GgaINT0124447 @ galGal3
Intron Retention
Gene
ENSGALG00000002375 | Q9W737_CHICK
Description
NA
Coordinates
chr17:8520720-8521174:+
Coord C1 exon
chr17:8520720-8520921
Coord A exon
chr17:8520922-8521020
Coord C2 exon
chr17:8521021-8521174
Length
99 bp
Sequences
Splice sites
5' ss Seq
CAGGTAGTG
5' ss Score
6.13
3' ss Seq
CCCTTGCTTTCCCTGCACAGAAC
3' ss Score
10.17
Exon sequences
Seq C1 exon
CTCCTGCTTCAATGGGGGGACCTGCGTGGATGGCATCAACACCTTCACCTGCCTCTGTCCATCCGGCTTCACGGGCAGCTACTGTGAGCACAACATCAACGAGTGTGACTCCAAGCCCTGCCTGAACGGGGGCACGTGTCAGGACAGCTATGGGACGTACAAGTGCACCTGTCCCCAGGGATACACTGGGCTCAACTGCCAG
Seq A exon
GTAGTGAGAAGATTCCAGGGGTCCCTGTGTGCAGGGATGGGGCTTCATCCTACAGAAGCTTCTCTGGGCCTGACCTCCTCCCTTGCTTTCCCTGCACAG
Seq C2 exon
AACTTGGTGCGCTGGTGTGACTCCTCACCCTGCAAAAACGGGGGCAAGTGCTGGCAGACCAACAACCTGTACCGCTGCGAGTGCAACAGCGGCTGGACGGGGCTCTACTGTGATGTCCCCAGCGTCTCCTGCGAGGTGGCTGCAAAGCAGCAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000002375:ENSGALT00000003754:18
Average complexity
IR
Mappability confidence:
NA
Protein Impact
Alternative protein isoforms
No structure available
Features
Disorder rate (Iupred):
C1=0.000 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF0000822=EGF=PD(87.1=39.7),PF0000822=EGF=WD(100=45.6)
A:
NA
C2:
PF0000822=EGF=WD(100=59.6)
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:
GCAGCTACTGTGAGCACAACA
R:
CGTTTTTGCAGGGTGAGGAGT
Band lengths:
168-267
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]