAGATTATTCCTGCAATTGCAACAGCTACTGCTGCAGTTTCAGGGCTG
Seq A exon
GTGAGTATGCTTGTAAAAAATAGTGAAAATGTTTCTTTCAGTTACTAAAACTTTCAGCCTAAAACCACTGCTGTCTGGATATTCATTAATGCTACACTGACAGAGCCTCATTTAAGAAGCAGGCTTAAAAATCAGTATGAATACATCATTGTGATCTCTACTATAATGGTAATTATTAGTCTAATATGTAATGAATACTTTCATCTCAAACTTAGATTTTGTTGTCATTTAACCTGGCAGAGCAGGCAGCTGAGCACCACAGACCCATTTGTACATTCCCCTGCAGTGGGATGGCTGAGCAATGTAGGGGAAAAAAGGTAAAACTCTTAGGTTGAGGTAAGGGTTGAATAAGAAAGGTTGTACATCACTTCCCTTTTTCTCCCCACACTCCTAGTTACCACCTGCCAACCAATGCTCAGCCAGTCTCTGAACAACTCTCCCCAGTATTATTGTTCAGCGTGACACCATACAGTATGAAATATCCCTTTGGCCAGTTTGGTTAGTTGTCCTGGTTCTGTTCCCACCTATCTCCTTGTGCACCCCCAGCTCCTCACAGGCAGGATGGTACAAGAGGCTGAAATGTCCTTTGCTTAGTGTAAGCACTGCTCAGCAACAACTCAAACTTTGGTGTGGTATCTGCACTATTTTCCTCCCAAACTCAAATCACAGCACTGCATCGACTACTATCGCAGTCAAAACTGGGACATATTCTTCAATTTTTCTTGTGTAGCAATACAAAAGGTCAGTCTGGTTTTAGCTGTAGTCAACCCTCAGTGCTTTCCTTTCTGATCATCTGTCTAGAAAGAGGAGCTGCATATCAGCATTTTGGTTTGTTTTCTGCAATTAATACCAACTTCCATAGGAGTGCCAGTGTCAAAAGTAGTAAGGATCTGTTCTATAGTAGTTCACATCCATGCACCTCAACAAAACTTGGTGCTTTGTTGGAAGTGTCGAGAATTGGAAGAATTTAGAGGAGTTCCCGCATAAGGAATGTTTCTGAACAGTTTAAGTAATTGCAGCAGAGTTGGTTTCTTTGACATATTTGGGTTGCATCTTCAAATGTGATTGAATCTGTGGGTTGTACAAAGGCTCATCTCAACAAGACACACTGCTGTTGTGTGGTTAACTAAATTAATGTTGATGATACAACACCTGTGTTTGGTCTTATGTGATTCTTATTTACTGCAG
Seq C2 exon
GTTGCACTGGAACTCATCAAAGTTGTGGGTGGCTACCCAGTGGATGCTTACAAGAACTGTTTTCTGAACCTAGCCATTCCCATAATGGTCTTTACAGAAACTGCTAAAGTAAGAAGAACTGAAATCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000011762:ENSGALT00000019202:29
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.000 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF0213416=UBACT=PU(81.2=86.2)
A:
NA
C2:
PF0213416=UBACT=PD(15.9=25.6),PF093585=UBA_e1_C=PU(21.1=60.5)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Other assemblies
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
ATGAAGCCCATTTCCTTTGAAAA
R:
TGATTTCAGTTCTTCTTACTTTAGCA
Band lengths:
310-1498
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]