GgaINT0047425 @ galGal3
Intron Retention
Description
NA
Coordinates
chr7:19974922-19976021:-
Coord C1 exon
chr7:19975821-19976021
Coord A exon
chr7:19975059-19975820
Coord C2 exon
chr7:19974922-19975058
Length
762 bp
Sequences
Splice sites
5' ss Seq
CCAGTAAGC
5' ss Score
5.34
3' ss Seq
TTTTGTGTCCTTGTTCATAGTCT
3' ss Score
8.44
Exon sequences
Seq C1 exon
AATGACCAAGTTCTCCAAGGTTTTTCAGTCGACAAAGGGGAATTTACTTGTCCTCTATGTAGGCAGTTTGCTAACAGCGTTCTTCCTTGTTATCCTGGAAACAACGTGGAAAGAAGCCTTTGGCAAAGTCACAGTAACAAGTGCATGCGAGATCTTGTACAGGAAGTGGAAGATCTTCAAGAACAGCTGGGAACTTTCCCA
Seq A exon
GTAAGCATCAGTGTAAGGCAGAAAGATCCTTGTTAATTTGCCTCTACATATCAGTTTTTACCTTATATTTGTGACCTCTTAGAAATGTGACAACGTGGGAAGCTTCATTTTCTTTTTATACGGAAGATGACATTATTTCATTGCTTAATCAAAATGTTTCAAACGCTTGCAGCATTTATTGGATTGCCTGCTAGAATAAGACATACAAAAAGCAAAAATGTGATTTGTAGTTTTTTTGTGGATTACGTTTTCACTTATCTCCATTGTAATTTACATGGAACTGAGTCATAGTATTAAATATAATATTAAATTCATTTATCATTTCTTTACAATATAAAAATATCAATATCCTTCTGACTGGAAGCTGTTAAAAGAATGCTTGTTAAGAACAATTTAAGATATGGAACATTTGTTGTAGTTGGAGTGTAGTTTACCAGATGTTCACATTTTGCAAAGCTTCATGAAGACAAAAAAAAAAAAAAGGCCTCCAGTCTTGATGGCGACGTTATGTTCATGTCCTTGTGCAATGCACATACTGTCTGAAATAATGCAAGGTGAAGAATCTCACTGCTTCCACTGTTCTCAGAGAGTCAGAAGAAACTAACATTCTGTGAGGCAGAATATTGTCTTTTAATGCCTATTTTTTCATACCTGTGAATGTATTTGTATAAACGTGAAAGTACCAAACTTCGCTAATTCAGCTAATGAGCTGTTGCACTTCTTTGGGTAAAACTAAGTGAACTTTTGTGTCCTTGTTCATAG
Seq C2 exon
TCTGAAACAAACCTCAGTAAAGAAATGGAATCTGTGATGAAAGACATAAAAAGTACCACACAGAAGAAGTATACAGATTACAGCAAGAGTCCTGGATCCCCTGACAATGACTTCCTGTTTATGTATTCAGTAGCCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000009608:ENSGALT00000015660:6
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.015 A=NA C2=0.283
Domain overlap (PFAM):
C1:
PF136391=zf-RING_2=PD(34.5=29.9),PF0080420=Syntaxin=PU(47.1=35.8)
A:
NA
C2:
PF0080420=Syntaxin=PD(49.0=54.3)
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:
TGACCAAGTTCTCCAAGGTTT
R:
TGGCTACTGAATACATAAACAGGA
Band lengths:
335-1097
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]