GgaINT0125608 @ galGal4
Intron Retention
Description
Uncharacterized protein [Source:UniProtKB/TrEMBL;Acc:F1NHH4]
Coordinates
chr17:4783221-4783729:+
Coord C1 exon
chr17:4783221-4783286
Coord A exon
chr17:4783287-4783560
Coord C2 exon
chr17:4783561-4783729
Length
274 bp
Sequences
Splice sites
5' ss Seq
GAGGTACTG
5' ss Score
7.67
3' ss Seq
GTGCCTCCTTTTCACTCCAGGGT
3' ss Score
9.22
Exon sequences
Seq C1 exon
CAACAAGATGGCTTTGGGGCTGCTTTCCGGACACTGGTTGACTCCAACGTGGCACTCAAGACAGAG
Seq A exon
GTACTGACTGGGGTTCTGTCCAACTGTCTGCTCTCTGCTGAGGCTGTAGGCTGGGGGTGGTCACAGCCATGCTTGTTCTTTCTGTCTGCTTGCACTTTCTATACGCAGAGCTTCCATTTGTCTGCTGTTCTTGTGGAGTACCAGGTTAAAGGATGTGATTCTGCTGCATTCCTTGTTTCTGAAGCTCCAAACCTCATGACTTTGCCAGCATTTCAGCAATTCCCCATGCAGACCCTCGATGGTTACAGTACCAGGTGCCTCCTTTTCACTCCAG
Seq C2 exon
GGTTACCAACATCCAGACCTTCTCATGCTGGACCATGGAGGGGAGATCTTTAAGACTCTACACTACCTCAGCAACCTCATTCAGAGCATCAAGAGACCCCTGGGCACCAAGGAAAACCCTGCACGCATCTGCCGAGACCTCATGAACTGTGAACAGAAGATGAAGGATG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000006958:ENSGALT00000011272:57
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.091 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF0139113=Collagen=PD(3.2=9.1)
A:
NA
C2:
PF0141013=COLFI=PU(40.3=47.4)
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:
AACAAGATGGCTTTGGGGCTG
R:
TCCTTCATCTTCTGTTCACAGTTCA
Band lengths:
232-506
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]