GgaINT0125605 @ galGal3
Intron Retention
Gene
ENSGALG00000006958 | COL27A1
Description
NA
Coordinates
chr17:5420408-5420817:+
Coord C1 exon
chr17:5420408-5420425
Coord A exon
chr17:5420426-5420781
Coord C2 exon
chr17:5420782-5420817
Length
356 bp
Sequences
Splice sites
5' ss Seq
AGGGTGAGT
5' ss Score
9.25
3' ss Seq
TGATGCCACTCTGTCTTTAGGGT
3' ss Score
10.1
Exon sequences
Seq C1 exon
GGGCTTCGGGGCCCAAGG
Seq A exon
GTGAGTCTCGCAATCACTTTTTCTGACTAATAACTCTTCTTTAAATAAAACGGTTACTTCTAGCAGATATAAAGCTGGAGGGGAGGTGACTGTTCATACAGAGAACGTGATGCTTAAAGAACTAAGGGCTGGGAGCAAGAGATACAGCAGGACTGAACCAGGTGCCGAGAGATGCACCCAGAGGTGGGAGATGGAGGAAACAGGGCAGTCTTCTGAAGTGACTGGGGGGAGGATGTTATAAGACACCAAAAATGGGGAGAATTTCGGCAGGGAGCAGACCCAGTTCTGGTGACAGCCACAAGAAGTGGAAATACAAACTGAAAACATTTCACTGACTGATGCCACTCTGTCTTTAG
Seq C2 exon
GGTCCTCCAGGCCCACGAGGACAGCCTGGCCCTCCG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000006958:ENSGALT00000011272:62
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=1.000 A=NA C2=1.000
Domain overlap (PFAM):
C1:
PF0139113=Collagen=FE(7.6=100)
A:
NA
C2:
PF0139113=Collagen=FE(16.7=100)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Other assemblies
Conservation
Rat
(rn6)
No conservation detected
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
No suggested primer sequences
R:
No suggested primer sequences
Band lengths:
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]