GgaINT0125608 @ galGal3
Intron Retention
Gene
ENSGALG00000006958 | COL27A1
Description
NA
Coordinates
chr17:5421383-5421891:+
Coord C1 exon
chr17:5421383-5421448
Coord A exon
chr17:5421449-5421722
Coord C2 exon
chr17:5421723-5421891
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:ENSGALT00000011272:65
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(3.0=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]