GgaINT0047604 @ galGal3
Intron Retention
Gene
ENSGALG00000012547 | F1NC97_CHICK
Description
NA
Coordinates
chr7:37871789-37872826:-
Coord C1 exon
chr7:37872659-37872826
Coord A exon
chr7:37871946-37872658
Coord C2 exon
chr7:37871789-37871945
Length
713 bp
Sequences
Splice sites
5' ss Seq
AGGGTGAGC
5' ss Score
7.75
3' ss Seq
ACTCTCCTTCCCATGAACAGGCA
3' ss Score
8.54
Exon sequences
Seq C1 exon
ACAACGGGACCTGGACCCAGCTGTGGCTCGTCTCTGAGTACCACGAGCAGGGCTCCCTGTTCGACTACCTGAACAGGGGCACGGTGACGGCGCAGGGCATGGTGAGGCTGGCACTGTCCATCGCCAGCGGCCTGGCACACCTGCACATGGAGATCGTGGGCACGCAGG
Seq A exon
GTGAGCGCTCCTCCTCCTCCTCCTGATGCTCTGCCTTCACCTGCATTAAGGGACTGCAGCGCTGCTGCCAGCAGTGCGTATTGCTTAGCTGGAAGCAAAGCATTCTACATGCTGTTGCAGTGCAAGAAATGCTTATAGCATAAGTGTATGTGATACAGTGTGAACAGAAGATAGGAAACAGCCATTCTGACTGAGTTGGCAGTTCTCTCAGCTTTTAAAATGCAGATTTTCTGAGCTTCAGCACTGCTTTTCGAGGGACAGCCCAAACAGACCCTTCCTTGCCAGTCAGACACGAAGATCTGGTCTATAATCAGACAAAGCCCTCCTCTGTTACGTGATGGCTCAGCAGTGCTGGTCAGGCTCTCCCAGGCACTCCTGGCCTGCTCTGGCCACCATAAGTGAGCATCTGTAGGAGCAACCGTTGGAGGGTGCACTGACGAGCAGTTCCCTAAGTGACTTTGGAGTGGGAATTTTGCAGTTCTGTTCTTGAAATACAAATATTTCAACAAAAGCGCCTTCAAGATCTTCTTGTTGTTGTTGTTTTTTAATTGGATAGTATTAAGCAGAGCTTTACTTGGAATGGAACGACTGTCATGTCTTTTACAAGGAATAGCACCAAAGCTGATTGCAATTGTTTCTGTTTTGCTTGCTCATTACGTTACAATTCGCTTTGTGACCATCAGAACAGCTGGCACTCTCCTTCCCATGAACAG
Seq C2 exon
GCAAACCAGCGATCGCTCACAGGGACCTGAAGTCCAAGAACATCCTGGTGAAGAGGAACGAGAGCTGTGCCATCGCAGACCTGGGGCTGGCAGTGAAGCACGACTCCGTGCTCAACACCATCGACATCCCGCAGAACCCGCGGGTGGGGACAAGGAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000012547:ENSGALT00000020491:5
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:
PF0006920=Pkinase=FE(19.4=100)
A:
NA
C2:
PF0006920=Pkinase=FE(18.1=100)
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:
GGACCTGGACCCAGCTGT
R:
CTCCTTGTCCCCACCCGC
Band lengths:
319-1032
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]