GgaINT0127456 @ galGal3
Intron Retention
Description
NA
Coordinates
chr18:7957975-7958862:-
Coord C1 exon
chr18:7958677-7958862
Coord A exon
chr18:7958108-7958676
Coord C2 exon
chr18:7957975-7958107
Length
569 bp
Sequences
Splice sites
5' ss Seq
AAGGTATGC
5' ss Score
9.55
3' ss Seq
TTTGTTTGTTTTCTGTCTAGATT
3' ss Score
8.57
Exon sequences
Seq C1 exon
ATTCACTTCTGTTTCATGCTCAGCTCCTTGTTAAAGCAGCCTCACATTACCAGTTTTGTGGGATTTTTCCTTCACGTCGTCTTTGGCTCACTGGGCTTCATGACGTTCTTTGAAGAAGTGCCACCATCTTTGGAATGGGTCTTTAACCTCTTCAGTCCTTACACTTTTACAGCTGGCATCTCAAAG
Seq A exon
GTATGCTCAAAACAAAGCCATTGCATAGGGATGTTCAGCCTGCAGCACACACAGCTTCTGCCATCTGGCGTTGCATCTGCTATATGTGATGTGCATCTCTGTAGTGATGCAGTTGTGCCCCTACACTCTAAATGCTTTGCAGGAAGAAAATGTGACTCCAAAAAAGTAGATGTTAGCTATTGGTCAGAACCTCAGCAGGGATTTTACTAGCTGTACACACCATAAGTTTCCATCTCTGGAAAGCTGTTGCAGCAGTGAATGTGGCTTGTGGGCATCCAGAGCTGCAGAGCAGCAATGTGTTCAGCTGCCTCCCCAGCCAACACCACAGGCATTGCACTGCTGCTGAGGGGAACTCTGCAAGAGTCCAAGTTCACTCTACTGAGACCCTTCTGATGCTTCTGGTCTTTAAGTGATAGAAACAGTGCCACCATCACAAATGGGTGGGCTTCCTGGGAAGAGAAGGCCGTGGGACACAGCTGTAGCTTGCGTGCCATATCTCTGGCTAAAGGAAAGGTTGCATCTGAATTGTGCTGTTTTTTGTTGTTGTTGTTTGTTTGTTTTCTGTCTAG
Seq C2 exon
ATTGTAAAATTAGAAAAATATGGACCGACTGTCGCAGCAGAGTTGTACCCTTTCTTTAACCTATATGGCATGCTGATCCTGGACAGCATTCTGTATTTGCTGCTGGCCATCTACTTTGATAAGGTTTTGCCTG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000021391:ENSGALT00000034523:2
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=0.000
Domain overlap (PFAM):
C1:
PF126982=ABC2_membrane_3=PU(58.9=98.2)
A:
NA
C2:
PF126982=ABC2_membrane_3=PD(38.9=82.2)
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:
TTCACTTCTGTTTCATGCTCAGCT
R:
ACCTTATCAAAGTAGATGGCCAGC
Band lengths:
310-879
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]