GgaINT0120020 @ galGal3
Intron Retention
Gene
ENSGALG00000016144 | F1NY88_CHICK
Description
NA
Coordinates
chr1:112396442-112397793:-
Coord C1 exon
chr1:112397750-112397793
Coord A exon
chr1:112396617-112397749
Coord C2 exon
chr1:112396442-112396616
Length
1133 bp
Sequences
Splice sites
5' ss Seq
TAGGTAAGC
5' ss Score
8.89
3' ss Seq
GTGTATGCCTGGCTTCTCAGAGT
3' ss Score
6.57
Exon sequences
Seq C1 exon
TGATTACTGTGCATCAGGAAATGTGGTTTCTCTGCGCTGCATAG
Seq A exon
GTAAGCGTATGTTTCTCAGACTTTTGCTTGTTGATGCCTTGAAGCACTCTGTCTGTAAATCCTTTTGAATCTGCATGANNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNACAAGGAGGATGTTAGGTCCCCAGCTCTGTCTTTATTGCTACAAGTTCCTTTAAACAGCGTGTCCCATAGTGAGCTCTGTAGTCACTGCTGTGCAATGTGGACGGAAGTCTTTAGTGCACTGGCTGACACATGGCCATCAGGTGGTCATCACTGTTCCTCACCACAGTGTGGTGACCCTTCAGCGTTGCCTATCCTCTTGCACAGTGGTGTGTGTCTGCATGGCTCACCAAAGACACTCAAAGTCCAGCGTTCAAGGGTGTAACAAACCACCCTCTTACAGTTCACTTCCGAAGTGATGAACTGTGTGCCACAGCTACCAGTGAGGGAGGGCAGCGTGAAGGGTTCCTGGGCTGCAGGAGCCTTGGTCAACCCTGTCCCCGTGAATCTGAGCACCATAGAGCAATGGCTGGGCTGTGGCGTCAACCCACAGCAGTGCGGTGGATGCGGTCCGTGCTCCCTTTCTATTGAGCTTTAGTGAAGCCTGGGATGAAGAAACCGCCTTTGAGACCAGCTCTCTCTAATGCATGTCTGTGTATGCCTGGCTTCTCAG
Seq C2 exon
AGTGCGGCCTGCCCACTAAAAGCACAGCTGTCATGAGCAGGATCGTGGGTGGCAGCATGGCGTCGCTGGGGCAGTGGCCGTGGCAGGTGAGCCTCCATGTGCAGGACACCCACGTCTGTGGAGGCTCCATCATCACCCGCGAGTGGCTGGTGACGGCGGCCCACTGTGTGGAGGG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000016144:ENSGALT00000026003:7
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:
PF154941=SRCR_2=FE(15.5=100)
A:
NA
C2:
PF154941=SRCR_2=PD(5.2=8.5),PF0008921=Trypsin=PU(19.2=74.6)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Other assemblies
Conservation
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
CTGTGCATCAGGAAATGTGGT
R:
ACTCGCGGGTGATGATGGAG
Band lengths:
182-1315
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]